NZ738289B2 - Aml antigens and uses thereof - Google Patents
Aml antigens and uses thereof Download PDFInfo
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- NZ738289B2 NZ738289B2 NZ738289A NZ73828916A NZ738289B2 NZ 738289 B2 NZ738289 B2 NZ 738289B2 NZ 738289 A NZ738289 A NZ 738289A NZ 73828916 A NZ73828916 A NZ 73828916A NZ 738289 B2 NZ738289 B2 NZ 738289B2
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- amino acid
- cells
- aml
- acid residues
- peptide
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Classifications
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- A—HUMAN NECESSITIES
- A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
- A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
- A61K38/00—Medicinal preparations containing peptides
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07K—PEPTIDES
- C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
- C07K14/435—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07K—PEPTIDES
- C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
- C07K14/435—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans
- C07K14/705—Receptors; Cell surface antigens; Cell surface determinants
- C07K14/70596—Molecules with a "CD"-designation not provided for elsewhere
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07K—PEPTIDES
- C07K16/00—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies
- C07K16/18—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans
- C07K16/28—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans against receptors, cell surface antigens or cell surface determinants
- C07K16/2896—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans against receptors, cell surface antigens or cell surface determinants against molecules with a "CD"-designation, not provided for elsewhere
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07K—PEPTIDES
- C07K2317/00—Immunoglobulins specific features
- C07K2317/70—Immunoglobulins specific features characterized by effect upon binding to a cell or to an antigen
- C07K2317/73—Inducing cell death, e.g. apoptosis, necrosis or inhibition of cell proliferation
- C07K2317/732—Antibody-dependent cellular cytotoxicity [ADCC]
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07K—PEPTIDES
- C07K2317/00—Immunoglobulins specific features
- C07K2317/70—Immunoglobulins specific features characterized by effect upon binding to a cell or to an antigen
- C07K2317/73—Inducing cell death, e.g. apoptosis, necrosis or inhibition of cell proliferation
- C07K2317/734—Complement-dependent cytotoxicity [CDC]
-
- G—PHYSICS
- G01—MEASURING; TESTING
- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N2333/00—Assays involving biological materials from specific organisms or of a specific nature
- G01N2333/435—Assays involving biological materials from specific organisms or of a specific nature from animals; from humans
- G01N2333/705—Assays involving receptors, cell surface antigens or cell surface determinants
- G01N2333/70596—Molecules with a "CD"-designation not provided for elsewhere in G01N2333/705
-
- G—PHYSICS
- G01—MEASURING; TESTING
- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
- G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
- G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
- G01N33/53—Immunoassay; Biospecific binding assay; Materials therefor
- G01N33/574—Immunoassay; Biospecific binding assay; Materials therefor for cancer
- G01N33/57407—Specifically defined cancers
- G01N33/57426—Specifically defined cancers leukemia
Abstract
The present invention provides novel compounds comprising an antigen of AML cells, and uses thereof.
Description
(12) Granted patent specificaon (19) NZ (11) 738289 (13) B2
(47) Publicaon date: 2021.12.24
(54) AML ANTIGENS AND USES THEREOF
(51) aonal Patent Classificaon(s):
C07K 14/435
(22) Filing date: (73) Owner(s):
2016.06.24 KLING BIOTHERAPEUTICS B.V.
(23) te specificaon filing date: (74) Contact:
2016.06.24 AJ PARK
(30) Internaonal Priority Data: (72) Inventor(s):
EP 15173662.6 2015.06.24 SPITS, Hergen
EP 16150621.7 2016.01.08 GILLISSEN, Marijn Aletta
KEDDE, Martijn
(86) Internaonal Applicaon No.: HAZENBERG, Mette Deborah
VAN HELDEN, Paula Maria Wilhelmina
POS, Wouter
(87) Internaonal Publicaon :
WO/2016/209079
(57) Abstract:
The present invenon provides novel compounds sing an angen of AML cells, and uses
thereof.
NZ 738289 B2
Title: AML antigens and uses thereof
The invention relates to the fields of biology, immunology and medicine.
Acute myeloid leukemia (AML) is a high risk malignancy with five year survival
rates of 40 - 50% in patients younger than 60 years of age. For patients over 65 years of
age outcomes are even worse, with only less than 20% of ts obtaining durable
remissions. Allogeneic stem cell transplantation is frequently applied in the treatment of
acute leukemia. It was initially designed to rescue patients from otherwise lethal
myeloablative chemotherapy but was subsequently found to be complicated by
alloreactive immune response related complications (graft versus host disease; GvHD).
T cell ion of grafts before reinfusion averted GvHD but the observation that T cell
depleted graft recipients, r to monozygotic twin donor transplant recipients,
experienced much higher rates of relapse made it increasingly clear that the success of
allogeneic SCT is dependent on the induction of an anti-leukemic immune response
(graft versus ia (GvL)). This has led to the development of strategies to apply
allogeneic stem cell transplantation without myeloablative conditioning (reduced
intensity stem cell transplantation, RIST), to reduce cytotoxicity and to allow allogeneic
SCT in a larger group of patients including older patients and heavily pretreated
ts. Preparative regimens in RIST are aimed at decimating the recipients adaptive
immune system to prevent graft rejection, t complete ablation of the recipients
bone marrow thereby reducing early SCT toxicity. Following transplantation, donor stem
cells gradually replace stem cells of the ent and full donor ism is usually
achieved within three months after SCT. Although allogeneic SCT is curative in
significant s of patients, and much progress has been made in the supportive
care of SCT recipients, still 15-30% of patients die as a result of lantation related
complications such as GvHD and infectious cations (arising as a result of slow
immune recovery following SCT or as a complication of immunosuppressive therapy of
GvHD). Hence, although SCT is potentially curative when potent graft versus leukemia
(GvL) responses are induced, its eutic success is limited by ost immune
responses leading to GvHD which causes high ity and mortality. In view of the
high GvHD incidence after allogeneic stem cell transplantation, ing in death of 15-
% of the patients, as well as the fact that a suitable donor is not always available for a
given patient, alternative treatment approaches would be advantageous. International
patent application provides patient-derived, AML-specific, human
antibodies that are able to bind intact AML cells. Importantly, the antibodies are derived
from human AML patients that received an allogeneic SCT and are in complete
remission, demonstrating that the antibodies are effective against AML. The use of
antibodies as disclosed in in AML therapy is, therefore, preferred.
Instead of passive immunization with antibodies, immunotherapy would also be
an attractive approach. With immunotherapy, a patient suffering from a disease is
provided with a disease-specific antigen, which induces and/or enhances an immune
response in said patient against the e. Prophylactic or semi-prophylactic
applications, wherein an individual is provided with a disease-specific antigen in order to
elicit an immune response before onset or before (further) progression of disease, would
also be attractive. For instance, immunization with an AML-specific target molecule in
order to elicit an immune response against AML would be particularly attractive for
patients that received an allogeneic hematopoietic stem cell lantation. Another
group for which immunization with such target would be tive is patients suffering
from intermediate to high risk ysplastic syndrome (MDS). Such patients have an
intermediate to high risk to develop AML, so that it is advantageous to elicit an anti-
AML immune response beforehand . The risk of an MDS patient to develop AML is
typically ished ing to the international prognostic scoring system (IPSS; see
for instance Malcovati et al. 2013). Non-limiting examples of ediate to high risk
MDS ts are MDS-RAEB-1 and MDS-RAEB-2 patients.
therapy and vaccinations that are specifically ed against AML are
currently not available, due to the lack of suitable AML-specific antigens.
AML-specific antigens would also be particularly suitable for determining
whether a sample of a patient contains antibodies and/or immune cells able to
specifically bind AML cells. Such ation would for instance be valuable for AML
diagnosis or for monitoring AML therapy.
It is an object of the t invention to provide novel peptides and compounds
comprising an antigen of AML cells; and/or to at least provide the public with a useful
choice. Preferably, peptides and compounds are provided that are able to detect and/or
elicit an immune response, preferably a specific immune se, against
myeloproliferative disorders, more preferably AML.
Summary of the invention
In a first aspect the present invention provides an isolated, recombinant or
purified CD43 peptide with a length of at most 100 amino acid residues, wherein said
peptide comprises an amino acid sequence
GTITTNSPETSSRTSGAPVTTAASSLETSRGTS, and n said peptide has an acute
myeloid leukemia (AML)-specific sialylation pattern or a myelodysplastic syndrome
(MDS)-specific sialylation pattern.
In a second aspect the present invention provides a compound, comprising the
CD43 peptide according to the first .
In a third aspect the present invention provides an isolated, synthetic or
recombinant nucleic acid molecule encoding the CD43 peptide according to the first
aspect.
In a fourth aspect the present ion provides a vector comprising the nucleic
acid molecule according to the third aspect.
In a fifth aspect the present ion provides a use of the CD43 peptide
according to the first aspect, the nd according to the second aspect, the nucleic
acid molecule according to the third aspect, or the vector ing to the fourth aspect,
for inducing, isolating, producing, binding, detecting and/or ing an immune cell
and/or an antibody, or a functional part thereof that is capable of binding the same
n as said antibody, directed against said CD43 peptide, wherein said use is not
practiced on a living human being.
In a sixth aspect the present invention provides an in vitro use of the CD43
peptide according to the first aspect, the compound according to the second aspect, the
nucleic acid molecule according to the third aspect, or the vector according to the fourth
aspect, for inducing, isolating, producing, g, detecting and/or obtaining an immune
cell and/or an dy, or a functional part f that is capable of binding the same
antigen as said antibody, directed against said CD43 peptide.
In a seventh aspect the present invention provides an isolated, recombinant or
purified antibody, or a onal part thereof that is capable of binding the same
antigen as said antibody, that es with an antibody comprising a heavy chain
CDR1 sequence SPNWWT and a heavy chain CDR2 sequence EIYYGGRVSYNSALRS
and a heavy chain CDR3 sequence AGQKNIGCGYSSCFISWFDT and a light chain
CDR1 sequence KSSQTILQRSNHLNYLA and a light chain CDR2 sequence WASTRES
and a light chain CDR3 sequence PQT for binding to the CD43 peptide
according to claim 1 at the GTITTNSPETSSRTSGAPVTTAASSLETSRGTS sequence.
In an eighth aspect the present invention provides an immunogenic composition
comprising the CD43 peptide according to the first aspect, or the compound according to
the second aspect, or the nucleic acid molecule ing to the third aspect, or the vector
ing to the fourth aspect.
In a ninth aspect the present ion provides a diagnostic kit comprising the
CD43 peptide according to the first aspect or the compound according to the second
aspect, and means for detecting an antibody or immune cell.
In a tenth aspect the present ion provides a use of the CD43 peptide
according to the first aspect, or the compound ing to the second , or the
nucleic acid molecule according to the third aspect, or the vector according to the fourth
aspect, in the preparation of a medicament or prophylactic agent for ng or
preventing MDS, AML or CML in a patient in need thereof.
In an eleventh aspect the present ion provides a use of the CD43 peptide
according to the first aspect, or a compound according to the second aspect, or the nucleic
acid molecule according to the third aspect, or the vector according to the fourth aspect,
in the preparation of a ment for treating of a myeloproliferative or
lymphoproliferative disorder.
In a twelfth aspect the present invention provides a use of the CD43 peptide
according to the first aspect, or the compound according to the second aspect, in the
preparation of a diagnostic agent.
In a thirteen aspect the present invention provides a use of a CD43 peptide
according to the first aspect, or a compound according to the second aspect, in the
preparation of a diagnostic agent for diagnosing AML.
In a fourteenth aspect the present invention es an in vitro method for
determining whether an individual has AML, the method comprising contacting the
CD43 peptide according to the first aspect, or the nd according to the second
, with antibodies and/or immune cells of said individual and determining whether
said CD43 peptide or said compound is bound by at least one of said antibodies and/or
immune cells of said individual.
In a nth aspect the present invention provides a method for producing an
immune cell and/or antibody that is able to specifically bind lymphoproliferative cells
and/or myeloproliferative cells, the method comprising immunizing a non-human
animal with the CD43 peptide according to the first aspect, or with the compound
according to the second aspect, or with the nucleic acid molecule according to the third
aspect or with the vector according to the fourth .
In a sixteenth aspect the present invention provides an isolated host cell
comprising the nucleic acid molecule according to the third aspect, or the vector
according to the fourth aspect.
Detailed description
Described herein is an isolated, inant or purified CD43 peptide with a
length of at most 100 amino acid residues, wherein said peptide comprises an amino acid
sequence with a length of at least 3 amino acid es and at most 51 amino acid
residues that is cal to a ce located between CD43 amino acid positions 133
and 184 as depicted Figure 13. Said peptide preferably comprises an amino acid
sequence with a length of at least 3 amino acid residues and at most 51 amino acid
residues that is identical to a sequence located between CD43 amino acid positions 133
and 183 as depicted Figure 13. In some embodiments, the length of said amino acid
sequence is at least 5 amino acid residues, or at least 8 amino acid residues, or at least
amino acid residues, or at least 11 amino acid residues, or at least 12 amino acid
residues, or at least 13 amino acid residues, or at least 14 amino acid residues, or at
least 15 amino acid residues, or at least 20 amino acid residues, or at least 25 amino acid
residues, or at least 30 amino acid residues, or at least 35 amino acid residues, or at
least 40 amino acid residues, or at least 45 amino acid residues, or at least 50 amino acid
es, or 51 amino acid residues.
Some embodiments describe an isolated, recombinant or purified CD43 peptide
with a length of at most 100 amino acid residues, wherein said peptide comprises an
amino acid sequence with a length of at least 3 amino acid residues and at most 33
amino acid residues that is identical to a sequence d between CD43 amino acid
positions 133 and 165 as depicted Figure 13. In some embodiments, the length of said
amino acid sequence is at least 5 amino acid residues, or at least 8 amino acid residues,
or at least 10 amino acid residues, or at least 11 amino acid residues, or at least 12
amino acid residues, or at least 13 amino acid residues, or at least 14 amino acid
residues, or at least 15 amino acid residues, or at least 20 amino acid residues, or at
least 25 amino acid es, or at least 30 amino acid residues, or 33 amino acid
residues.
Some embodiments describe an isolated, recombinant or purified CD43 peptide
with a length of at most 100 amino acid residues, wherein said peptide comprises an
amino acid sequence with a length of at least 3 amino acid es and at most 15
amino acid residues that is identical to a sequence located n CD43 amino acid
positions 133 and 147 as depicted Figure 13. In some embodiments, the length of said
amino acid sequence is at least 5 amino acid residues, or at least 8 amino acid residues,
or at least 10 amino acid residues, or at least 11 amino acid residues, or at least 12
amino acid residues, or at least 13 amino acid residues, or at least 14 amino acid
residues, or 15 amino acid residues.
The present inventors have surprisingly discovered that a specific immune
response against AML can be detected and/or ed using a CD43 peptide described
herein. This finding was unexpected, because CD43 is present on the surface of most
kinds of (non-malignant) ytes, as well as on many non-hematopoietic tumor cells
like for instance human colon cancer cells, human uterine cervix cancer cells, human
lung cancer cells and human breast arcinoma cells. In view of this nt
ce of CD43, before the present invention CD43 was not ered an appropriate
compound for providing AML icity. Yet, as shown in the es, the AML-
specific antibody AT14-013 binds a CD43 peptide described herein. Moreover, antibody
AT14-013 binds to various different CD43+ AML cells (figure 2 and 3), but not to CD43+
PBMCs, activated and non-activated T cells, B cells, non-activated monocytes,
thymocytes, ALL cells, colon carcinoma cells, non-malignant colon cells, Jurkat cells,
Ramos cells or normal bone marrow cells (shown in figure 5). Hence, antibody AT14-013,
that is specifically directed against a CD43 peptide as defined in the claims, binds
CD43+ AML cells, s it does not bind various other kinds of CD43+ cells.
Interestingly, antibody AT14-013 does not bind different kinds of non-AML, CD43+
hematopoietic stem cells or more mature cells of the lymphoid lineages. It is also shown
in the Examples that antibody AT14-013 is able to bind fetal hematopoietic stem cells,
from which it is concluded that the CD43 epitope that is recognized by AT14-013 is an
oncofetal e. Antibody AT14-013 is also able to bind autologous leukemic stem cells.
Moreover, antibody 13 is able to counteract AML growth in vivo. The present
disclosure thus describes a CD43 antigen of AML cells.
CD43, which is also referred to as leukosialin, sialophorin, oglycoprotein,
leukocyte sialoglycoprotein or gp115, is a glycosylated mucin-like type I transmembrane
protein that is present on the surface of most poietic cells, except erythrocytes.
CD43, encoded by one exon, plays a role in cell-cell interactions. It has a highly
glycosylated extracellular region of 235 amino acids. Two CD43 glycoforms have been
described, wherein one glycoform mainly contains tetrasaccharides and the other
glycoform possesses mainly branched hexasaccharides. Both glycoforms can be expressed
on the surface of one cell. CD43 is for instance bed in Shelley et al. (1989) and
Schmid et al. (1992). The sequence of human CD43, depicted in Figure 13 is t in
the Genbank CCDS se under accession No. CCDS10650.1.
As used herein, the term “CD43 peptide according to the invention” or “CD43
peptide bed herein” refers to a chain of amino acids with a length of at most 100
amino acid residues, wherein said amino acid chain comprises a sequence with a length
of at least 3 amino acids residues and at most 51 amino acid residues that is identical to
a sequence d between amino acid ons 133 and 184 of a human CD43 protein
as depicted in Figure 13, or wherein said amino acid chain comprises a sequence with a
length of at least 3 amino acids residues and at most 51 amino acid residues that is
identical to a sequence located between amino acid positions 133 and 183 of a human
CD43 protein as depicted in Figure 13, or wherein said amino acid chain comprises a
sequence with a length of at least 3 amino acids residues and at most 33 amino acid
residues that is identical to a sequence located between amino acid ons 133 and 165
of a human CD43 protein as depicted in Figure 13, or wherein said amino acid chain
comprises a sequence with a length of at least 3 amino acids residues and at most 15
amino acid residues that is identical to a sequence d between amino acid positions
133 and 147 of a human CD43 protein as depicted in Figure 13.
As explained in detail in the examples, the present disclosure describes the
insight that the amino acid sequence between positions 133 and 184 of a human CD43
n comprises an AML epitope that is specifically bound by antibody AT14-013. Said
AML epitope comprises one or more amino acid residues that are present n amino
acid sequence positions 133 and 165 as depicted in Figure 13. Said AML epitope, which
is present on different AML cell lines and AML blasts, and which is not present or
exposed on many other CD43+ cells, is therefore ularly suitable for eliciting or
detecting an AML-specific immune response. In some embodiments, a CD43 peptide
described herein comprises the amino acid sequence GTITTNSPETSSRTS. In some
embodiments, a CD43 e described herein comprises the amino acid sequence
GTITTNSPETSSRTSGAPVTTAASSLETSRGTS.
In some embodiments, a CD43 peptide described herein comprises the amino acid
sequence GTITTNSPETSSRTSGAPVTTAASSLETSRGTSGPPLTMATVS LETSKGTSG.
In some embodiments, a CD43 peptide described herein has a length of at most 90
amino acid residues. In some embodiments, a CD43 peptide described herein has a
length of at most 85 amino acid residues or at most 75 amino acid es or at most 70
amino acid residues. In some embodiments, a CD43 peptide described herein has a
length of at most 65 amino acid residues or at most 60 amino acid residues or at most 55
amino acid residues or at most 50 amino acid residues or at most 45 amino acid es
or at most 40 amino acid residues or at most 35 amino acid residues. In some
ments, said CD43 peptide bed herein has a length of at most 52 amino acid
residues, or at most 51 amino acid residues, or at most 33 amino acid residues, or at
most 30 amino acid residues or at most 25 amino acid residues or at most 20 amino acid
residues or at most 15 amino acid residues. In some embodiments, a CD43 peptide
described herein has a length of at least 5 amino acid residues, or at least 8 amino acid
residues, or at least 10 amino acid residues, or at least 11 amino acid residues, or at
least 12 amino acid residues, or at least 13 amino acid residues, or at least 14 amino acid
residues, or at least 15 amino acid residues.
In some embodiments, said CD43 e described herein has a length of at least
52 amino acid es or at least 51 amino acid residues, wherein said peptide
comprises an amino acid sequence that is identical to a sequence located n amino
acid positions 133 and 184 of a human CD43 protein as depicted in Figure 13. In some
embodiments, said CD43 peptide described herein has a length of at least 51 amino acid
residues, wherein said amino acid es are identical to the amino acids between
amino acid positions 133 - 183 of a human CD43 protein as depicted in Figure 13.
In some embodiments, a CD43 peptide described herein has a length of at least 33
amino acid residues and comprises an amino acid sequence that is cal to the
sequence located between amino acid positions 133 and 165 of the human CD43 protein
as depicted in Figure 13.
In some embodiments, a CD43 peptide described herein has a length of at least 15
amino acid residues and comprises an amino acid sequence that is identical to the
sequence located between amino acid positions 133 and 147 of the human CD43 protein
as depicted in Figure 13.
In some ments, a CD43 peptide described herein consists of the sequence
GTITTNSPETSSRTSGAPVTTAASSLETSRGTSGPPLTMATVSLETSK GTSG.
In some embodiments, a CD43 peptide described herein ts of the sequence
GTITTNSPETSSRTSGAPVTTAASSLETSRGTS.
In some embodiments, a CD43 peptide described herein consists of the sequence
GTITTNSPETSSRTS.
As used herein, the expressions “sequence located between CD43 amino acid
positions X and Y as depicted in Figure 13”, “sequence located between amino acid
positions X and Y of the human CD43 protein as ed in Figure 13”, “wherein said
amino acid residues are identical to the amino acids between amino acid positions X - Y
of a human CD43 protein as depicted in Figure 13” and “an amino acid sequence that is
identical to the sequence located between amino acid positions X and Y of the human
CD43 protein as depicted in Figure 13” encompass sequences that are located between
the recited positions and that include the amino acid(s) of position X and/or Y. In
addition, the terms embrace sequences that are located between the recited positions
and that do not contain the amino acid(s) of positions X and/or Y. In other words, in some
ments the amino ) of the recited positions X and/or Y are t in a CD43
peptide described herein, whereas in other embodiments the amino acids of the d
positions X and/or Y are absent.
Besides the recited amino acid sequences that are identical to a sequence located
between amino acid positions 133 and 184, or to a sequence located between amino acid
positions 133 and 183, or to a sequence located between amino acid positions 133 and
165, or to a sequence located n amino acid positions 133 and 147, of a human
CD43 protein as depicted in Figure 13, a CD43 peptide described herein may further
comprise other amino acid residues. In some embodiments, said other amino acid
residues are not derived from a CD43 sequence. Said other amino acid residues, which
are also referred to herein as “non-CD43 amino acid residues” may for instance function
to enhance stability, and/or to e immunogenicity, and/or to couple the CD43
peptide to another moiety such as for instance a molecular scaffold or carrier. Nonlimiting
examples of such scaffold or carriers are keyhole limpet anin and CLIPS
scaffolds (such as for instance bis(bromomethyl)benzene, tris(bromomethyl)benzene and
tetra(bromomethyl)benzene, described in ). Some embodiments
therefore describe an ed, recombinant or ed peptide with a length of at most
100 amino acid es, wherein said peptide comprises an amino acid ce with a
length of at least 3 amino acid residues and at most 52 amino acid residues, or at most
51 amino acid residues, that is identical to a sequence located n CD43 amino acid
positions 133 and 184 as depicted Figure 13, and wherein said peptide also comprises at
least 1, or at least 2, or at least 3, or at least 4, or at least 5, or at least 10, or at least 20,
or at least 30, or at least 40, or at least 50, or at least 60, or at least 70, or at least 80,
non-CD43 amino acid residues, wherein the full length sequence of said non-CD43 amino
acid residues is not present in human CD43 as depicted in Figure 13.
Some ments describe an isolated, recombinant or purified peptide with a
length of at most 100 amino acid residues, wherein said peptide comprises an amino acid
sequence with a length of at least 3 amino acid residues and at most 51 amino acid
residues that is identical to a sequence located between CD43 amino acid positions 133
and 183 as depicted Figure 13, and wherein said peptide also comprises at least 1, or at
least 2, or at least 3, or at least 4, or at least 5, or at least 10, or at least 20, or at least
30, or at least 40, or at least 50, or at least 60, or at least 70, or at least 80, non-CD43
amino acid residues, wherein the full length sequence of said non-CD43 amino acid
residues is not t in human CD43 as depicted in Figure 13. In some embodiments,
the length of said amino acid ce is at least 5 amino acid residues, or at least 8
amino acid residues, or at least 10 amino acid es, or at least 11 amino acid
residues, or at least 12 amino acid residues, or at least 13 amino acid residues, or at
least 14 amino acid residues, or at least 15 amino acid residues, or at least 20 amino acid
residues, or at least 25 amino acid residues or at least 30 amino acid residues or at least
amino acid residues or at least 40 amino acid residues, or at least 45 amino acid
residues, or at least 50 amino acid residues, or 51 amino acid residues.
Some embodiments describe an isolated, recombinant or purified peptide with a
length of at most 100 amino acid residues, wherein said peptide comprises an amino acid
sequence with a length of at least 3 amino acid residues and at most 33 amino acid
residues that is identical to a sequence located between CD43 amino acid positions 133
and 165 as depicted Figure 13, and wherein said peptide also comprises at least 1, or at
least 2, or at least 3, or at least 4, or at least 5, or at least 10, or at least 20, or at least
, or at least 40, or at least 50, or at least 60, or at least 70, or at least 80, non-CD43
amino acid residues, wherein the full length sequence of said non-CD43 amino acid
residues is not present in human CD43 as depicted in Figure 13. In some embodiments,
the length of said amino acid sequence is at least 5 amino acid residues, or at least 8
amino acid residues, or at least 10 amino acid residues, or at least 11 amino acid
residues, or at least 12 amino acid residues, or at least 13 amino acid residues, or at
least 14 amino acid residues, or at least 15 amino acid es, or at least 20 amino acid
residues, or at least 25 amino acid residues or at least 30 amino acid residues or 33
amino acid residues.
Some ments describe an isolated, inant or purified peptide with a
length of at most 100 amino acid residues, wherein said peptide comprises an amino acid
sequence with a length of at least 3 amino acid residues and at most 15 amino acid
residues that is identical to a sequence located between CD43 amino acid positions 133
and 147 as depicted Figure 13, and wherein said peptide also comprises at least 1, or at
least 2, or at least 3, or at least 4, or at least 5, or at least 10, or at least 20, or at least
, or at least 40, or at least 50, or at least 60, or at least 70, or at least 80, non-CD43
amino acid es, wherein the full length ce of said non-CD43 amino acid
es is not t in human CD43 as depicted in Figure 13. In some embodiments,
the length of said amino acid sequence is at least 5 amino acid residues, or at least 8
amino acid residues, or at least 10 amino acid residues, or at least 11 amino acid
residues, or at least 12 amino acid residues, or at least 13 amino acid residues, or at
least 14 amino acid residues, or 15 amino acid residues.
The above mentioned es are also ed by the term “CD43 peptide
according to the present invention” or the term “CD43 peptide described herein”.
Some embodiments describe a compound comprising a CD43 peptide described
. Some embodiments describe an immunogenic compound comprising a CD43
e described herein. In some embodiments said CD43 peptide is coupled to a
pharmaceutically acceptable r or scaffold.
In some embodiments, a CD43 e described herein is a truncated CD43
molecule with a length of at most 100 amino acid residues. Preferably, said truncated
CD43 molecule is devoid of the intracellular region of a wild type human CD43. In
preferred embodiments, said truncated CD43 molecule is devoid of both the intracellular
region and the transmembrane region of a wild type human CD43. In further preferred
embodiments, said CD43 peptide described herein is a truncated CD43 extracellular
region with a length of at most 90 amino acid residues, or at most 80 amino acid
residues, or at most 70 amino acid residues, or at most 60 amino acid es, or at
most 52 amino acid residues, or at most 51 amino acid residues, or at most 50 amino acid
residues, or at most 45 amino acid es, or at most 40 amino acid residues, or at
most 35 amino acid es, or at most 33 amino acid residues, or at most 30 amino acid
residues, or at most 25 amino acid residues, or at most 20 amino acid residues, that
comprises an amino acid sequence with a length of at least 3 amino acid residues and at
most 52 amino acid residues or at most 51 amino acid residues that is identical to a
sequence located between CD43 amino acid positions 133 and 184 as depicted Figure 13.
In some embodiments, the length of said amino acid ce is at least 5 amino acid
residues, or at least 8 amino acid residues, or at least 10 amino acid residues, or at least
11 amino acid residues, or at least 12 amino acid residues, or at least 13 amino acid
residues, or at least 14 amino acid residues, or at least 15 amino acid residues, or at
least 20 amino acid residues, or at least 25 amino acid residues or at least 30 amino acid
residues or at least 35 amino acid residues or at least 40 amino acid residues, or at least
45 amino acid residues, or at least 50 amino acid residues, or 51 amino acid residues.
In some ments, said CD43 peptide described herein is a truncated CD43
extracellular region with a length of at most 90 amino acid residues, or at most 80 amino
acid residues, or at most 70 amino acid residues, or at most 60 amino acid residues, or at
most 51 amino acid residues, or at most 50 amino acid residues, or at most 45 amino acid
residues, or at most 40 amino acid residues, or at most 35 amino acid residues, or at
most 33 amino acid residues, or at most 30 amino acid residues, or at most 25 amino acid
residues, or at most 20 amino acid residues, that comprises an amino acid sequence with
a length of at least 3 amino acid residues and at most 51 amino acid es that is
identical to a sequence located between CD43 amino acid positions 133 and 183 as
depicted Figure 13. In some embodiments, the length of said amino acid sequence is at
least 5 amino acid residues, or at least 8 amino acid residues, or at least 10 amino acid
residues, or at least 11 amino acid residues, or at least 12 amino acid residues, or at
least 13 amino acid residues, or at least 14 amino acid residues, or at least 15 amino acid
residues, or at least 20 amino acid residues, or at least 25 amino acid residues or at least
30 amino acid residues or at least 35 amino acid residues or at least 40 amino acid
residues, or at least 45 amino acid residues, or at least 50 amino acid residues, or 51
amino acid residues.
In some embodiments, said CD43 peptide described herein is a truncated CD43
extracellular region with a length of at most 90 amino acid residues, or at most 80 amino
acid residues, or at most 70 amino acid residues, or at most 60 amino acid residues, or at
most 51 amino acid residues, or at most 50 amino acid residues, or at most 45 amino acid
es, or at most 40 amino acid residues, or at most 35 amino acid residues, or at
most 33 amino acid residues, or at most 30 amino acid residues, or at most 25 amino acid
residues, or at most 20 amino acid residues, that comprises an amino acid ce with
a length of at least 3 amino acid residues and at most 33 amino acid es that is
identical to a sequence located between CD43 amino acid positions 133 and 165 as
depicted Figure 13. In some embodiments, the length of said amino acid ce is at
least 5 amino acid residues, or at least 8 amino acid residues, or at least 10 amino acid
residues, or at least 11 amino acid residues, or at least 12 amino acid residues, or at
least 13 amino acid residues, or at least 14 amino acid residues, or at least 15 amino acid
es, or at least 20 amino acid residues, or at least 25 amino acid residues or at least
amino acid residues or 33 amino acid residues.
In some embodiments, said CD43 peptide described herein is a truncated CD43
extracellular region with a length of at most 90 amino acid residues, or at most 80 amino
acid residues, or at most 70 amino acid residues, or at most 60 amino acid residues, or at
most 51 amino acid residues, or at most 50 amino acid residues, or at most 45 amino acid
residues, or at most 40 amino acid residues, or at most 35 amino acid residues, or at
most 33 amino acid residues, or at most 30 amino acid es, or at most 25 amino acid
residues, or at most 20 amino acid es, that comprises an amino acid sequence with
a length of at least 3 amino acid residues and at most 15 amino acid residues that is
cal to a sequence located between CD43 amino acid positions 133 and 147 as
depicted Figure 13. In some embodiments, the length of said amino acid sequence is at
least 5 amino acid residues, or at least 8 amino acid residues, or at least 10 amino acid
residues, or at least 11 amino acid es, or at least 12 amino acid residues, or at
least 13 amino acid residues, or at least 14 amino acid residues, or 15 amino acid
residues.
Some embodiments describe a CD43 peptide described herein that is a truncated
CD43 extracellular region with a length of at most 90 amino acid residues, or at most 80
amino acid residues, or at most 70 amino acid residues, or at most 60 amino acid
residues, or at most 52 amino acid es, or at most 51 amino acid es, or at
most 50 amino acid residues, or at most 45 amino acid residues, or at most 40 amino acid
residues, or at most 35 amino acid residues, or at most 33 amino acid residues, or at
most 30 amino acid residues, or at most 25 amino acid residues, or at most 20 amino acid
residues, or at most 15 amino acid residues.
As is known to the skilled person, once an immunogenic sequence has been
provided, it has become possible to alter the sequence to some extent, thereby preferably
optimizing the genicity and/or stability of the resulting immunogen. This is for
instance done by mutagenesis procedures where after the stability and/or
immunogenicity of the resulting nds are preferably tested and an improved AML-
specific antigenic compound is selected. A skilled person is well capable of generating
antigen variants starting from a certain amino acid sequence. For instance, conservative
amino acid tution is applied. es of conservative amino acid substitution
include the substitution of one hydrophobic residue such as isoleucine, valine, leucine or
methionine for another hydrophobic residue, and the substitution of one polar residue for
another polar residue, such as the substitution of arginine for lysine, glutamic acid for
aspartic acid, or glutamine for asparagine. In some ments, a replacement net
analysis is d out, which involves replacement of one or more amino acid residues
by any other amino acid residue, and testing the resulting compounds.
Some embodiments therefore describe an isolated, recombinant or purified CD43
peptide with a length of at most 100 amino acid residues that comprises, or essentially
consists of, an amino acid sequence having a length of at least 3 amino acid es and
at most 52 amino acid residues or at most 51 amino acid residues, that has at least 80%,
more preferably at least 85%, more preferably at least 90%, more preferably at least
95%, more preferably at least 96%, more preferably at least 97%, more preferably at
least 98%, more preferably at least 99% sequence identity with a sequence located
between amino acid ons 133 and 184 of the human CD43 n as depicted in
Figure 13. Some embodiments be an isolated, recombinant or purified CD43
peptide that comprises an amino acid sequence having a length of 51 amino acid
residues, that has at least 80%, more preferably at least 85%, more preferably at least
90%, more preferably at least 95%, more preferably at least 96%, more preferably at
least 97%, more preferably at least 98%, more preferably at least 99% sequence identity
with the sequence located between amino acid positions 133 and 183 of the human CD43
protein as depicted in Figure 13.
Some embodiments describe an ed, recombinant or purified CD43 peptide
with a length of at most 100 amino acid es that comprises, or essentially consists
of, an amino acid sequence having a length of 33 amino acid residues, that has at least
80%, more preferably at least 85%, more preferably at least 90%, more preferably at
least 95%, more preferably at least 96%, more ably at least 97%, more preferably
at least 98%, more preferably at least 99% ce identity with the sequence located
between amino acid positions 133 and 165 of the human CD43 protein as depicted in
Figure 13.
Some embodiments describe an isolated, recombinant or purified CD43 peptide
with a length of at most 100 amino acid residues that comprises, or essentially consists
of, an amino acid sequence having a length of 15 amino acid residues, that has at least
80%, more preferably at least 85%, more preferably at least 90%, more preferably at
least 95%, more preferably at least 96%, more preferably at least 97%, more preferably
at least 98%, more preferably at least 99% sequence ty with the sequence located
between amino acid positions 133 and 147 of the human CD43 n as depicted in
Figure 13.
The term “% ce identity” is defined herein as the percentage of residues in
a candidate amino acid sequence that is identical with the es in a nce
ce after aligning the two sequences and introducing gaps, if necessary, to achieve
the maximum percent identity. s and computer programs for the alignment are
well known in the art. One computer program which may be used or adapted for
purposes of determining whether a candidate sequence falls within this definition is
"Align 2", authored by Genentech, Inc., which was filed with user documentation in the
United States Copyright Office, Washington, D.C. 20559, on Dec. 10, 1991.
An isolated, recombinant or purified CD43 peptide as defined herein is also
referred to as “a CD43 peptide ing to the invention” or “a CD43 antigen according
to the invention” or a “CD43 peptide described herein”. In some embodiments, the amino
acid residues of a CD43 peptide described herein are chosen from the 20 amino acid
residues that lly occur in eukaryotes, which are also referred to as “standard” or
“canonical” amino acids. Alternatively, non-natural amino acid residues are included in a
CD43 peptide described herein, such as for instance D-amino acids (i.e. D-stereoisomers
of amino acids) or N-methyl amino acids.
A CD43 peptide described herein is preferably glycosylated. Such peptide more
accurately reflects the natural AML antigen in vivo, in view of the fact that the l
CD43 n on the cell surface is heavily glycosylated. In some preferred embodiments,
said CD43 peptide described herein comprises sialic acid residues (also called
α-N-acetylneuraminic acid). In vivo, human CD43 is highly sialylated. Treatment with
neuraminidase s sialic acid residues from the CD43 glycoprotein. In some
ments, ore, a CD43 peptide described herein is neuraminidase-sensitive.
Some ments relate to a CD43 peptide described herein that has been oncosialylated
, meaning that said CD43 peptide has a tumor-specific sialylation pattern. As
used herein, a CD43 peptide described herein with a “tumor-specific sialylation pattern”
encompasses a CD43 peptide described herein with a sialylation pattern that has been
produced by a tumor cell, or a CD43 peptide described herein with a sialylation pattern
that is identical to, or at least 90% or at least 95% or at least 97% similar to, a
sialylation pattern as produced by a tumor cell.
Some ments describe a CD43 peptide described herein that has been
produced by an AML cell. Some ments describe a CD43 peptide described herein
that has been produced by a cell of a cell line derived from an AML cell. Such CD43
peptide will have a glycosylation pattern that very closely resembles the glycosylation
pattern of AML cells in an AML patient in vivo. In some embodiments, said CD43
peptide described herein has been produced by a THP-1 cell. In some embodiments, said
CD43 peptide bed herein has been produced by a Kasumi 3 cell, or by an HL60 cell,
or by a KG1a cell, or by an SH2 cell, or by a MonoMac6 cell, or by a Molm13 cell, or by a
CML K562 cell.
As used , a CD43 e described herein having a glycosylation pattern
that is similar or identical to a glycosylation pattern that results from expression of said
CD43 peptide in an AML cell, for instance in an AML blast or in an AML cell line, is
referred to as a CD43 peptide described herein having an AML-specific glycosylation
pattern. Some embodiments thus be a CD43 peptide described herein that has an
AML-specific glycosylation pattern.
Some embodiments describe a CD43 peptide described herein that has been
produced by an MDS cell. Some embodiments describe a CD43 e described herein
that has been produced by a cell of a cell line derived from an MDS cell. Such CD43
peptide will have a glycosylation pattern that very closely les the glycosylation
pattern of MDS cells in an MDS patient in vivo.
Some ments describe CD43 peptides described herein that have an MDS-
specific glycosylation pattern. These es have a glycosylation pattern that is similar
or identical to a glycosylation pattern that results from expression of a CD43 peptide
described herein in an MDS cell, for instance in an MDS blast or in an MDS cell line.
In other embodiments, a CD43 peptide described herein is bed that has
been produced by a host cell, using in vitro glycoengineering (for instance according to
Roche Diagnostics GmbH). According to these embodiments, host cells are described
with the enzymes alpha-2,6-Sialyltransferase and/or 2,3-Sialyltransferase, so that
upon production of a CD43 peptide described herein, the peptide will be sialylated.
r described is therefore a CD43 e described herein that has been produced
by a cell that contains alpha-2,6-Sialyltransferase and/or 2,3-Sialyltransferase. In
some embodiments, said alpha-2,6-Sialyltransferase and/or alpha-2,3-Sialyltransferase
comprises exogenous alpha-2,6-Sialyltransferase and/or ous alpha-2,3-
Sialyltransferase, meaning that the enzyme has been introduced recombinantly into the
host cell (or into a parent host cell from which the current host cell originates). Some
embodiments describe a CD43 peptide described herein that has been ed by a host
cell that contains an exogenous nucleic acid sequence encoding alpha-2,6-
Sialyltransferase and/or alpha-2,3-Sialyltransferase.
Anti-CD43 antibodies are known in the art. However, it is clear that these
antibodies recognize a different e. For instance, as shown in Table 1 of Kim et al,
2014, anti-CD43 monoclonal antibodies (mAbs) YG5, 2C8, 8E10 and DFT-1 do bind AML
cells, but also many other non-AML cells, including CEM7, Jurkat, IM9, Ramos, Raji,
Daudi, Reh, normal bone marrow and PBL cells, are bound by some or all of these known
antibodies (Kim et al, 2014). Hence, antibodies YG5, 2C8, 8E10 and DFT-1 are not at all
specific for AML. Contrary, antibody AT14-013, that specifically binds the CD43 peptides
described herein, does not bind Jurkat cells, Ramos cells, normal bone marrow cells or
PBL cells/PBMCs (figure 5 and 9b). Antibodies YG5, 2C8, 8E10 and DFT-1 thus bind
another CD43 epitope.
dy UN1 (Tuccillo et al, 2014a and Tuccillo et al, 2014b) recognizes a CD43
epitope including a GalNac-O-linked monosaccharide, corresponding to the Tn antigen of
O-glycans. It was concluded that the protein core of this epitope includes CD43 amino
acids 64 to 83. This antigen is expressed by human thymocytes, by the leukemic cell
lines HPB-ALL, H9 and Molt-4, and in a subpopulation of peripheral blood CD4+
hocytes. Antibody AT14-013, however, does not bind human thymocytes,
indicating that a different AML antigen is described herein.
International patent application describes antibodies 5F1, 51-41
and 138-10, which recognize CD43 present on the surface of the human colorectal
arcinoma cell line 5 and the human gastric carcinoma cell line NCI-N87.
AML is not mentioned in . Antibody AT14-013, that specifically binds
the AML-specific CD43 peptides described herein, does not bind Colo205, as shown in
the Examples. Antibodies 5F1, 51-41 and 138-10 thus bind a different CD43 epitope.
International patent ation describes antibodies EB-1,
EB-2 and EB-3 that are able to recognize an unglycosylated region of CD43, consisting of
CD43 amino acids 73-81. This n is present on thymocytes, on some hematopoietic
precursors in bone marrow, on AML cells, on acute lymphogenous leukemia (ALL) cells
and on c myelogenous leukemia (CML) cells. EB-1 recognizes its antigen in both
sialidase-treated and ted CD43 molecules. Contrary, glycosylated CD43 peptides
described herein are no longer recognized by antibody AT14-013 after treatment with
sialidase (neuramidase), meaning that the present disclosure describes
an AML n that is neuramidase-sensitive, contrary to the antigen of EB-1,
EB-2 and EB-3. rmore, antibody 13 does not bind ALL cells or thymocytes,
contrary to antibodies EB-1, EB-2 and EB-3. Moreover, the CD43 es described
herein comprise an amino acid sequence with a length of at least 3 amino acid residues
and at most 51 amino acid es that is identical to a sequence located within amino
acid residues 133 and 184 of CD43, which domain is different from CD43 amino acid
positions 73-81 that are recognized by antibodies EB-1, EB-2 and EB-3. Antibodies EB-1,
EB-2 and EB-3 thus also bind another CD43 epitope.
In conclusion, a novel AML-specific antigen is described in the present disclosure.
A CD43 peptide described herein preferably has a length of at most 100 amino
acid residues and at least 3 amino acid residues, preferably at least 5 amino acid
residues, or at least 6 amino acid residues, or at least 7 amino acid residues, or at least 8
amino acid residues, or at least 9 amino acid residues, or at least 10 amino acid residues,
or at least 11 amino acid residues, or at least 12 amino acid residues, or at least 13
amino acid residues, or at least 14 amino acid residues, or at least 15 amino acid
residues. In some ments, said length is at least 20 amino acid residues. In some
embodiments, said length is at least 25 amino acid residues. In some embodiments, said
length is at least 30 amino acid residues. In some embodiments, said length is at least 33
amino acid residues. In some embodiments, said length is at least 35 amino acid
residues. In some embodiments, said length is at least 40 amino acid residues. In some
embodiments, said length is at least 45 amino acid residues. In some embodiments, said
length is at least 50 amino acids. In some embodiments, said length is at least 51 amino
acids. In some embodiments, said length is at least 52 amino acids.
In some ments, said length is at most 90 amino acid residues, or at most
85 amino acid residues or at most 75 amino acid residues or at most 70 amino acid
es or at most 65 amino acid residues or at most 60 amino acid residues or at most
55 amino acid residues or at most 52 amino acid residues or at most 51 amino acid
residues or at most 50 amino acid residues or at most 45 amino acid residues or at most
40 amino acid residues or at most 35 amino acid residues or at most 30 amino acid
residues or at most 25 amino acid residues or at most 20 amino acid. In some
embodiments, said peptide has a length of at most 52 amino acid residues and at least 3
amino acid es, preferably at least 5 amino acid residues, or at least 6 amino acid
residues, or at least 7 amino acid residues, or at least 8 amino acid residues, or at least 9
amino acid residues, or at least 10 amino acid residues. In some embodiments, said
peptide has a length of at most 51 amino acid residues and at least 3 amino acid
residues, preferably at least 5 amino acid residues, or at least 6 amino acid residues, or
at least 7 amino acid residues, or at least 8 amino acid residues, or at least 9 amino acid
es, or at least 10 amino acid residues. In some embodiments, said peptide has a
length of at most 33 amino acid residues and at least 3 amino acid residues, preferably
at least 5 amino acid residues, or at least 6 amino acid residues, or at least 7 amino acid
residues, or at least 8 amino acid residues, or at least 9 amino acid residues, or at least
amino acid residues. In some embodiments, said peptide has a length of at most 15
amino acid es and at least 3 amino acid residues, preferably at least 5 amino acid
residues, or at least 6 amino acid residues, or at least 7 amino acid residues, or at least 8
amino acid es, or at least 9 amino acid residues, or at least 10 amino acid residues.
In some embodiments, a CD43 e described herein consists of an amino acid
sequence with a length of at least 3 amino acid residues and at most 51 amino acid
residues or at most 51 amino acid residues that is identical to a sequence located
n CD43 amino acid positions 133 and 183 as depicted Figure 13. In some
embodiments, a CD43 peptide described herein consists of an amino acid sequence with
a length of at least 5 amino acid residues and at most 40 amino acid residues that is
identical to a sequence located between CD43 amino acid positions 133 and 183 as
depicted Figure 13. In some embodiments, a CD43 peptide described herein consists of
an amino acid sequence with a length of at least 5 amino acid residues and at most 33
amino acid residues that is identical to a sequence located between CD43 amino acid
positions 133 and 183 as depicted Figure 13. In some embodiments, a CD43 peptide
described herein consists of an amino acid sequence with a length of at least 5 amino
acid residues and at most 20 amino acid residues that is identical to a sequence located
between CD43 amino acid positions 133 and 183 as ed Figure 13.
In some embodiments, a CD43 peptide described herein consists of an amino acid
sequence with a length of at least 5 amino acid residues and at most 33 amino acid
residues that is identical to a sequence located between CD43 amino acid positions 133
and 165 as depicted Figure 13. In some embodiments, a CD43 peptide described herein
consists of an amino acid sequence with a length of at least 5 amino acid es and at
most 30 amino acid residues that is identical to a ce located between CD43 amino
acid ons 133 and 165 as ed Figure 13. In some ments, a CD43 e
bed herein consists of an amino acid sequence with a length of at least 5 amino
acid residues and at most 20 amino acid residues that is identical to a sequence located
between CD43 amino acid positions 133 and 165 as depicted Figure 13.
In some embodiments, a CD43 peptide described herein consists of an amino acid
sequence with a length of at least 5 amino acid residues and at most 15 amino acid
es that is identical to a sequence located between CD43 amino acid positions 133
and 147 as depicted Figure 13. In some embodiments, a CD43 peptide described herein
consists of an amino acid ce with a length of at least 8 amino acid es and at
most 15 amino acid residues that is identical to a sequence located between CD43 amino
acid positions 133 and 147 as depicted Figure 13. In some embodiments, a CD43 peptide
described herein consists of an amino acid sequence with a length of at least 10 amino
acid residues and at most 15 amino acid residues that is identical to a sequence located
n CD43 amino acid positions 133 and 147 as depicted Figure 13.
In some embodiments, the above mentioned peptides are glycosylated, preferably
comprising sialic acid residues, in order to better mimic the natural AML-specific
antigen. In some embodiments, the above mentioned peptides are onco-sialylated. In
some embodiments, the above mentioned es have been produced by AML cells or
an AML cell line, preferably THP-1 cells. In some embodiments, the above mentioned
peptides have been produced by MDS cells or an MDS cell line.
Nucleic acid molecules, or functional equivalents f, encoding a CD43
peptide described herein are also encompassed by the present disclosure. Further
described is therefore an isolated, synthetic or recombinant c acid molecule, or a
functional equivalent thereof, ng a CD43 peptide described herein. As used ,
a c acid molecule or nucleic acid ce of the invention or as described herein
preferably comprises a chain of nucleotides, more preferably DNA, cDNA or RNA. In
other embodiments a nucleic acid molecule or nucleic acid sequence described herien
comprises other kinds of nucleic acid structures such as for instance a DNA/RNA helix,
peptide nucleic acid (PNA), locked nucleic acid (LNA) and/or a me. Such other
nucleic acid structures are referred to as functional equivalents of a nucleic acid
sequence. The term “functional equivalent of a nucleic acid molecule” thus encompasses
a chain sing non-natural nucleotides, ed nucleotides and/or non-nucleotide
building blocks which t the same function as natural tides.
Some embodiments describe a nucleic acid molecule or functional equivalent
thereof described herein, wherein a human nucleic acid ce has been codon
optimized for a non-human cell, for instance for a non-human producer cell like E.coli, a
Chinese hamster ovary (CHO) cell, an NSO cell (which is a mouse myeloma) or a 293(T)
cell. This means that one or more codons from said human nucleic acid sequence
ve been replaced by one or more codons that are preferred by said non-human cell.
As used herein, an isolated, synthetic or recombinant nucleic acid molecule, or a
functional equivalent thereof, encoding a CD43 peptide described herein is also referred
to as “a nucleic acid molecule or functional equivalent according to the invention”.
Now that the disclosure has described CD43 peptides comprising a novel AML-
specific antigen, many applications have become possible. For instance, in some
embodiments a CD43 peptide described herein is used for inducing, isolating and/or
obtaining immune cells and/or antibodies, or functional parts or functional derivatives
thereof, that are able to specifically bind proliferative and/or myeloproliferative
cells. Immune cells and/or antibodies, or onal parts or functional derivatives
thereof, that are induced, isolated and/or obtained with a CD43 peptide described herein
are particularly le for ent or prevention of myeloproliferative or
lymphoproliferative disorders. Even more so in view of the fact that antibody AT14-013,
which is an dy that is specific for a CD43 peptide described herein, also targets
ic stem cells, which are known to be more therapy resistant and often responsible
for relapse of disease after treatment. In some embodiments a CD43 peptide bed
herein is used for inducing and/or obtaining AML-specific immune cells and/or AML-
specific antibodies. For instance, a non-human animal is immunized with one or more
CD43 peptides described herein, or with an immunogenic compound comprising a CD43
e described herein, or with a nucleic acid molecule or functional equivalent thereof
encoding a CD43 peptide bed herein, or with a vector comprising a nucleic acid
molecule or functional lent described herein, preferably followed by one or more
booster administrations. Subsequently, immune cells and/or dies that are specific
for lymphoproliferative and/or myeloproliferative cells, preferably specific for AML, are
harvested from said non-human animal. In some embodiments, said immune cells
se T cells, such as for instance NK cells or T-helper cells.
In some embodiments, said immune cells harvested from said immunized nonhuman
animal comprise B cells. for instance, AML-specific B-cells are particularly
suitable for the production of AML-specific dies. AML-specific B-cells harvested
from said immunized animal are for instance used for the production of hybridomas,
from which AML-specific dies are obtained. In other embodiments, B-cells
harvested from said immunized animal are transduced with Bcl-6 and Bcl-xL nucleic
acids and cultured in long term ex vivo B cell cultures as for instance described in
European Patent No. 1974017 and US patent US 9,127,251. This way, long term
replicating B cell cultures are generated, wherein the B cells both replicate and produce
antibody. In some embodiments, AML-specific antibodies ed by said hybridomas
or by such B cell culture are ted and for instance used for anti-AML therapy,
preferably after zation of the antibodies in order to reduce side-effects. In some
embodiments, an antibody and/or B cell obtained from said non-human animal is tested
for competition with antibody AT14-013 for g to CD43. This is for instance done by
incubating AML cells with said antibody or B cell obtained from said non-human animal,
and subsequently adding antibody AT14-013. As a control, AML cells are preferably
incubated with antibody AT14-013 in the absence of any other antibody or B cell. If preincubation
of AML cells with an antibody or B cell obtained from said non-human animal
appears to affect the binding of AT14-013 to said AML cells, it is concluded that said
dy or B cell obtained from said non-human animal competes with antibody
AT14-013 for binding to CD43.
In some embodiments, the le domain-encoding nucleic acid sequences of
B cells from said non-human animal are sequenced in order to obtain the nucleic acid
sequences of AML-specific variable domains, where after one or more nucleic acid
molecules comprising these sequences are introduced in producer cells, such as for
instance , Chinese hamster ovary (CHO) cells, NSO cells or 293(T) cells, for the
production of AML-specific antibodies. Said one or more nucleic acid sequences are
preferably codon optimized for said producer cell. As used herein, the term “codon”
means a triplet of nucleotides (or functional equivalents f) that encode a specific
amino acid residue. The term “codon optimized” means that one or more codons from the
original, animal nucleic acid ce are replaced by one or more codons that are
preferred by a cell from another species, such as for instance a certain producer cell.
These replacement codons preferably encode the same amino acid residue as the original
animal codon that has been replaced.
In some embodiments, CD43-specific antibodies obtained from said non-human
animal or from immune cells of said non-human animal are humanized, meaning that at
least part of the animal amino acid sequence, preferably at least part or the whole of the
framework sequences, is replaced by a human sequence in order to reduce adverse sideeffects
in .
Animal immunization protocols, including suitable administration procedures and
adjuvants, procedures for obtaining and purifying antibodies and/or immune cells from
such immunized animals, competition experiments and humanization procedures of non-
human antibodies are well known in the art. Reference is for instance made to Hanly et
al, 1995.
In some embodiments, a CD43 peptide described herein, or a nd
comprising a CD43 e described herein, is used for screening a phage display
library in order to identify and/or isolate AML-specific immunoglobulins (typically Fab
fragments). In some embodiments, a naïve phage display library is used. In preferred
embodiments, a phage display library derived from one or more AML ts is used, so
that the library will y be biased towards AML. In some ments, an AML-
specific immunoglobulin obtained from said phage display y is tested for
competition with antibody AT14-013 for binding to CD43. This is for instance done using
a competition test described herein.
Further described is therefore a use of a CD43 peptide described herein, or a use
of an genic compound described herein, or a use of a nucleic acid molecule or
functional lent thereof encoding a CD43 peptide described , or a use of a
vector comprising a nucleic acid le or functional equivalent described herein, for
inducing, isolating and/or obtaining an immune cell or an dy, or a functional part
or functional equivalent f, such as for instance a Fab fragment. Said immune cell
or antibody or functional part or functional equivalent thereof is preferably able to
specifically bind lymphoproliferative cells and/or roliferative cells. Preferably,
said myeloproliferative cells are AML cells, MDS cells and/or CML cells, most preferably
AML cells. In some embodiments, a CD43 peptide described herein or an immunogenic
compound described herein or a c acid molecule or functional equivalent bed
herein or a vector comprising a nucleic acid molecule or functional equivalent described
herein is used for inducing and/or obtaining an antibody that is able to induce antibodydependent
cellular cytotoxicity (ADCC) or complement-dependent cytotoxicity (CDC). A
non-limiting example of such antibody is AT14-013, as shown in the Examples. The fact
that a CD43 peptide described herein, or an immunogenic compound described herein, is
able to induce and/or obtain an antibody with ADCC and/or CDC inducing activity
means that antibodies can be induced or obtained that are functional in vivo.
A CD43 peptide or compound described herein for use as an immunogen is also
herewith described, as well as a nucleic acid molecule or functional equivalent described
herein, or a vector comprising a nucleic acid molecule or functional equivalent described
herein, for use as an gen.
Some embodiments describe a method for producing immune cells and/or
antibodies that are able to specifically bind lymphoproliferative cells and/or
myeloproliferative cells, such as for instance an AML-specific immune cell or an AML-
specific antibody, the method comprising immunizing a non-human animal with a CD43
peptide described herein, or with a compound described herein or with a nucleic acid
molecule or functional lent described herein or with a vector comprising a nucleic
acid molecule or functional lent described . The method preferably further
comprises harvesting an immune cell and/or antibody that is able to specifically bind
lymphoproliferative cells and/or myeloproliferative cells from said non-human . In
some embodiments, an AML-specific immune cell and/or an AML-specific antibody is
harvested from said non-human animal. In some embodiments, a B cell and/or dy
obtained from said non-human animal is tested for competition with antibody AT14-013
for binding to CD43. An immune cell and/or antibody that is able to specifically bind
lymphoproliferative cells and/or roliferative cells obtainable by a method
described herein is also described th. Some embodiments describe an AML-
ic antibody or an AML-specific immune cell obtainable by a method described
herein for producing an AML-specific immune cell or an AML-specific antibody. Such
AML-specific antibody preferably es with antibody AT14-013 for binding to CD43.
Said non-human animal preferably ses a mammal such as a rodent or
cattle. In some embodiments said non-human animal comprises a mouse, a rat, a ,
a llama, a camel, a pig, poultry, a cow, a goat, a horse, an ape, and/or a gorilla.
In view of the fact that antibody AT14-013 ically binds a CD43 peptide
described herein, other dies that are obtained, produced or selected with a CD43
peptide described herein will typically e with antibody AT14-013 for binding to
CD43. Contrary, current CD43 antibodies that are known in the art do not compete with
antibody AT14-013, whereas these known antibodies do compete with each other, as
shown in Figure 9. These other antibodies known in the art thus clearly bind an epitope
that is ent from the epitope of AT14-013. Further described is, therefore, an
ed, recombinant or purified antibody, or a functional part or a functional equivalent
thereof, that competes with antibody AT14-013 for binding to CD43. Said isolated,
recombinant or purified antibody, or functional part or functional equivalent thereof,
preferably competes with antibody AT14-013 for g to at least part of an epitope
that is located between amino acids 133 and 184 of a CD43 sequence as depicted in
Figure 13. Said isolated, recombinant or purified antibody or functional part or
functional equivalent typically es with antibody AT14-013 for binding to a CD43
peptide described herein.
The term “antibody” as used herein, refers to an immunoglobulin protein
comprising two heavy chains, bound to each other, wherein each heavy chain is also
paired with a light chain.
A “functional part of an antibody” is defined herein as a part that has at least one
shared property as said antibody in kind, not necessarily in amount. Said functional part
is capable of binding the same antigen as said antibody, albeit not necessarily to the
same extent. A functional part of an antibody preferably comprises at least a heavy
chain variable domain (VH) and a light chain variable domain (VL). In some
embodiments, a functional part of an dy comprises at least a heavy chain variable
domain (VH). Non-limiting examples of a onal part of an antibody are a single
domain antibody, a single chain antibody, a nanobody, an unibody, a single chain
variable fragment , a bi-specific T-cell r (BiTE), a Fab fragment and a
F(ab')2 fragment.
A “functional equivalent of an antibody” is defined herein as an artificial binding
compound, comprising at least one CDR sequence of an antibody, ably a heavy
chain CDR3 sequence. Said functional equivalent preferably comprises the heavy chain
CDR3 sequence of an antibody, as well as the light chain CDR3 sequence of said
antibody. More preferably, said functional equivalent ses the heavy chain CDR1,
CDR2 and CDR3 sequences of an antibody, as well as the light chain CDR1, CDR2 and
CDR3 sequences of said antibody. A onal equivalent of an antibody is for instance
produced by altering an antibody such that at least an antigen-binding property of the
resulting nd is essentially the same in kind, not necessarily in amount. This is
done in many ways, for ce through conservative amino acid substitution, whereby
an amino acid residue is substituted by another residue with generally similar properties
(size, hobicity, etc), such that the overall functioning of the antibody is essentially
not affected. A non-limiting example of a functional equivalent of an antibody is an
antibody with a modified Fc tail, which Fc tail has for ce been modified by amino
acid replacement(s) and or glycosylation alteration(s).
As is well known by the skilled person, a heavy chain of an antibody is the larger
of the two types of chains making up an immunoglobulin molecule. A heavy chain
comprises a constant domain and a variable domain, which variable domain is involved
in antigen g. A light chain of an antibody is the smaller of the two types of chains
making up an immunoglobulin molecule. A light chain comprises a constant domain and
a le . The variable domain is often, but not always, together with the
variable domain of the heavy chain involved in antigen binding.
Complementary-determining regions (CDRs) are the hypervariable regions
present in heavy chain variable domains and light chain variable domains. In case of
whole antibodies, the CDRs 1-3 of a heavy chain and the CDRs 1-3 of the connected light
chain together form the antigen-binding site.
As used herein, an immune cell, antibody or functional part or onal
equivalent thereof is “specific” for AML if it is able to bind AML cells with a binding
affinity that is at least two times higher than the binding affinity of an irrelevant control
antibody or control immune cell to said AML cells (wherein the control antibody or
control immune cell is not specific for said AML cells). For instance, AML binding by an
AML-specific antibody, B cell or T cell is typically mediated through the
complementarity regions of the antibody, B cell receptor (BCR) or T cell receptor (TCR),
respectively. The specific three-dimensional structure of both the AML antigen and the
variable domain of the dy or BCR or TCR allow these two structures to bind
together (an interaction similar to a lock and key), as opposed to random, non-specific
sticking of antibodies or BCRs or TCRs. Some reactivity towards other types of cells is,
however, embraced within the term “AML-specific”. As an antibody or BCR or TCR
typically recognizes an epitope of an antigen, and as such e might be t on
other cells as well, AML-specific antibodies, B cells or T cells might then recognize such
other cells. Non-limiting examples of such other cells are MDS and CML cells. Also
melanoma cells and cytes appear to be bound by the ecific antibody
AT14-013, albeit to a lesser extent. Hence, the term “AML-specific” does not e
binding of the antibodies or B cells or T cells to another cell that ns at least part of
the same epitope. It is, however, shown in the Examples that many CD43+ cells,
including CD43+ hematopoietic cells such as for instance PBMCs, (precursor) T cells and
B cells, do not contain an AML antigen as described by the present disclosure.
CD43 peptides described herein are particularly suitable for testing for the
presence of AML-specific binding compounds, such as for instance AML-specific
antibodies or AML-specific immune cells such as B cells or T cells, in a biological sample.
For instance, a sample from an individual, or a fraction of such sample that comprises
antibodies, B cells and/or T cells, is incubated with a CD43 peptide described herein, or
with a compound that comprises a CD43 peptide bed herein, in order to screen for
the presence of AML-specific antibodies and/or AML-specific immune cells. If such
antibodies or immune cells appear to be t in said sample or in said sample
fraction, and to bind said CD43 peptide described herein, said sample is typed as being
positive for AML-specific binding compounds (i.e. antibodies and/or immune cells). Said
sample for ce comprises a blood sample, or a bone marrow sample, or a biopsy such
as for instance a myeloid a (also called a chloroma).
An AML-specific antibody or AML-specific immune cell is for instance detected
and/or quantified using an immunoassay, such as for ce a Western blot, a
re) ELISA or RIA. These assays are well known in the art. Labelled CD43 peptides
bed herein are for instance incubated with a blood sample or bone marrow sample
or with or a biopsy such as for instance a myeloid sarcoma, or with a fraction of such
sample that comprises antibodies, B cells and/or T cells, where after unbound binding
compounds are washed away. Subsequently, it is determined whether the CD43 peptides
described herein are bound by AML-specific antibodies or immune cells. In some
embodiments, an led CD43 peptide described herein, or an unlabeled compound
comprising a CD43 e described herein, is contacted with a sample that comprises
antibodies and/or immune cells, such as for instance a blood sample or bone marrow
sample or a biopsy such as for instance a myeloid sarcoma, or with a fraction of such
sample that comprises antibodies, B cells and/or T cells. After incubation, one or more
g steps are preferably performed in order to remove non-bound antibodies and
unbound immune cells. Subsequently, it is tested whether antibodies or immune cells
have bound said CD43 e described herein, for instance using an dy that is
specifically directed against human antibodies or human immune cells and that is
coupled to a marker, such as for instance a fluorescent compound or for instance
horseradish peroxidase or alkaline phosphatase. After a further washing step, it is
determined whether the second antibody has bound, for instance by measuring light
emission or by adding a substrate of horseradish peroxidase or alkaline phosphatase.
These detection techniques are well known in the art.
In some ments, a CD43 peptide described herein, or a compound that
comprises a CD43 e bed , is contacted with a fraction of a sample that
has been enriched for antibodies and/or immune cells. In some embodiments, said
on is an in vitro B cell culture or an in vitro T cell culture. In some embodiments, a
CD43 peptide described herein or a compound that comprises a CD43 peptide described
herein is contacted with antibodies and/or immune cells that have been essentially
purified from a biological sample, such as for instance a purified B cell fraction that has
been obtained by selecting for CD19 positive cells and/or an antibody/B cell fraction that
has been purified using an anti Ig dy or a protein A or G purification method.
Protein A or G purification methods are well known in the art and protocols and
ts are commercially ble. As used herein, the term “immune cells that have
been essentially purified from a sample” means that at least 80%, preferably at least
85%, more preferably at least 90% or at least 95%, of the cells of a resulting fraction
consists of immune cells. The term “antibodies that have been essentially purified from a
sample” means that at least 80%, more preferably at least 85%, more preferably at least
90% or at least 95%, of the mass of a resulting fraction consists of antibodies.
Further described is therefore a use of a CD43 peptide bed herein, or a use
of a compound that comprises a CD43 peptide described herein, for binding and/or
detecting an immune cell and/or an antibody, or a functional part or functional
equivalent thereof. Said immune cell and/or antibody or functional part or functional
equivalent thereof is preferably able to specifically bind lymphoproliferative cells and/or
myeloproliferative cells. Preferably, said myeloproliferative cells are AML cells or MDS
cells or CML cells, ably AML cells. A CD43 peptide described herein, or a
compound that ses a CD43 peptide described herein, for use as a ion moiety
for AML-specific binding compounds such as antibodies and/or immune cells is also
herewith described, as well as a method for determining whether a sample comprises
AML-specific antibodies and/or AML-specific immune cells, the method comprising
incubating a CD43 peptide described herein, or a compound that comprises a CD43
peptide described herein, with said sample, or with a fraction of said sample that
comprises antibodies and/or immune cells, and subsequently determining whether said
CD43 peptide bed herein is bound by AML-specific antibodies and/or ecific
immune cells, or whether said compound that comprises said CD43 peptide described
herein is bound by AML-specific antibodies and/or AML-specific immune cells. If such
binding is detected, it is concluded that said sample comprises AML-specific antibodies
and/or AML-specific immune cells.
Also described is a method for determining whether a sample comprises AML-
specific antibodies and/or AML-specific immune cells, the method comprising incubating
a CD43 peptide described herein, or a compound that comprises a CD43 peptide
described herein, with antibodies and/or immune cells that have been essentially
purified from said sample, and subsequently determining r said CD43 peptide
described herein is bound by AML-specific antibodies and/or AML-specific immune cells,
or whether said compound that comprises said CD43 e described herein is bound
by AML-specific dies and/or ecific immune cells.
In some ments, the results of ion tests as described above are used
for determining whether an individual has AML. If a sample from an individual s
to contain AML-specific immune cells and/or AML-specific antibodies, it can be
concluded that said individual is an AML patient. A CD43 e described herein for
use as a diagnostic agent is therefore also described herewith, as well as a compound
that comprises a CD43 peptide described herein for use as a diagnostic agent. Further
described is a use of a CD43 peptide described herein for diagnosing AML, as well as a
use of a compound that comprises a CD43 e described herein for diagnosing AML.
Further described is a diagnostic kit comprising:
- a CD43 peptide described herein, or a compound that comprises a CD43 peptide
described herein, and
- means for detecting an antibody-bound CD43 peptide or an immune cell-bound CD43
peptide.
Such means for instance encompass labelled dies that are specifically directed
against human antibodies or human immune cells. In some ments, said labelled
antibodies are conjugated with horseradish peroxidase or alkaline phosphatase.
Some embodiments describe a diagnostic kit comprising:
- a CD43 peptide described herein, or a compound that comprises a CD43 peptide
described herein, and
- means for detecting an antibody or an immune cell.
Such means for instance encompass ed antibodies that are specifically directed
against human antibodies or human immune cells. In some embodiments, said labelled
antibodies are conjugated with horseradish dase or alkaline phosphatase.
Some embodiments be a method for typing an antibody-containing sample
or an immune cell-containing sample, the method comprising contacting a CD43 peptide
described herein (optionally in the context of an MHC x in order to detect T cells),
or a compound that comprises said CD43 peptide described herein, with antibodies
and/or immune cells of said sample and determining whether said CD43 peptide
described herein, or said compound described herein, is bound by at least one of said
dies and/or immune cells of said sample. If said CD43 peptide or said compound
described herein is bound by antibodies and/or immune cells of said sample, said sample
is typed as comprising CD43-specific antibodies and/or immune cells.
Some embodiments be a method for ining whether an individual has
a myeloproliferative or lymphoproliferative disorder, preferably AML, the method
comprising contacting a CD43 peptide described herein (optionally in the context of an
MHC complex in order to detect T , or a compound that comprises said CD43
peptide described herein, with antibodies and/or immune cells of said individual and
determining whether said CD43 peptide described herein, or said compound described
herein, is bound by at least one of said dies and/or immune cells of said individual.
If said CD43 peptide or said compound described herein is bound by dies and/or
immune cells of said dual, it is concluded that said individual has a
lymphoproliferative or myeloproliferative disorder such as AML. In some embodiments,
said CD43 peptide described herein, or said nd comprising said CD43 peptide
described herein, is contacted with a sample that ses antibodies and/or immune
cells of said individual, such as for instance a blood sample or a bone marrow sample or a
biopsy such as for instance a myeloid sarcoma. In other embodiments, said CD43 peptide
or compound described herein is contacted with a fraction of a sample from said
individual, wherein said fraction comprises immune cells and/or antibodies. In some
embodiments, said CD43 peptide or compound described herein is contacted with
antibodies and/or immune cells that have been essentially purified from said sample,
such as for instance a purified B cell fraction that has been obtained by selecting for
CD19 positive cells and/or an antibody/B cell fraction that has been purified using an
anti Ig antibody or a protein A or G purification method.
In some embodiments, the results of detection tests described herein are used for
determining whether an individual exhibits a detectable immune response against a
myeloproliferative or lymphoproliferative disorder such as AML. This is for instance
red for determining whether a patient suffering from a myeloproliferative er
who has ed medical treatment, such as for instance an AML patient who has been
treated against AML, for instance an AML patient who has received immunotherapy
such as a stem cell transplantation or donor-lymphocyte infusion, has a GvL response.
To date, there are no diagnostic tools to test for the presence of a potent GvL response in
a treated t. Such diagnostic tool is much , for instance because: 1) It will
allow early fication of allogeneic SCT ents at high risk for relapse, at a timepoint
before e has occurred y allowing earlier interventions such as tapering
of immunosuppressants or donor-lymphocyte infusions; 2) It will allow titrating such
donor lymphocyte infusions until anti-leukemia antibodies do appear; and 3) It will offer
hope for allogeneic SCT recipients at a time they often suffer from one of many SCT-
related complications when the presence of a potent GvL response can be trated.
Nowadays patients have to wait and see whether or not a e , and there is no
way to predict relapse of disease. The availability of a test for determining whether a
t has an anti-AML immune response will therefore greatly improve the clinical
care of SCT patients, affecting prognosis and quality of life.
Some embodiments therefore describe a method for ining whether an
individual exhibits an immune response against a myeloproliferative or
lymphoproliferative disorder, preferably AML, the method comprising contacting a CD43
peptide described herein, optionally in the context of an MHC x, or a compound
that comprises said CD43 peptide described , with antibodies and/or immune cells
of said individual and determining whether said CD43 peptide described herein, or said
nd comprising said CD43 peptide described herein, is bound by at least one of
said antibodies and/or immune cells of said individual. If said CD43 peptide or said
compound s to be bound, it indicates that said individual exhibits an immune
response against said myeloproliferative or lymphoproliferative disorder, preferably
AML. In some embodiments it is determined whether antibodies or B cells of said
individual compete with antibody AT14-013 for binding to CD43. Competing dies
will be particularly effective against a roliferative or lymphoproliferative
disorder, ably AML.
In some embodiments, an antibody or a functional part or a functional equivalent
thereof that es with antibody AT14-013 for binding to CD43 is used for detecting
myeloproliferative cells in a sample. Further described is ore a use of an isolated,
recombinant or purified antibody, or a functional part or a functional equivalent thereof,
that competes with antibody AT14-013 for binding to CD43, for determining whether a
sample comprises myeloproliferative cells, preferably AML or MDS or CML cells. An
isolated, recombinant or purified antibody, or a functional part or a functional equivalent
thereof, that competes with antibody AT14-013 for binding to CD43, for use in diagnosis
of a lymphoproliferative or myeloproliferative disorder, preferably AML or MDS or CML,
is also described herewith, as well as a use of an ed, recombinant or purified
antibody, or a functional part or a functional equivalent thereof, that competes with
dy AT14-013 for binding to CD43, for diagnosing AML. Also described is a use of
an isolated, recombinant or purified antibody, or a functional part or a functional
lent thereof, that competes with antibody AT14-013 for binding to CD43, for the
preparation of a stic agent for lymphoproliferative or myeloproliferative cells,
preferably AML or MDS or CML cells. Some ments describe a diagnostic kit
comprising an isolated, recombinant or purified antibody, or a functional part or a
functional lent thereof, that competes with antibody AT14-013 for g to
CD43, and means for detecting an antibody-cell complex. Said means for instance
comprise another antibody against AML cells, such as for instance AT14-013. In some
embodiments, said means comprise labelled antibodies against another cell surface
component of myeloid cells. In some embodiments, said means comprise labelled
antibodies against said antibody or onal part or functional equivalent that
competes with antibody AT14-013.
An isolated, recombinant or purified antibody, or a functional part or a functional
equivalent f, that competes with antibody AT14-013 for binding to CD43, for use
as a diagnostic agent is also described. Some embodiments describe a method for
determining whether myeloproliferative cells are present in a sample comprising:
- contacting said sample with an isolated, recombinant or purified antibody, or a
functional part or a functional equivalent thereof, that competes with dy AT14-013
for binding to CD43, and
- allowing said antibody or functional part or functional equivalent to bind
myeloproliferative cells, if present, and
- determining whether or not myeloproliferative cells are bound to said antibody or
functional part or onal equivalent, thereby ining r or not
myeloproliferative cells are present in said sample. In some embodiments, said
myeloproliferative cells are AML or MDS or CML cells.
Further bed is a use of antibody AT14-013, or a functional part or a
functional equivalent f, for determining whether a sample comprises AML or MDS
or CML cells. Antibody AT14-013, or a functional part or a functional equivalent f,
for use in diagnosis of AML or MDS or CML is also described herewith, as well as a use
of antibody AT14-013, or a functional part or a functional equivalent thereof, for
diagnosing AML or MDS or CML. Also described is a use of antibody AT14-013, or a
functional part or a functional equivalent thereof, for the preparation of a diagnostic
agent for AML or MDS or CML.
Other interesting applications of the novel CD43 peptides described herein and
nucleic acid molecules or functional equivalents encoding ore are prophylactic or
semi-prophylactic applications and immunotherapy. As used herein, a rophylactic
application means that an individual already has a disease, but further progression of
said disease is at least temporarily delayed or prevented. For instance, a CD43 peptide
described herein, or a nucleic acid molecule or functional equivalent thereof encoding
therefore, or a vector comprising a nucleic acid molecule or functional lent
bed herein, or a compound that comprises a CD43 peptide described herein, can be
semi-prophylactically administered to an individual who is suffering from intermediate
to high risk ysplastic me (MDS). As described herein before, such patient
has an intermediate to high risk to develop AML, so that it is advantageous to elicit an
anti-AML immune response in said patient beforehand, using a CD43 peptide or
compound or nucleic acid molecule or functional equivalent or vector described herein,
before the MDS progresses to AML. Another example of a semi-prophylactic application
of a CD43 peptide described herein, or a compound or a nucleic acid molecule or a
onal equivalent or a vector described herein, is its use for AML, MDS or CML
patients who received an neic poietic stem cell transplantation (HSCT). The
goal of such allogeneic HSCT is to evoke an allogeneic graft versus ia/MDS
response, but there is currently no approach available to ascertain the development of
such se. Also bed is a use of a CD43 peptide described herein, or a nucleic
acid molecule or a functional lent ng therefore, or use of a vector comprising
a nucleic acid molecule or functional equivalent bed , or use of a compound
that comprises a CD43 peptide described herein, as a prophylactic or semi-prophylactic
agent that induces an alloreactive immune response against CD43-expressing malignant
cells (graft vs tumor response, for example against MDS, AML, or CML). Another
example of a prophylactic or semi-prophylactic application of a CD43 peptide bed
herein, or a compound or a nucleic acid molecule or a functional equivalent or a vector
described , is its use for CML patients. Nowadays, CML is well controlled in many
patients using tyrosine kinase tors such as for instance Imatinib. However, a
patient may develop resistance to one or more tyrosine kinase inhibitors. Moreover, the
use of ne kinase inhibitors sometimes involves adverse side effects like edema, skin
rashes, fatigue, nausea and myelosuppression. Tyrosine kinase inhibitors are also
expensive. Also described is a use of a CD43 e described herein, or a nucleic acid
molecule or a functional equivalent encoding therefore, or use of a vector comprising a
nucleic acid molecule or functional lent described herein, or use of a compound
that comprises a CD43 peptide described herein, as a prophylactic agent or semiprophylactic
agent that delays or prevents the progression of CML to AML. In some
embodiments, said CD43 peptide or compound or nucleic acid molecule or functional
equivalent or vector described herein is used instead of a tyrosine kinase inhibitor, for
instance in order to reduce adverse side-effects and/or costs. In other ments, said
CD43 peptide or compound or nucleic acid molecule or functional equivalent or vector
described herein is used together with one or more tyrosine kinase inhibitors. A CD43
peptide described herein, or a compound that comprises a CD43 peptide described
herein, or a nucleic acid molecule or a functional equivalent f ng a CD43
peptide described herein, or a vector comprising a nucleic acid molecule or functional
lent described herein, for use as a prophylactic agent or semi-prophylactic agent is
therefore also herewith described. Also described is a use of a CD43 peptide described
herein, or use of a compound that comprises a CD43 peptide described herein, or use of a
nucleic acid molecule or functional equivalent thereof encoding a CD43 peptide described
, or use of a vector comprising a nucleic acid molecule or functional equivalent
described herein, for the preparation of a prophylactic agent or semi-prophylactic agent
against AML, for instance for an AML patient that has received allogenic HSCT. In some
embodiments, said semi-prophylactic agent is for a MDS or CML patient, as explained
above. Said prophylactic agent or semi-prophylactic agent preferably comprises a
vaccine. As used , the term “prophylactic agent” also encompasses semiprophylactic
agents.
In some embodiments, a CD43 peptide or compound or nucleic acid molecule or
functional equivalent or vector bed herein is used for treatment of a
myeloproliferative or lymphoproliferative disorder, preferably AML. As used herein,
“treatment” encompasses ation of at least one symptom, and/or delaying or even
halting the progression of disease, at least temporarily. In one preferred embodiment, a
CD43 peptide described herein, optionally in the context of an MHC complex, or a
nucleic acid molecule or a functional equivalent encoding therefore, or a vector
sing a nucleic acid molecule or functional equivalent bed herein, or a
compound that comprises said CD43 peptide described herein, is administered to an
AML patient in order to boost his/her immune system, resulting in an enhanced immune
response. In some embodiments, naïve T cells or B cells from an AML patient are
cultured ex vivo and incubated with a CD43 peptide or nd described ,
optionally in the context of an MHC complex in case of a T cell culture, in order to obtain
AML-specific T cells or B cells that are subsequently administered to the patient,
optionally after ex vivo ion. In some embodiments it is determined whether AML-
specific B cells from said AML patient compete with antibody 13 for binding to
CD43, because competing B cells will be particularly effective against AML, in particular
in view of the fact that AT14-013 also targets ic stem cells, which are known to be
more y resistant and often responsible for relapse of disease after ent.
In some embodiments, adoptive cell therapy is used. In some embodiments,
T cells from an AML patient are tested for binding or activation using a CD43 e
described herein in the context of an MHC complex, or using a compound comprising a
CD43 peptide described herein in the t of an MHC complex, and T cells
izing said CD43 peptide are preferably expanded ex vivo and subsequently
administered to the patient, which will result in an anti-AML T cell response.
In some ments, adoptive cell therapy of donor lymphocytes is used. Donor
T cells isolated from an AML patient who received allogeneic HSCT, or isolated from the
HSCT donor, are preferably tested for binding or activation using a CD43 peptide
described herein in the context of an MHC complex, or using a compound comprising a
CD43 peptide described herein in the context of an MHC complex, and donor T cells
recognizing said CD43 peptide are preferably expanded ex vivo and subsequently
administered to the patient, which will result in an anti-AML allogeneic T cell response.
In some embodiments, T cells are modified in order to be them with an
AML-specific binding moiety. Said T cells are preferably derived from an AML patient or
an MDS patient or a CML patient or a HSCT donor. In some embodiments, chimeric
antigen receptor (CAR) T cells are produced. These are T cells with modified T cell
receptors, which have been provided with a binding specificity of interest, preferably
derived from an antibody. Typically, CAR T cells are produced by fusing a single-chain
variable domains (scFv) derived from a monoclonal antibody to the CD3-zeta
transmembrane domain, so that a zeta signal will be elicited upon target ition by
the scFv.
ing to some embodiments, a CD43 peptide described , or a nucleic
acid le or a functional equivalent encoding therefore, or a vector comprising a
nucleic acid molecule or functional equivalent described herein, or a compound that
comprises a CD43 peptide described , is used in order to produce and/or isolate a
CD43-specific B cell and/or antibody, which in turn is used for the production of a
modified T cell. For instance, said CD43 peptide or compound or nucleic acid molecule or
functional equivalent or vector is used in order to elicit, detect and/or isolate an AML-
specific antibody or AML-specific B cell. Subsequently, in some embodiments the heavy
chain and/or light chain variable domains of said dy or B cell are provided to
T cells, thereby producing modified T cells with an AML specificity. In some
embodiments, these ed T cells are subsequently stered to an AML patient,
which will result in an AML-specific T cell response. In some embodiments, said
modified T cells are CAR T cells. In some embodiments said AML-specific antibodies or
AML-specific B cells are tested for competition with dy 13 for binding to
CD43 before the heavy chain and/or light chain variable domains of said antibodies or
B cells are ed to T cells. Such competing antibodies are preferably selected for
ing modified T cells with an AML specificity.
Further described is therefore a CD43 peptide described herein, optionally in the
context of an MHC complex, or a nd that comprises said CD43 peptide described
, or a nucleic acid molecule or functional lent f encoding a CD43
peptide described herein, or a vector comprising a nucleic acid molecule or functional
equivalent described herein, for use as a medicament. Also described is a use of a CD43
peptide described , optionally in the context of an MHC complex, or a compound
that comprises said CD43 peptide described herein, or a nucleic acid le or
functional equivalent thereof encoding a CD43 peptide described herein, or a vector
comprising a nucleic acid molecule or functional lent described herein, for the
production of AML-specific T cells. Some embodiments describe a method for producing a
ed T cell, the method comprising ting an antibody-containing sample from
an AML patient or a B cell-containing sample from an AML t with a CD43 peptide
or compound described herein, resulting in bound antibodies or B cells against AML, and
subsequently ing one or more AML-specific domains from an ecific
antibody or from an AML-specific B cell from said AML patient and providing said one or
more domains to a T cell. Some embodiments describe a method for producing a modified
T cell, the method comprising immunizing a non-human animal with a CD43 peptide or
compound or nucleic acid molecule or functional equivalent or vector described herein,
thereby eliciting an immune response against AML, and subsequently obtaining one or
more AML-specific domains from an AML-specific antibody or an AML-specific B cell
from said man animal, or obtaining one or more nucleic acid sequences encoding
for said one or more AML-specific domains, optionally after it has been determined
whether said AML-specific antibody or AML-specific B cell competes with antibody
AT14-013 for binding to CD43, and providing said one or more domains, or said one or
more nucleic acid sequences, to a T cell. A CD43 peptide or compound bed herein
for use in immunotherapy is also described herewith, as well as a CD43 peptide
described herein in the context of an MHC complex for use in immunotherapy, as well as
a nucleic acid molecule or onal equivalent thereof encoding a CD43 peptide
described herein for use in immunotherapy. Some embodiments describe a vector
comprising a nucleic acid molecule or functional equivalent described herein for use in
immunotherapy. Further described is a use of a CD43 e bed herein, or a use
of a compound that comprises a CD43 peptide described herein, or a use of a nucleic acid
molecule or functional equivalent thereof encoding a CD43 peptide described herein, or a
use of a vector comprising a nucleic acid molecule or functional equivalent described
herein, for the preparation of a medicament against a myeloproliferative or
lymphoproliferative disorder, preferably AML.
Also bed is an genic composition sing a CD43 peptide
described herein, and/or comprising a compound that comprises a CD43 peptide
described herein, and/or sing a nucleic acid molecule or functional equivalent
thereof encoding a CD43 e described herein, and/or comprising a vector that
comprises a nucleic acid molecule or functional equivalent described herein. Said
immunogenic composition preferably further comprises a patible additive, such as
for instance a r, diluent, excipient or filler. Some embodiments describe a vaccine
comprising a CD43 peptide described herein, ally in the context of an MHC
complex. Some embodiments describe a vaccine comprising a compound that comprises
said CD43 peptide described herein, and a vaccine sing a nucleic acid molecule or
functional equivalent thereof encoding a CD43 peptide described herein, and a vaccine
comprising a vector that comprises a nucleic acid molecule or functional lent
described herein. Other embodiments describe a composition comprising a CD43 peptide
bed herein, or a composition comprising a nd that comprises a CD43
peptide described herein, or a composition comprising a nucleic acid molecule or
onal lent thereof encoding a CD43 peptide described herein, or a composition
comprising a vector that ses a nucleic acid molecule or functional equivalent
described herein, n said composition is a pharmaceutical composition which
further comprises a pharmaceutically acceptable carrier, diluent or ent.
In some embodiments, an isolated, recombinant or purified antibody, or a
functional part or a functional equivalent thereof, that competes with antibody AT14-013
for binding to CD43 is used for treatment of a myeloproliferative or proliferative
disorder, preferably AML. As described in , antibody AT14-013 was
obtained from an AML patient in complete remission, demonstrating that AT14-013 is
effective against AML. Moreover, AT14-013 also targets leukemic stem cells, which are
known to be more therapy resistant and often responsible for relapse of disease after
treatment. Antibodies that compete with AT14-013 for g to CD43 will therefore
also be very effective against myeloproliferative disorders like AML. Hence,
stration of such antibodies to an AML patient will effectively counteract, and/or
kill, AML cells. Some embodiments therefore describe an isolated, recombinant or
purified dy, or a onal part or a functional equivalent thereof, that competes
with antibody AT14-013 for binding to CD43, for use as a medicament. Some
embodiments describe a use of an isolated, recombinant or purified antibody, or a
functional part or a functional equivalent thereof, that competes with antibody AT14-013
for binding to CD43, for the preparation of a medicament.
Also described is an isolated, recombinant or purified antibody, or a functional
part or a functional equivalent f, that competes with antibody AT14-013 for
binding to CD43, for use in a method for at least in part treating or preventing a
myelodysplastic or myeloproliferative or lymphoproliferative disorder, as well as a use of
an isolated, inant or purified antibody, or a functional part or a functional
equivalent thereof, that competes with antibody AT14-013 for binding to CD43, for the
preparation of a medicament against a roliferative or proliferative
disorder. Said roliferative disorder preferably comprises AML. Further
ments describe a composition comprising an isolated, recombinant or purified
antibody, or a functional part or a functional equivalent f, that competes with
antibody AT14-013 for binding to CD43. Said composition is preferably a pharmaceutical
composition that comprises a pharmaceutically acceptable carrier, diluent or excipient
As described herein before, some embodiments describe an isolated, synthetic or
recombinant nucleic acid molecule, or a functional equivalent thereof, encoding a CD43
peptide described herein. Such nucleic acid molecule or functional equivalent is for
instance useful for the tion of a CD43 peptide described herein, using a nucleic
acid expression system such as for instance host cells. In some embodiments, AML cells
are used as host cells. In some embodiments, THP-1 cells are used as host cells. In some
embodiments, cells selected from the group consisting of Kasumi 3 cells, HL60 cells,
KG1a cells, SH2 cells, c6 cells, Molm13 cells, and CML K562 cells are used as
host cells.
Said nucleic acid le or functional equivalent described herein is also useful
for eliciting an immune response. For instance, a nucleic acid molecule or functional
equivalent described herein is stered to an AML patient in order to induce or
enhance an AML-specific immune response (immunotherapy). In some embodiments, a
nucleic acid molecule or functional equivalent described herein is administered to an
MDS or CML patient in order to delay or prevent the progression of MDS or CML to
AML (prophylactic or semi-prophylactic applications). In some embodiments, a nucleic
acid molecule or onal equivalent described herein is administered to a non-human
animal in order to elicit an anti-AML immune response, where after AML-specific
antibodies and/or AML-specific immune cells can be harvested from said animal.
Alternatively, the variable domain-encoding nucleic acid sequences of AML-specific
B cells from said non-human animal are sequenced in order to obtain one or more nucleic
acid sequences of AML-specific variable domains, where after one or more nucleic acid
molecules sing AML-specific variable domain sequences are introduced in
producer cells for the production of AML-specific antibodies.
In some embodiments, a nucleic acid molecule or functional equivalent described
herein is present in a gene delivery vehicle, which facilitates introduction of said nucleic
acid molecule or functional equivalent into a cell of interest. Further described is
ore a gene delivery vehicle, preferably a vector, comprising a nucleic acid molecule
or functional equivalent described herein. A host cell comprising a nucleic acid molecule
or functional equivalent described herein, and/or comprising a gene delivery vehicle or
vector described , is also described herewith.
While the t application may describe features as part of the same
embodiment or as parts of separate embodiments, the scope of the present invention also
includes embodiments sing any combination of all or some of the es
described herein.
The term “comprising” as used in this specification and claims means “consisting
at least in part of”. When interpreting statements in this specification, and claims which
include the term “comprising”, it is to be understood that other es that are
additional to the features ed by this term in each statement or claim may also be
present. Related terms such as “comprise” and “comprised” are to be interpreted in
similar manner.
In this specification where reference has been made to patent specifications, other
al documents, or other sources of information, this is generally for the purpose of
ing a context for discussing the features of the invention. Unless specifically
stated otherwise, reference to such external documents is not to be ued as an
admission that such documents, or such sources of information, in any jurisdiction, are
prior art, or form part of the common general knowledge in the art.
In the description in this specification reference may be made to t matter that is
not within the scope of the claims of the current application. That subject matter should
be readily identifiable by a person skilled in the art and may assist in putting into
practice the invention as defined in the claims of this application.
The invention is further explained in the following Examples. These Examples do
not limit the scope of the ion, but merely serve to clarify the invention.
Brief description of the drawings
Figure 1. ce of AT14-013 (2K23-1K13) including the variable heavy and light
chain sequences and the CDR sequences of the antibody.
Figure 2. Binding of AT14-013 to AML cell lines and freshly isolated primary AML
blasts from newly sed patients. FAB: -American-British classification of
AML tt et al. 1976).
Figure 3. AT14-013 binds to AML cell lines and primary isolated AML cells.
Representative examples of binding of AT14-013 derived from patient 101 to the AML
cell lines Kasumi3, SH-2, Molm13 and THP-1 and to primary leukemic blasts isolated
from newly diagnosed AML patients (FAB classification M0-M5). An in-house produced
human antibody specific for influenza was used as a negative control (grey filled
histograms).
Figure 4. AT14-013 also binds to leukemic blasts from patients with isk
myelodysplastic syndrome (MDS/RAEB I and II) and blast crisis chronic myeloid
leukemia (CML). Depicted are representative examples; indicated are patient
identification codes except K562 which is a CML cell line. An in-house produced human
antibody against influenza was used as a negative l (grey filled histograms).
* BL-060: biphenotypic leukemia, responding well to AML treatment.
Figure 5. AT14-013 does not bind to eloid cells. (a) AT14-013 did not bind to
healthy PBMCs, T cells , B cells (CD19+), non activated monocytes ) or
primary isolated thymocytes (except for a small population of d cells that are
present in fetal thymus). (b) AT14-013 also did not bind primary isolated B- or T- ALL
cells, lymphoma’s or multiple myeloma. (c) AT14-013 also did not bind colon carcinoma
cell lines or primary isolated cells from patients with colon carcinoma (Colon CA) or
healthy colon or ileum.
AT14-013 did bind to granulocytes (a) and human melanoma cell lines (c). An se
produced human antibody against influenza was used as a negative control (grey filled
histograms).
Figure 6. CDC and ADCC. Calcein labeled THP-1 cells were incubated with
AT14-013 and rabbit serum complement. Living cells were identified as calcein+, dapicells.
With our bead based assay the amount of dead cells could then be calculated as a
measure of complement dependent cell death (CDC). Incubation of THP1 cells with
CD33 did not induce CDC (left panel). AT14-013 is also able to induce antibody
ent cell cytotoxicity (ADCC) in a Jurkat reporter system with the AML cell line
SH-2 or freshly isolated leukemic blasts as target cells (right panel).
Figure 7. Target identification of AT14-013: precipitation (IP). IP with
biotin-labeled (via a sortase tag) AT14-013 of THP1 cell lysates yielded a ~140kDa band
on an Imperial Coomassie stained gel. The band is specific as it is not seen in the AT10-
002 IP of THP1 lysate or in the Jurkat lysate IP. The band was excised from gel and the
target ified as CD43 by mass spectrometry.
Figure 8. Target mation of AT14-013. THP-1 and Molm13 lysates were
immunoprecipitated with AT14-013 or with the influenza-specific antibody AT10-002.
Western blot analysis with mouse-anti-CD43 (clone Mem59) confirmed CD43 as the
binding target of AT14-013.
Figure 9. AT14-013 binds to a unique CD43 epitope. (a) THP-1 cells were stained
with the commercially available CD43 specific antibodies DF-T1, 84-3C1, L10 and
Mem59 and with AT14-013. All antibodies bound to the membrane of THP-1 cells. (b)
AT14-013 has a different binding profile compared to commercially available CD43-
specific dies. In Kim ea, (Kim et al. 2014), binding of cially ble CD43
antibodies YG5, 2C8, 8E10 and DFT-1 to various cell lines is summarized. We compared
binding of AT14-013 to the same cell lines and found a different binding pattern. (c) A
competition experiment with AT14-013 and commercially available CD43 specific
antibodies was performed as indicated. Briefly, THP-1 cells were incubated with
indicated antibodies at increasing concentrations, after which the possibly competing
antibody (referred to as ‘competing dy’) was added. AT14-013 binding to THP-1
target cells was not affected by pre-incubation of the cells with commercially available
CD43 antibodies, while these commercially ble CD43 dies did inhibit each
other’s g to THP-1 cells. Results are shown for experiments wherein AT14-013 or
84-3C1 was the “competing antibody”. (d) Summary of competition experiments.
AT14-013 does not compete with commercially available CD43 antibodies for binding to
THP-1, ting that AT14-013 binds a different epitope.
Figure 10. osylation of THP-1 cells with neuraminidase (sialidase) s the
sialic acids from the cell membrane. “No” indicates no inidase treatment and
“1:20” and “1:200” indicates the neuraminidase dilution. Antibodies AT14-013, Mem59,
DF-T1 and 84-3C1 lost binding to THP-1 cells after neuraminidase treatment of these
cells. Clone L10 is not binding to a sialilated epitope of CD43, as neuraminidase
treatment of THP-1 cells did not affect g of this antibody to its target cells.
Figure 11. CD43 truncated variants map the epitopes of commercially available
antibodies DF-T1 and MEM59. a) blot of HEK293T cells expressing truncated
variants of CD43 probed with anti-CD43 directed towards the intracellular C-terminal
tail of the protein. b) Immunostaining of the same blot with CD43 specific antibodies
MEM59 (upper panel) and DF-T1 (lower panel) revealed the presence of their e in
region ‘C’ (amino acids .
Figure 12. Immunoprecipitation of CD43 truncated variants from THP1 cells
identifies the AT14-013 epitope. a) Immunoblot of input lysates of sorted CD43
truncated variant overexpressing THP1 cells probed with anti-Flag antibody. uS
staining demonstrates equal loading of s. All mutant proteins are sed. b)
Anti-Flag blot of eluted immunoprecipitations of THP1 variant cell lines with
AT14-013 reveals binding to mutants A-F and no binding to mutants H-J, defining the
epitope. c) Immunoblot with anti-CD43 cytoplasmic tail binding antibody )
showing endogenous immunoprecipitated CD43 in all samples as well as staining of
truncated variants.
Figure 13. Amino acid sequence of CD43 (genbank CCDS10650.1). The signal peptide,
AT14-013 epitope, transmembrane domain and intra- and extracellular domains are
indicated.
Figure 14. Binding of AT14-013 to other AML blasts. Binding of AT14-013 to freshly
isolated primary AML blasts (CD45dim) from newly diagnosed patients. An in-house
produced human antibody specific for influenza was used as a negative control. For the
commercial mouse anti CD43 antibodies a mouse anti CMV was used as control.
WHO: Swerdlow S.H. WHO classification of Tumours of Haematopoietic and Lymphoid
tissues (2008). CD43+ T cells and tonsil cells were used as extra control for the assay.
AT14-013 does not bind to these healthy cells.
(% gated = -;<10%, +; 10∼25%, ++; 25∼50%, +++; 50∼75%, ++++; 75∼100%)
Figure 15. ADCC and CDC.
a) AT14-013 (open s) is e of inducing antibody dependent cell ed
xicity (ADCC) on the AML cell line SH-2 with PBMCs in an effector target ratio of
50:1. Living cells were identified as calcein+, dapi- cells. With our bead based assay the
amount of dead cells could then be calculated. Incubation of SH2 cells with AT10-002 did
not induce ADCC (black dots). The calculated EC50 for AT14-013 is 0,16ug/ml.
Calcein labeled SH-2 cells (b) were incubated with AT14-013 (open squares) or AT10-002
(black dots) and rabbit serum complement. Living cells were fied as calcein+, dapi-
cells. Incubation of SH2 cells or AML blasts with AT10-002 did not induce CDC (black
dots). The calculated EC50 for AT14-013 was 1,86 ug/ml.
Figure 16.
a) Anti-Flag immunoblot of eluted immunoprecipitations of THP1 t cell lines with
AT14-013 reveals binding to mutants A-F2, binding to a lesser extent to G, and no
binding to mutants H-J. b) Immunoblot with anti-CD43 cytoplasmic tail binding
antibody (Novus) showing nous immunoprecipitated CD43 in all samples as well
as staining of truncated variants. This control confirms that the immunoprecipitation
was successful for all samples shown.
Figure 17.
a) Treatment of mice engrafted with SH-2 AML cells leads to a tumor growth inhibition
of 90.3 % as measured at the ice by whole body measurement 01, repeated
ANOVA).
b) The number of AML cells, measured by the number of photon per minute (cpm)
exhibits a strong decrease in all the organs measured (p=0.0011, repeated 2way
ANOVA).
c) Evaluation of the number of tumor cells by FACS in the bone marrow and the liver
(p=0.0017, 2way ANOVA).
Figure 18.
Representative examples of g of AT14-013 to fetal CD34+ hematopoietic stem cells
(HSC) but not to fetal CD34+CD38+ progenitor cells or fetal CD34-CD38- mature cells.
Grey filled histograms: control antibody AT10-002 directed against influenza, described
in .
Figure 19.
AT14-013 reacts with gous leukemic stem cells.
AML blasts of donor # 101 (the same donor from whom the B cells ing AT14-013
were obtained) were stained with AT14-013 and with antibodies specific for CD34 and
CD38, and with an antibody against CD45 (BD, cat 348815) to distinguish the general
blast population (CD45 dim) from healthy cells in the bone marrow and analyzed by flow
cytometry.
Examples
MATERIAL & METHODS
Patient and healthy human als
Study protocols were approved by the Medical Ethical Committee of the Academic
Medical Centre. All participants signed informed consent. Participants included healthy
individuals and patients with hematologic malignancies recruited from our clinic that
donated peripheral blood and/or bone marrow.
Generation of AML-specific clone AT14-013
As described in Example 2 of , transduced naïve and memory IgG B
cells of AML patient 101, immortalized by introduction of Bcl6 and Bcl-xL as described
usly enbos et al., Nat Med 2010 and Example 1 of ), were
seeded at a concentration of 20 or 40 cells per well (hereafter named microcultures) and
expanded with IL-21 and CD40L. Supernatants of expanded B cell microcultures were
then screened for dy binding to AML cell lines (amongst others THP-1,
MonoMac6), and to liver and colon cell lines, by FACS, using human IgG H+L AF647
(Life Technologies) or human-IgG-PE ern Biotech) as a secondary antibody.
Several in-house generated antibodies were used as negative control antibodies, such as
anti-CD30 (expressed on activated B and T lymphocytes), D33 ssed on
monocytes, myeloid progenitor cells and d leukaemias), D25 (against RSV;
described in ) and AT10-002 (against nza; described in
). Microcultures binding to AML cell lines but not to liver and colon cell
lines were selected and seeded at a tration of 1 cell/well and their supernatants
tested again for specificity for AML cell lines. Clones with supernatants specifically
binding AML cell lines and not liver or colon cell lines, or healthy PBMC and bone
marrow were selected for sequencing. Clones were expanded under normal culture
conditions in the presence of FBS IgG low serum (Hyclone) and antibodies purified from
the supernatants of these cultures as described below for the recombinant antibodies.
The recombinant antibodies were then again tested for specific binding. One of the
obtained AML-specific antibodies was AT14-013. The ered AT14-013 antibody was
additionally tested on many freshly isolated blasts of newly diagnosed AML patients
(FAB M0-M5) for binding, using human IgG H+L AF647 (Life Technologies) as a
secondary antibody.
Cloning of AML-specific antibody AT14-013
As described in Example 1 of , to produce recombinant antibody we
isolated total RNA with the ® mini kit (Qiagen), generated cDNA, performed
PCR and cloned the heavy and light chain variable regions into the pCR2.1 TA cloning
vector (Invitrogen). To rule out reverse transcriptase or DNA polymerase induced
mutations, we med several independent cloning experiments. To produce
recombinant mAb we cloned heavy and light variable regions of each antibody in frame
with human IgG1 and Kappa constant regions into a pcDNA3.1 (Invitrogen) based vector
and transiently transfected 293T cells. We purified recombinant antibodies from the
culture supernatant with Protein A or G, depending on the Ig subtype of the clone.
CDC and ADCC
To quantify complement dependent cell death (CDC) of target cells induced by AML-
specific antibody AT14-013 we used a FACS-based leukemia cell lysis assay. THP-1 cells
were incubated with 2 μM Calcein AM (Becton Dickinson) for 30 minutes at 37°C.
Calcein labeled THP-1 cells were incubated together with antibodies and rabbit serum
complement for 4 hours at 37°C. FACS calibration beads (Accudrop Fluorescent Beads,
BD Biosciences) were added to the cells in a 50/50 ratio after which a rd amount
of beads was acquired with FACS. As an equal assay volume was ained by the
calibration beads, the amount of dead cells was calculated as: 100 - ((Dapi negative,
Calcein AM ve cells in respective treatment/Dapi negative, Calcein AM positive
cells in control) × 100). For the dy dependent cell mediated cytotoxicity (ADCC) we
generated a read-out system with Jurkat cells that were stably transduced with
NFAT(6x)-IL2 (minimal promoter)-GFP and CD16a IIa). Activation of the CD16a
receptor by bound antibody in this system activates NFAT which induces GFP
expression that is then used as a read-out to fy effector cell activation. AML cells
t cells) were ted with dies and mixed with Jurkat cells (effector cells)
that were stained with Calcein AM as described above. Effector : target ratio was 1:1.
AT14-013 target fication and validation
THP-1 cells were lysed (0,5% Triton X114 (Sigma), 150mM NaCl, 10mM Tris-HCL
pH7.4, 1,5mM MgCl2 supplemented with protease and phosphatase inhibitors (Roche))
and ared with an irrelevant antibody (in-house generated RSV antibody D25),
Protein-G and Streptavidin beads (Pierce) to remove non specific binding proteins.
Precleared lysate was then incubated with bead-bound AML-specific antibodies or with
the influenza specific antibody AT10-002 as a negative control (3 hrs at 4°C). Antibody-
incubated beads were washed five times in lysis buffer supplemented with 0,5%
Deoxycholate and 0,1% SDS, bound proteins were eluted from the beads (0,1M Glycine
pH10,5, 150mM NaCl, 1% Triton X100, 1mM EDTA) and then run on an GE gel.
85% of IP samples was run on SDS-PAGE and stained with Imperial protein stain
(Pierce) to stain total proteins and excise specific bands for Mass Spectrometry. The rest
of the IP samples were run on SDS-PAGE and transferred to PVDF membrane (Bio-
RAD) for immunoblotting. The blot was stained with Ponseau S to reveal total protein
and blocked with BSA, then incubated with mouse-anti-CD43 (clone MEM-59, Abcam)
for Western blot analysis.
Epitope mapping: competition
THP-1 cells were pre-incubated for 60 minutes on ice with AT14-013 and the
commercially available CD43 antibodies: mouse anti human CD43 PE (Ebioscience;
clone 84-3C1), mouse anti human CD43 FITC (Invitrogen; clone L10), mouse anti human
CD43 FITC (Abcam; clone ), mouse anti human CD43 unlabeled ; clone
MEM-59), mouse anti human CD43 unlabeled (Thermo Scientific; clone DF-T1). The
maximum blocking antibody concentration was 10ug/ml. Next, the ing antibody
was added with a final concentration of 1 ug/ml. With this step, the final concentration of
the blocking antibodies is 2ug/ml. Cells were incubated for 30 minutes on ice, after which
dapi (Sigma) was added to exclude dead cells from the analyses. Samples were analyzed
by flow cytometry.
Epitope mapping: deglycosylation
THP-1 cells were incubated with neuraminidase ; dilution 1:20 or 1:200) for 60
minutes at 37°C to remove sialic acids from CD43 (de Laurentiis et al. 2011). Cells were
then washed, blocked in 60% normal goat serum and ted with AT14-013 and the
commercially available CD43 antibodies DF-T1, , L10 and MEM-59 as described
above. To allow ison of cell staining with different fluorochromes, binding to
untreated cells (no inidase) was set to 1. Depicted in Figure 10 is fold increase /
se of g to neuraminidase treated cells.
Epitope mapping: CD43 truncated variants.
CD43 cDNA was obtained from Geneart (Life Technologies) and adapted to contain a
3xFLAG tag in-frame on either C- or N-terminus (C-terminal to the signal peptide,
sing the first 19 amino acids of CD43). The cDNA was cloned into the pHEF-TIG
third-generation lentiviral vector ning an IRES-GFP 3’ of the CD43 cDNA; VSV-G
lentiviral particles were produced in HEK293T cells. THP1, MOLM and other cells were
transduced with these viruses in the presence of retronectin and sorted for GFP to obtain
a pure population of CD43 overexpressing cells. Truncated CD43 variants were
constructed by PCR-cloning of the CD43 C-terminal FLAG-tagged cDNA to contain the
signal peptide (AA 1-19) followed by the wild-type full length extracellular sequence
(variant A: S20-P400, followed by 3xFLAG: DYKDHDGDYKDHDIDYKDDDDK) or
truncated extracellular sequences (variant B-J). B: 31-400; C: 59-400; D: 82-400; E: 112-
400; F: 133-400; G: 166-400; H: 184-400; I: 202-400; J: 220-400 (the embrane
domain starts at AA 255. These variants were expressed in THP1 cells by lentiviral
transduction and GFP . Sorted cells were lysed and immunoprecipitated with
AT14-013 and l as described above. Eluted IP samples were run on SDS-PAGE
and immunoblotted with anti-FLAG-HRP (Sigma) to reveal binding.
RESULTS
13 specifically binds to AML cells
In this Example we identify the target of the AML specific antibody 13 that was
recently developed in our laboratory ( and figure 1). This antibody is
derived from a patient called t 101. He was sed with an ediate-risk
AML (no cytogenetic or molecular abnormalities; FAB classification AML-M5) at the age
of 49 years. He received two courses of chemotherapy (cytarabine, idarubicine,
amsacrine) and one course of idation chemotherapy (busulphan,
cyclophosphamide) followed by an autologous hematopoietic stem cell lantation
(HSCT), as there was no HLA-matched sibling stem cell donor ble. Fourteen
months after the first diagnosis his disease relapsed. He obtained complete remission
after one cycle of high-dose cytarabine, after which he received a reduced intensity
allogeneic HSCT of a matched, unrelated donor (RIST-MUD). Six weeks later he
developed acute GvHD of skin, liver and intestine (stage 1; grade II) that responded well
to corticosteroid therapy. Given the fact that this patient remained disease free for over
years now, despite the high-risk nature of his disease, this patient can be considered to
have generated a potent graft versus AML response which was the reason he was
selected to search for potent AML-specific antibody responses. B cells were ed from
a phlebotomy product obtained from this patient 38 months post-HSCT, immortalized by
introduction of Bcl6 and Bcl-xL as described previously (Kwakkenbos et al., Nat Med
2010) and cultured in 20 or 40 cells/well concentrations. Supernatants of these
microcultures were screened for binding to AML cell lines and microcultures specific for
AML subcloned in one cell/well concentrations. One of the dies identified through
this procedure is 13, an IgG1 kappa, highly somatic hypermutated antibody.
AT14-013 binds specifically to a wide variety of AML cell lines and primary AML cells,
covering all AML FAB classifications, as shown in figure 2. In figure 3, a number of
representative es of AT14-013 binding to Kasumi3, SH-2, Molm13 and THP-1
and to y leukemic blasts isolated from newly diagnosed AML patients are shown.
In addition, AT14-013 binds to other myeloid malignancies such as AML from high-risk
myelodysplastic syndrome (MDS/RAEB I/II) or blast crisis chronic myeloid leukemia
(CML) and the CML cell line K562 e 4). AT14-013 did show some binding to
granulocytes but did not bind to healthy peripheral blood mononuclear cells (PBMC),
bone marrow, thymocytes, hematologic malignancies of the lymphatic e or healthy
or malignant cells of liver and colon. AT14-013 did bind to cultured melanocytes and
melanoma cell lines (figure 5).
AT14-013 induces CDC and ADCC of target cells
AT14-013 can induce complement ent cytotoxicity and antibody dependent
cellular cytotoxicity (figure 6) of AML cell lines and primary isolated AML blasts.
The target of AT14-013 is a unique epitope of CD43
We then identified the target of AT14-013. precipitation (IP) of THP-1 lysate
incubated with biotin-labeled sortase-tagged AT14-013 yielded a ~140kDa band. The
band is ic as it was not seen in the AT10-002 IP of THP1 lysate nor in the Jurkat
lysate IP (figure 7). Mass-spectometry analysis of the immunoprecipitation band
ed CD43 as the target protein. Three out of three expected intracellular peptides
were identified, giving a 7% coverage of the protein, extracellular peptides were not
identified since these are heavily glycosylated. CD43 binding by AT14-013 was
med by western blot is. Briefly, THP-1 and Molm13 lysates were
immunoprecipitated with 13 or with the influenza-specific antibody AT10-002.
Western blot analysis with mouse-anti-CD43 (clone Mem59) confirmed CD43 as the
binding target of AT14-013 (figure 8).
CD43 is widely expressed on healthy and malignant cells. CD43-specific antibodies have
been generated and are commercially available, such as DF-T1, 84-3C1, L10 and MEM-
59. With these antibodies we confirmed CD43 expression by THP-1 cells (figure 9a). The
observation that AT14-013 does not bind to non-myeloid cells and the different binding
profile of AT14-013 to all sorts of cells and cell lines compared to other CD43 antibodies
(figure 9b) suggests that AT14-013 recognizes a different CD43 epitope than the other
CD43 antibodies. Indeed, when we performed competition experiments, incubating THP-
1 cells with commercially available CD43 dies and AT14-013, we found that these
CD43 antibodies compete with each other for binding to THP-1, but not with AT14-013
(figure 9c and figure 9d). Of note, CD43 clones L10 and 84-3C1 have been described to
compete with each other (L. Borche et al 2005); this is confirmed in our ment.
The CD43 protein is a highly glycosylated protein (de Laurentiis et al. 2011). The CD43
antibodies Mem59, DF-T1 and 84-3C1 (but not L10) bind to a sialylated epitope, as after
pretreatment of target cells with neuraminidase, which removes all α-N-acetylneuramic
acids c acids), binding of these dies to CD43 is lost (US2010/0234562A1). In
figure 10 we trate that binding of 13 to THP-1 cells is also lost upon preincubation
of THP-1 cells with neuraminidase, demonstrating that 13 specifically
binds to a sialylated epitope of CD43.
To more specifically identify the binding epitope of AT14-013, we generated 10 Flagtagged
extracellular-truncated variants of CD43 that were expressed in HEK and THP1
cells. Western blot analysis of lysates of these cells incubated with Mem59 or DF-T1
confirmed g of these antibodies to a similar epitope between amino acids 59-82
e 11a,b). We tested 13 binding by immunoprecipitation of THP1 cells
transduced with these truncation variants. AT14-013 interacts strongly with ts AF
, to a lesser extent with variant G, and not with variants H-J as shown in the anti-Flag
immunoblot of the IP’s (Figure 12a,b). In figure 12c we med the AT14-013 IP with
an anti C terminal CD43 antibody. In all samples endogenous CD43 was present,
whereas there was only truncated CD43 present up to variant G. We therefore conclude
that the epitope of AT14-013 lies between amino acids 133 and 184.
e 2; Binding to AML blasts
Material & methods
Binding of antibody AT14-013 to different cells was tested using the methodology as
described in Example 1 under the heading ‘Generation of AML-specific clone AT14-013’.
Patient samples were stained with anti human CD45 (BD) prior to the assay. AML cells
were defined as CD45dim. Healthy PBMCs were stained with anti human CD3
(biolegend). Polymorph nuclear cells d from tonsil were isolated by ficol density
gradient.
RESULTS
AT14-013 binds specifically to a wide variety of AML cell lines and primary AML cells,
covering all AML FAB classifications, as shown in Example 1 and Figure 4. Additionally,
we tested the antibody on a broader panel of AML blasts. It showed to bind to all AML
blasts tested so far and often better than the commercial anti CD43 antibodies did.
Interestingly, the sialic acid ndent L10 antibody was binding the least in almost
all samples. In on the antibodies were tested on healthy CD43 expressing T cells
and cells derived from tonsil. Here, only the commercial antibodies showed staining. The
results are summarized in Figure 14.
Example 3; ADCC and CDC
In addition to Example 1 and Figure 6, r ADCC and CDC experiment was
performed.
Material & methods
To fy antibody dependent cell-mediated xicity (ADCC) and complement
dependent cellular cytotoxiciy (CDC) of target cells induced by AML-specific antibody
AT14-013 we used a FACS-based leukemia cell lysis assay. SH2 cells were incubated
with 10 nM Calcein AM (Becton Dickinson) for 30 minutes at 37°C. Calcein d cells
were then incubated together with antibodies and y peripheral blood mononuclear
cells (PBMCs; or:Target 50:1) for 4 hours or rabbit serum complement for 1 hour at
37°C. FACS calibration beads (Accudrop Fluorescent Beads, BD Biosciences) were added
to the cells in a 50/50 ratio after which a standard amount of beads was acquired with
FACS. As an equal assay volume was ascertained by the ation beads, the amount
of dead cells was calculated as: 100 - ((Dapi negative, Calcein AM positive cells in
respective treatment/Dapi negative, Calcein AM positive cells in l) × 100).
S
AT14-013 induces CDC and ADCC of target cells
13 can induce antibody dependent cell mediated cytotoxicity (figure 15A) and
induce complement dependent cytotoxicity (figure 15B) of AML cell lines and primary
isolated AML blasts.
Example 4; Epitope g: CD43 truncated variants
In addition to e 1 and Figure 12, the binding epitope of AT14-013 was further
investigated.
Material & methods
The same methods as in Example 1 were used. CD43 cDNA was obtained from Geneart
(Life Technologies) and adapted to contain a 3xFLAG tag in-frame on either C- or N-
terminus (C-terminal to the signal peptide, comprising the first 19 amino acids of CD43).
The cDNA was cloned into the pHEF-TIG third-generation lentiviral vector containing
an FP 3’ of the CD43 cDNA; VSV-G lentiviral particles were produced in
HEK293T cells. THP1, MOLM and other cells were transduced with these viruses in the
presence of retronectin and sorted for GFP to obtain a pure population of CD43
transduced cells. Truncated CD43 variants were constructed by PCR-cloning of the CD43
C-terminal FLAG-tagged cDNA to contain the signal e (AA 1-19) followed by the
wild-type full length extracellular sequence (variant A: S20-P400, followed by 3xFLAG:
DYKDHDGDYKDHDIDYKDDDDK) or truncated extracellular sequences (variant B-J).
B: 31-400; C: ; D: 82-400; E: 112-400; F: 133-400; F2: 148-400; G: 0; H: 184-
400; I: 202-400; J: 220-400 (the transmembrane domain starts at AA 255). These
variants were expressed in THP1 cells by lentiviral transduction and GFP . Sorted
cells were lysed and immunoprecipitated with AT14-013 and control as described above.
Eluted IP samples were run on SDS-PAGE and immunoblotted with anti-FLAG-HRP
(Sigma) to reveal binding.
RESULTS
The target of AT14-013 is a unique epitope of CD43
To more specifically identify the binding e of 13, we generated 11 Flagtagged
extracellular-truncated variants of CD43 that were expressed in THP1 cells. We
tested 13 binding by immunoprecipitation of THP1 cells transduced with these
truncation variants. AT14-013 interacts strongly with variants A-F, to a lesser extent
with variant F2, to a lesser extent with variant G, and not with variants H-J as shown in
the anti-Flag immunoblot of the IP’s (Figure 16A+B). In figure 16b we confirmed the
AT14-013 IP with an anti C terminal CD43 antibody. In all samples endogenous CD43
was present, whereas there was only truncated CD43 present up to t F2. We
therefore conclude that the epitope of AT14-013 comprises one or more amino acid
residues that are present between amino acids 133 and 165. In view of the fact that
AT14-013 interacts to a lesser extent with variant F2 (starting at amino acid position
148 as ed in Figure 13), we also conclude that the epitope of AT14-013 at least
comprises one or more amino acid residues that are present n amino acids 133
and 147.
Example 5; 13 inhibits AML growth in vivo.
Currently known mental protocols are for instance described in Miller et al., Blood
(2013), 1, No.5, e1-e4.
In order to evaluate the cy of AT14-013 against AML in vivo, immunodeficient mice
reconstituted with human hematopoietic cells and xenografted with SH-2 cells were
treated. Six female NOD.Cg-Prkdcscid Il2rgtm1Wjl/SzJ (NSG, The Jackson Laboratory) were
humanized by injecting 50 000 CD34+CD38- hematopoietic stem cells in the liver of
sublethally irradiated newborns (1-5 days). At 8 weeks, mice were bled to evaluate the
engraftment of human hematopoietic cells in their blood. Only mice with higher than
% of human chimerism in the peripheral blood were used in this experiment. Five out
of 6 mice met this criterion and were intravenously inoculated at d0 with 10x106 SH-2
cells expressing luciferase and GFP. At d14, mice were injected IP with luciferin (150
mg/kg) and the tumor tment was assessed by in vivo bioluminescence. Based on
this measurement, mice were randomized in 2 groups and subsequently dosed by iv
inoculation of AT14-013 or antibody AT10-002 (against nza, described in
, as control) (375 μg) twice per week. The bioluminescence was
measured every week as described above. On d39, mice were sacrificed by cervical
ation under deep anesthesia and the organs were exposed and fied for
bioluminescence. Single-cell suspension was obtained for the liver and the bone marrow
and the ce of SH-2 GFP+ cells was quantified by FACS. Treatment of mice
engrafted with SH-2 AML cells leads to a tumor growth inhibition of 90.3 % as measured
at the sacrifice by whole body measurement (p<0.001, ed ANOVA, Figure 17A).
The number of AML cells, measured by the number of photon per minute (cpm) exhibits
a strong decrease in all the organs ed (p=0.0011, ed 2way ANOVA, Figure
17B). This observation is confirmed by the evaluation of the number of tumor cells by
FACS in the bone marrow and the liver (p=0.0017, 2way ANOVA, Figure 17C).
Hence, an antibody that is specific for a CD43 peptide described herein is particularly
suitable for in vivo treatment or prevention of a myeloproliferative or
lymphoproliferative disorder such as AML.
Example 6
Material & Methods
Fetal liver, bone marrow and thymus tissue between week 16 and 21 of gestation was
obtained from the Human Immune System (HIS) Mouse Facility at the AMC (under
Dutch law: Wet Foetaal Weefsel). CD34 enriched mononuclear cell suspensions from
tissues were obtained by disrupting whole organs using a Stomacher followed by density
gradient centrifugation and magnetic bead separation. CD34 enriched cell suspension of
fetal bone marrow was prepared by density gradient centrifugation and magnetic bead
separation.
Binding of antibody AT14-013 to cells from fetal liver, fetal thymus and fetal bone
marrow was tested by flow cytometry, using commercially ble CD34 (BD, cat.
343516) and CD38 (BD, cat. 303522) antibodies to distinguish the different subsets in
these samples.
RESULTS
13 specifically binds to an oncofetal epitope of CD43
As described herein before, AT14-013 is a CD43-specific antibody that recognizes a
unique, onco-sialylated tumor antigen that is expressed predominantly by AML and
MDS blasts. Tumor antigens are either abnormal proteins with specific
expression or ntly expressed normal proteins such as onco-fetal antigens, which
are antigens that are normally only expressed during ny by fetal tissues.
Neoplastic transformation of cells is frequently associated with the expression of
oncofetal antigens. We found that the AT14-013 epitope of CD43 was expressed by
CD34+ CD38- hematopoietic stem cells obtained from fetal liver and fetal bone marrow,
but not by CD34+ CD38+ progenitor cells or CD34- CD38- mature cells obtained from
fetal liver and fetal bone marrow (Figure 18). These results demonstrate that AT14-013
is able to bind to an oncofetal-sialylated epitope of CD43 that in adults is widely
expressed by AML and MDS.
Example 7
AML blasts of donor # 101 (the same donor from whom the B cells producing AT14-013
were obtained) were stained with AT14-013 and with dies specific for CD34 and
CD38 (same ure as in Example 6), and with an antibody against CD45 (BD, cat
348815) to distinguish the general blast population (CD45 dim) from healthy cells in the
bone marrow and analyzed by flow try (Figure 19). This shows that AT14-013
binds leukemic blasts of the patient it was found in. AT14-013 binds CD34+CD38- blasts
that include the leukemic stem cells.
It is therefore concluded that antibody AT14-013 reacts with autologous leukemic stem
cells, which makes 13 particularly suitable for treatment or prevention of
myeloproliferative or lymphoproliferative disorders e it also targets the ic
stem cells, which are known to be more therapy resistant and often responsible for
relapse of disease after treatment.
From this it follows that another antibody that is specific for a CD43 e described
herein, such as an antibody that competes with antibody AT14-013 for binding to CD43,
is also ularly suitable for treatment or prevention of myeloproliferative or
lymphoproliferative disorders.
References
Bennett, J.M. et al., 1976. Proposals for the classification of the acute leukaemias.
French-American-British (FAB) co-operative group. British Journal of Haematology,
33(4), pp.451–458.
Borche, L. et al., 2005. CD43 monoclonal antibodies recognize the large sialoglycoprotein
of human leukocytes. European Journal of Immunology, 17(10), pp 1523-1526
European Patent No. 1974017
Hanly et al. Review of polyclonal antibody production procedures in mammals and
y. ILAR Journal (1995); Vol.37, Number 3: 93-118
International patent application No.
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Kim et al. Characterization of two novel mAbs recognizing different epitopes on CD43.
Immune Network (2014). Vol. 14, No. 3: 0
Kwakkenbos MJ et al. Generation of stable monoclonal antibody-producing B cell
receptor-positive human memory B cells by genetic programming. Nat Med. 2010.
16(1):123-8.
de tiis, A. et al., 2011. Mass ometry-Based Identification Of The Tumor
Antigen UN1 as the Transmembrane CD43 Sialoglycoprotein. Molecular & Cellular
Proteomics, 10(5), 1.007898–M111.007898
Malcovati, L. et al., 2013. Diagnosis and treatment of primary ysplastic
syndromes in adults: endations from the European LeukemiaNet. Blood, 122(17),
pp.2943–2964
Miller et al., Blood (2013), Vol.121, No.5, e1-e4
Schmid K, Hediger MA, Brossmer R, et al. Amino acid sequence of human plasma
galactoglycoprotein: identity with the extracellular region of CD43 (sialophorin). Proc.
Natl. Acad. Sci. U.S.A. 1992;89(2):663–667
Shelley et al. Molecular characterization of horin (CD43), the lymphocyte surface
sialoglycoprotein defective in Wiskott-Aldrich syndrome. Proc. Natl. Acad. Sci. U.S.A.
1989; Vol. 86: 2819-2823
Swerdlow S.H. WHO classification of Tumours of Haematopoietic and Lymphoid Tissues.
ational Agency for ch on , 2008. ISBN: 9788320
Tuccillo et al. Cancer-associated CD43 glycoforms as target of immunotherapy.
Mol.Cancer ther. (2014a) 13(3): 752-762
Tuccillo et al. Aberrant ylation as biomarker for cancer: focus on CD43. BioMed
research International (2014b) Article ID 742831, 13 pages.
http://dx.doi.org/10.1155/2014/742831
US patent No. 9,005,974
Claims (31)
1. An isolated, recombinant or purified CD43 peptide with a length of at most 100 amino acid es, wherein said peptide comprises an amino acid sequence 5 GTITTNSPETSSRTSGAPVTTAASSLETSRGTS, and wherein said peptide has an acute myeloid leukemia (AML)-specific sialylation pattern or a ysplastic syndrome (MDS)-specific sialylation pattern.
2. A compound, comprising the CD43 peptide according to claim 1.
3. An isolated, synthetic or recombinant nucleic acid molecule encoding the CD43 peptide according to claim 1.
4. A vector comprising the nucleic acid le according to claim 3.
5. Use of the CD43 peptide according to claim 1, the compound according to claim 2, the nucleic acid molecule according to claim 3, or the vector according to claim 4, for inducing, isolating, ing, binding, detecting and/or obtaining an immune cell and/or an antibody, or a functional part thereof that is capable of binding the same antigen as 20 said antibody, directed against said CD43 peptide, wherein said use is not practiced on a living human being.
6. In vitro use of the CD43 peptide according to claim 1, the compound according to claim 2, the nucleic acid molecule according to claim 3, or the vector according to claim 4, 25 for inducing, ing, producing, binding, detecting and/or obtaining an immune cell and/or an antibody, or a functional part thereof that is capable of g the same antigen as said antibody, directed against said CD43 peptide.
7. Use according to claim 5 or 6, wherein said immune cell or antibody or functional 30 part is able to ically bind myeloproliferative or lymphoproliferative cells.
8. The use ing to claim 7, wherein said myeloproliferative cells are acute myeloid leukemia (AML) cells, myelodysplastic syndrome (MDS) cells, or chronic myeloid leukemia (CML) cells.
9. An isolated, recombinant or purified dy, or a functional part thereof that is capable of g the same antigen as said antibody, that competes with an antibody comprising a heavy chain CDR1 sequence SPNWWT and a heavy chain CDR2 sequence EIYYGGRVSYNSALRS and a heavy chain CDR3 sequence AGQKNIGCGYSSCFISWFDT and a light chain CDR1 sequence KSSQTILQRSNHLNYLA and a light chain CDR2 ce WASTRES and a light chain 5 CDR3 sequence HQYYTTPQT for binding to the CD43 peptide according to claim 1 at the GTITTNSPETSSRTSGAPVTTAASSLETSRGTS sequence.
10. An immunogenic composition comprising the CD43 peptide according to claim 1, or the nd according to claim 2, or the nucleic acid le according to claim 3, 10 or the vector ing to claim 4.
11. The immunogenic composition according to claim 10, wherein said composition is a pharmaceutical composition which also comprises a pharmaceutically acceptable carrier, diluent or excipient.
12. A stic kit comprising the CD43 peptide ing to claim 1 or the compound according to claim 2, and means for detecting an antibody or immune cell.
13. Use of the CD43 peptide according to claim 1, or the compound according to claim 20 2, or the nucleic acid molecule according to claim 3, or the vector according to claim 4, in the preparation of a medicament or prophylactic agent for treating or preventing MDS, AML or CML in a patient in need thereof.
14. Use of the CD43 peptide according to claim 1, or a compound according to claim 2, 25 or the nucleic acid le according to claim 3, or the vector according to claim 4, in the preparation of a medicament for treating of a myeloproliferative or lymphoproliferative disorder. 30
15. Use of the CD43 peptide according to claim 1, or the compound according to claim 2, in the preparation of a stic agent.
16. Use of a CD43 peptide according to claim 1, or a compound according to claim 2, in the preparation of a diagnostic agent for diagnosing AML.
17. An in vitro method for determining whether an individual has AML, the method comprising contacting the CD43 peptide ing to claim 1, or the compound according to claim 2, with antibodies and/or immune cells of said individual and determining whether said CD43 peptide or said compound is bound by at least one of said dies 5 and/or immune cells of said individual.
18. A method for producing an immune cell and/or antibody that is able to ically bind lymphoproliferative cells and/or myeloproliferative cells, the method comprising immunizing a non-human animal with the CD43 peptide according to claim 1, or with 10 the nd according to claim 2, or with the nucleic acid molecule according to claim 3, or with the vector according to claim 4.
19. The method according to claim 18, further comprising harvesting an immune cell and/or antibody that is able to specifically bind lymphoproliferative cells and/or 15 myeloproliferative cells, from said non-human animal.
20. An isolated host cell comprising the nucleic acid le according to claim 3, or the vector according to claim 4. 20
21. The method of claim 18 or 19, wherein the immune cell and/or antibody is an AML-specific immune cell or an AML-specific antibody.
22. A CD43 peptide as claimed in claim 1 ntially as herein described and with reference to any example thereof.
23. A compound as claimed in claim 2 substantially as herein described and with reference to any example thereof.
24. A nucleic acid molecule as claimed in claim 3 ntially as herein described 30 and with reference to any example thereof.
25. A vector as claimed in claim 4 substantially as herein described and with reference to any example thereof.
26. A use as claimed in any one of claims 5-8 and 13-16 substantially as herein bed and with reference to any example thereof.
27. An antibody as claimed in claim 9 substantially as herein described and with 5 reference to any example thereof.
28. A composition as claimed in claim 10 or 11 substantially as herein described and with reference to any example thereof. 10
29. A stic kit as claimed in claim 12 substantially as herein described and with reference to any example thereof.
30. A method as claimed in any one of claims 17-19 and 21 substantially as herein described and with reference to any example thereof.
31. A host cell as claimed in claim 20 substantially as herein described and with nce to any example thereof.
Applications Claiming Priority (5)
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EP15173662 | 2015-06-24 | ||
EP15173662.6 | 2015-06-24 | ||
EP16150621.7 | 2016-01-08 | ||
EP16150621 | 2016-01-08 | ||
PCT/NL2016/050449 WO2016209079A1 (en) | 2015-06-24 | 2016-06-24 | Aml antigens and uses thereof |
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NZ738289B2 true NZ738289B2 (en) | 2021-11-30 |
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