CN114645020A - Pluripotent stem cell expressing targeted NR4A1 inhibitory factor, and derivative and application thereof - Google Patents

Pluripotent stem cell expressing targeted NR4A1 inhibitory factor, and derivative and application thereof Download PDF

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CN114645020A
CN114645020A CN202011520272.6A CN202011520272A CN114645020A CN 114645020 A CN114645020 A CN 114645020A CN 202011520272 A CN202011520272 A CN 202011520272A CN 114645020 A CN114645020 A CN 114645020A
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pluripotent stem
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王淋立
陈月花
莫健
杨建国
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Future Intelligent Regenerative Medicine Research Institute Guangzhou Co ltd
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Future Intelligent Regenerative Medicine Research Institute Guangzhou Co ltd
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Abstract

The invention discloses a pluripotent stem cell expressing an NR4A1 inhibitor targeting NR4A1 and a derivative thereof. An expression sequence of an NR4A1 inhibitor is introduced into the genome of the pluripotent stem cell or the derivative thereof, wherein the NR4A1 inhibitor is at least one of shRNA and/or shRNA-miR of targeted NR4A 1. After the NR4A1 inhibitor expressed by the pluripotent stem cells or the derivatives thereof is encapsulated by exosomes, the exosomes carry the NR4A1 inhibitor to be combined with target cells, the NR4A1 inhibitor contained in the exosomes is released, so that an NR4A1 pathway is blocked, immunosuppression is relieved, the immune system is activated, and the activity of T cells is restored, and the tumor cells can be effectively eliminated.

Description

Pluripotent stem cell expressing targeted NR4A1 inhibitory factor, and derivative and application thereof
Technical Field
The invention belongs to the technical field of genetic engineering, and particularly relates to a pluripotent stem cell expressing a targeted NR4A1 inhibitory factor, a derivative thereof and application thereof.
Background
NR4a1 is an important member of the NR4A family, and it is involved in the regulation of cell proliferation and apoptosis through the regulation of gene transcription of target cells, plays an important role in the vital processes of tumorigenesis, vascular remodeling, and steroid synthesis, and its function is regulated by various pathways such as phosphorylation and protein interaction. The NR4A1 is stably and highly expressed in tolerant T cells, the over-expression of NR4A1 can inhibit the function of effector cells, and after the NR4A1 gene is deleted, the tolerance state of the T cells can be corrected, and the capability of resisting tumors and chronic virus infection is enhanced. Mechanistically, NR4A1 can be recruited to bind to the binding site of the transcription factor AP-1 to inhibit expression of effector genes by inhibiting the function of AP-1. Binding of NR4a1 can also promote acetylation of H3K27ac, resulting in expression of a tolerance gene. In cancer treatment, the functional activity can be applied to cancer cell lines through knocking down or over-expressing, and the results show that the NR4A1 can regulate the proliferation, survival, cell cycle progression, migration and invasion of cancer cells in lung cancer, melanoma, lymphoma, pancreatic cancer, colon cancer, breast cancer, kidney cancer, cervical cancer, ovarian cancer and gastric cancer cell lines and has the potential of serving as a target of tumor immunotherapy.
Exosomes refer to disc-shaped vesicles with diameters between 40-100 nm. Many cells secrete exosomes under both normal and pathological conditions. It is mainly from the multivesicular body formed by the invagination of intracellular lysosome particles, and is released into extracellular matrix after the fusion of the outer membrane of the multivesicular body and cell membrane. When secreted into a recipient cell by a host cell, exosomes may modulate the biological activity of the recipient cell by the proteins, nucleic acids, lipids, etc. they carry. At present, research on gene therapy, tumor therapy and the like by carrying siRNA, chemical small molecule drugs and the like by exosome has been tried.
On the other hand, in the field of cell therapy, the problem of immunological compatibility of allografts remains a big problem. In recent years, a plurality of reports have been provided that the deletion expression of genes on the cell surfaces of HLA-I and HLA-II or the genes thereof is realized by knocking out genes such as B2M, CIITA and the like, so that the cells have immune tolerance or escape T/B cell specific immune response, and universal PSCs with immune compatibility are generated, thereby laying an important foundation for the application of wider universal PSCs source cells, tissues and organs. Also, cells have been reported to overexpress CTLA4-Ig, PD-L1 and thereby inhibit allogeneic immune rejection. Recently, it has been reported that when B2M and CIITA are knocked out, CD47 is knocked in, so that cells obtain escape specific immune response, and have immune tolerance or escape natural immune response of cells such as NK (natural killer) and the like, so that the cells have more comprehensive and stronger immune compatibility. However, these approaches are either not fully immune compatible, and still allow for immunological rejection of the allografts by other routes; or completely eliminate the allogeneic immune rejection response, but simultaneously make the cells of the donor-derived transplant lose the antigen presenting capability, which brings great risk of diseases such as tumorigenicity and virus infection to the recipient.
Disclosure of Invention
The present invention aims to provide a pluripotent stem cell or a derivative thereof;
the invention also aims to provide application of the pluripotent stem cells or the derivatives thereof and exosomes secreted by the pluripotent stem cells in preparation of anti-tumor therapeutic preparations or drugs.
It is another object of the invention to provide an exosome.
The technical scheme adopted by the invention is as follows:
in a first aspect of the present invention, there is provided:
a pluripotent stem cell or a derivative thereof, wherein the genome of the pluripotent stem cell or the derivative thereof has an expression sequence of an NR4A1 inhibitor introduced therein; the NR4A1 inhibitor is at least one of shRNA and/or shRNA-miR of targeted NR4A 1.
The inventor finds that after the shRNA/shRNA-miR expression sequence of NR4A1 inhibitor is introduced into the pluripotent stem cells or the derivatives thereof, high-abundance shRNA/shmiRNA of NR4A1 inhibitor targeting NR4A1 and mature siRNA are contained in exosomes secreted by the pluripotent stem cells or the derivatives thereof, and the exosomes carry the inhibitor to be combined with target cells and then are released, so that the NR4A1 pathway is blocked, immune suppression is relieved, the immune system is activated, the activity of T cells is recovered, and the tumor cells can be effectively eliminated.
Further, the sequence of the shRNA and/or shRNA-miR of the targeted NR4A1 is shown in SEQ ID NO. 1-SEQ ID NO. 10.
In a second aspect of the present invention, there is provided:
a pluripotent stem cell or a derivative thereof, wherein the genome of the pluripotent stem cell or the derivative thereof has an expression sequence of an NR4A1 inhibitor introduced therein; the NR4A1 inhibitor is at least one of shRNA and shRNA-miR of targeted NR4A 1.
The B2M gene and/or CIITA gene of the genome of the pluripotent stem cell or the derivative thereof are knocked out.
When B2M and CIITA genes are knocked out, the influence of HLA-I and HLA-II molecules is completely eliminated, and therefore, the tumor treatment effect is optimal.
In a third aspect of the present invention, there is provided:
a pluripotent stem cell or a derivative thereof, wherein the genome of the pluripotent stem cell or the derivative thereof has an expression sequence of an NR4A1 inhibitor introduced therein; the NR4A1 inhibitor is at least one of shRNA and shRNA-miR of targeted NR4A 1.
A first nucleic acid molecule is introduced into the genome of the pluripotent stem cell or the derivative thereof; and the pluripotent stem cell or a derivative thereof is characterized in that a second nucleic acid molecule is introduced into the 3' UTR region of an immune response-related gene; the first nucleic acid molecule encodes a small nucleic acid molecule that mediates RNA interference, the small nucleic acid molecule specifically targets the transcript of the second nucleic acid molecule, and the small nucleic acid molecule does not target any other mRNA or incrna of the pluripotent stem cell or a derivative thereof.
In the technical scheme, the small nucleic acid molecule coded by the first nucleic acid molecule can be specifically combined with a transcription product of a second nucleic acid molecule introduced from a 3' UTR region of an immune response related gene, so that an RNA interference program is started, mRNA of the immune response related gene is degraded or silenced, and the expression of the immune response related gene is blocked, so that the cell has the immune compatibility characteristic, and the allogeneic immune rejection response can be eliminated or reduced. Moreover, the RNA interference program only acts on such engineered pluripotent stem cells or derivatives thereof, and thus, when such cells or derivatives are transplanted into a recipient, RNA interference of the immune response-related gene mediated by the small nucleic acid molecule encoded by the first nucleic acid molecule and the second nucleic acid molecule introduced at the 3 'UTR of the immune response-related gene only acts on the donor cells, without interfering with the genome of the recipient's cells.
Further, the small nucleic acid molecule includes short interfering nucleic acid, short interfering RNA, and double-stranded RNA, and preferably at least one of miRNA, shRNA, and shRNA-miR.
Further, the pluripotent stem cell or the derivative thereof is derived from a human; the sequence of the small nucleic acid molecule is a random sequence of a non-human species that does not target any mRNA or incrna of a human.
The small nucleic acid molecule is preferably derived from caenorhabditis elegans. For example:
5’-TTGTACTACACAAAAGTACTG-3’(SEQ ID NO.102)
5’-TCACAACCTCCTAGAAAGAGTAGA-3’(SEQ ID NO.103)。
further, the second nucleic acid molecule comprises a reverse complement of at least 3 repeated small nucleic acid molecule sequences, preferably 6-10 repeated small nucleic acid molecule sequences.
Furthermore, an inducible gene expression system is introduced into the genome of the pluripotent stem cell or the derivative thereof for regulating the expression of the first nucleic acid molecule.
In the technical scheme, the inducible gene expression system is regulated and controlled by an exogenous inducer, and the opening and closing of the inducible gene expression system are controlled by adjusting the addition amount, the duration action time and the type of the exogenous inducer, so that the expression quantity of small nucleic acid molecules is controlled.
When the inducible gene expression system is started, the transcription product of the small nucleic acid molecule which is normally expressed and the second nucleic acid molecule which is introduced into the 3' UTR region of the immune response related gene is specifically combined, so that an RNA interference program is started, mRNA of the immune response related gene is degraded or silenced, and the expression of the immune response related gene is blocked. Thus, when such cells or derivatives are transplanted into a recipient, the allogeneic immune rejection response can be eliminated or reduced, and the immune compatibility between the transplant and the recipient can be improved.
When the graft suffers from pathological changes, the inducible gene expression system can be closed by adding an exogenous inducer, so that the expression of small nucleic acid molecules is closed, the interference effect of the small nucleic acid on mRNA of the immune response related gene is stopped, the normal expression of the immune response related gene is recovered, the antigen presenting capability of graft cells is recovered, and the receptor can remove the pathological graft, so that the clinical safety of the pluripotent stem cells or the derivatives thereof is improved, and the value of the pluripotent stem cells in clinical application is greatly expanded.
Moreover, the RNA interference program only acts on such engineered pluripotent stem cells or derivatives thereof, and thus, when such cells or derivatives are transplanted into a recipient, RNA interference of the immune response-related gene mediated by the small nucleic acid molecule encoded by the first nucleic acid molecule and the second nucleic acid molecule introduced at the 3 'UTR of the immune response-related gene only acts on the donor cells, without interfering with the genome of the recipient's cells.
In a fourth aspect of the present invention, there is provided:
a pluripotent stem cell or a derivative thereof, wherein an expression sequence of an NR4A1 inhibitory factor is introduced into the genome of the pluripotent stem cell or the derivative thereof; the NR4A1 inhibitor is at least one of shRNA and shRNA-miR of targeted NR4A 1.
The genome of the pluripotent stem cell or the derivative thereof is further introduced with an expression sequence of at least one immune compatible molecule for regulating the expression of a gene associated with an immune response in the pluripotent stem cell or the derivative thereof.
In the technical scheme, the immune compatible molecules can regulate and control the expression of genes related to immune response in the pluripotent stem cells or the derivatives thereof, so that the immunogenicity of the pluripotent stem cells or the derivatives thereof is low, and when the pluripotent stem cells or the derivatives thereof are transplanted into a recipient, the allogeneic immune rejection response can be eliminated or reduced, and the immune compatibility between the transplant and the recipient is improved. The implant can continuously express the shRNA/shRNA-miR targeting NR4A1 at the receptor endogenously, and after the inhibition factors are wrapped by the exosomes, the exosomes carry the inhibition factors to be combined with target cells and then release the target cells, so that an NR4A1 pathway is blocked, immune inhibition is relieved, an immune system is activated, the activity of T cells is recovered, and the tumor cells can be effectively eliminated.
Furthermore, an inducible gene expression system is also introduced into the genome of the pluripotent stem cell or the derivative thereof and is used for regulating and controlling the expression of the immune compatible molecules.
In the technical scheme, the inducible gene expression system is regulated and controlled by an exogenous inducer, the on-off of the inducible gene expression system is controlled by adjusting the addition amount, the duration action time and the type of the exogenous inducer, and the expression quantity of an immune compatible molecular expression sequence is further controlled, so that the reversible regulation and control of the immune compatibility of the pluripotent stem cells or derivatives thereof are realized. When the immune compatible molecule is normally expressed, the expression of genes related to immune response in the pluripotent stem cell or the derivative thereof is inhibited or overexpressed, so that when allogeneic cell therapy is performed, allogeneic immune rejection response can be eliminated or reduced, and the immune compatibility between the donor cell and the recipient can be improved. When the donor cell is diseased, the expression of the immune compatible molecules can be closed by induction of an exogenous inducer, so that the HLA class I molecules can be reversibly re-expressed on the surface of the donor cell, the antigen presenting capability of the donor cell is recovered, and then the receptor immune system enables the receptor to eliminate the diseased cell by identifying unmatched HLA class I molecules or by cross HLA class I molecule antigen presenting (antigen presenting/identifying between classical incompatible HLA) mutated molecules, so that the clinical safety of the general pluripotent stem cell or the derivative thereof is improved, and the value of the general pluripotent stem cell in clinical application is greatly expanded.
With respect to the third and fourth aspects of the present invention, further, the genes associated with immune response include:
(1) major histocompatibility complex genes including at least one of HLA-A, HLA-B, HLA-C, HLA-DRA, HLA-DRB1, HLA-DRB3, HLA-DRB4, HLA-DRB5, HLA-DQA1, HLA-DQB1, HLA-DPA1, and HLA-DPB 1;
(2) major histocompatibility complex-associated genes including at least one of B2M and CIITA.
With respect to the fourth aspect of the present invention, further, the immune-compatible molecule comprises at least one of:
(1) an immune tolerance-related gene including at least one of CD47 and HLA-G;
(2) HLA-C molecules, including HLA-C multiple alleles of which the proportion in the population is over 90 percent in total, or fusion protein genes consisting of the HLA-C multiple alleles of which the proportion is over 90 percent and B2M;
(3) shRNA and/or shRNA-miR targeting a major histocompatibility complex gene including at least one of HLA-A, HLA-B, HLA-C, HLA-DRA, HLA-DRB1, HLA-DRB3, HLA-DRB4, HLA-DRB5, HLA-DQA1, HLA-DQB1, HLA-DPA1 and HLA-DPB 1;
(4) an shRNA and/or shRNA-miR targeting a major histocompatibility complex-associated gene comprising at least one of B2M and CIITA.
Furthermore, the target sequence of the shRNA and/or shRNA-miR targeting B2M is selected from one of SEQ ID NO. 10-SEQ ID NO. 12;
the target sequence of the shRNA and/or shRNA-miR targeting CIITA is selected from one of SEQ ID No. 13-SEQ ID No. 15;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-A is selected from one of SEQ ID NO. 16-SEQ ID NO. 18;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-B is selected from one of SEQ ID NO. 19-SEQ ID NO. 21;
the target sequence of the shRNA and/or shRNA-miR targeting the HLA-C is selected from one of SEQ ID NO. 22-SEQ ID NO. 24;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DRA is selected from one of SEQ ID NO. 25-SEQ ID NO. 27;
the target sequence of the shRNA and/or shRNA-miR targeting HLA-DRB1 is selected from one of SEQ ID NO. 28-SEQ ID NO. 30;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DRB3 is selected from one of SEQ ID NO. 31-SEQ ID NO. 32;
the target sequence of the shRNA and/or shRNA-miR targeting HLA-DRB4 is selected from one of SEQ ID NO. 33-SEQ ID NO. 35;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DRB5 is selected from one of SEQ ID NO. 36-SEQ ID NO. 38;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DQA1 is selected from one of SEQ ID NO. 39-SEQ ID NO. 41;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DQB1 is selected from one of SEQ ID NO. 42-SEQ ID NO. 44;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DPA1 is selected from one of SEQ ID NO. 45-SEQ ID NO. 47;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DPB1 is selected from one of SEQ ID NO. 48-SEQ ID NO. 51.
In the first to fourth aspects of the present invention, further, the genome of the pluripotent stem cell or the derivative thereof is further introduced with shRNA and/or miRNA processing complex-associated gene and/or anti-interferon effector molecule, wherein: the shRNA and/or miRNA processing complex related gene comprises at least one of Drosha, Ago1, Ago2, Dicer1, Exportin-5, TRBP (TARBP2), PACT (PRKRA) and DGCR 8; the anti-interferon effector molecule is shRNA and/or shRNA-miR of at least one of target PKR, 2-5As, IRF-3 and IRF-7.
Furthermore, the target sequence of the shRNA and/or shRNA-miR targeting the PKR is selected from one of SEQ ID NO. 51-SEQ ID NO. 53;
the target sequence of the shRNA and/or shRNA-miR targeting 2-5As is selected from one of SEQ ID NO. 54-SEQ ID NO. 62;
the target sequence of the shRNA and/or shRNA-miR of the target IRF-3 is selected from one of SEQ ID NO. 63-SEQ ID NO. 65;
the target sequence of the shRNA and/or shRNA-miR of the target IRF-7 is selected from one of SEQ ID NO. 66-SEQ ID NO. 68.
With regard to the third and fourth aspects of the present invention, the inducible gene expression system includes at least one of a Tet-Off system, a dimer inducible expression system.
When the inducible gene expression system employed is the Tet-Off system, the expression of small nucleic acid molecules in the cell or derivative thereof can be controlled by the addition of the exogenous inducer tetracycline (Doxycyline, Dox). After the pluripotent stem cells or the derivatives thereof are transplanted into a donor, the expression level of the small nucleic acid molecules can be gradually reduced even by adjusting the addition amount of Dox, so that the cells can gradually express low-concentration immune related genes to stimulate the donor, and the donor can gradually generate tolerance to the transplanted cells or the derivatives thereof, and finally stable tolerance is achieved. In general, Dox is added in an amount of 0 to 100 uM.
In the first to fourth aspects of the present invention, further, the genome of the pluripotent stem cell or the derivative thereof further introduces an exosome-processing synthetic gene comprising at least one of STEAP3, Syndevan-4, an L-aspartate oxidase fragment, CD63-L7Ae and Cx 43S 368A.
The secretion efficiency of the exosome and the encapsulation efficiency of the exosome on shRNA, shRNA-miR and mature siRNA can be improved by introducing the exosome processing synthetic gene into the genome of the stem cell or the stem cell derivative.
The dimer inducible expression system specifically refers to: dimerized inducers or dimers are used to recombine active transcription factors on inactive fusion proteins. The most commonly used system is rapamycin (rapamydn), a natural product, or an analog that is biologically inactive, as the drug for dimerization. The rapamycin (or analog) sibling protein FKBP12 (the protein to which FKBP binds to FK 506) and a large serine-threonine protein kinase, known as FRAP (FRBP-rapamycin associated protein, mTOR (mammalian target of rapamycin)), have high affinity and function to bind to both proteins, thus bringing them together as a heterologous dimer. To regulate transcription of the target gene, a DNA binding region is fused to one or more FKBP domains and a transcriptional repression domain is fused to amino acid position 93 of FRAP, designated FRB, which is sufficient to bind the FKBP-rapamycin complex. Dimerization of these two fusion proteins can only occur in the presence of rapamycin. Thus inhibiting transcription of genes having sites that bind to the DNA binding region.
In the first to fourth aspects of the present invention, further, the expression frameworks of the shRNA and/or shRNA-miR targeting NR4a1, major histocompatibility complex gene, major histocompatibility complex-related gene, anti-interferon effector molecule are as follows:
the shRNA expression framework is as follows: the gene sequence sequentially comprises an shRNA sequence, a stem-loop sequence, a reverse complementary sequence of the shRNA sequence and Poly T from 5 'to 3';
wherein the shRNA sequence, the stem-loop sequence and the reverse complementary sequence of the shRNA sequence form a hairpin structure; poly T is a transcription terminator of RNA polymerase III;
shRNA-miR expression framework: and replacing the shRNA target sequence in the shRNA expression frame by using a shRNA-miR sequence.
In the first to fourth aspects of the present invention, further, the NR4a1 inhibitor expression sequence, the first nucleic acid molecule, the immune-compatible molecule expression sequence, the shRNA and/or miRNA processing complex-related gene, the anti-interferon effector molecule, the inducible gene expression system, and the exosome processing synthetic gene are introduced by a method of viral vector interference, non-viral vector transfection, or gene editing, preferably by gene knock-in.
In the first to fourth aspects of the present invention, further, the introduction site of the NR4a1 inhibitor expression sequence, the immune-compatible molecule expression sequence, shRNA and/or miRNA processing complex-related gene, anti-interferon effector molecule, inducible gene expression system, and exosome processing synthetic gene is a genome safety site, preferably one or more of AAVS1 safety site, eGSH safety site, and H11 safety site.
With respect to the first to fourth aspects of the present invention, further, the pluripotent stem cells include embryonic stem cells, embryonic germ cells, embryonic carcinoma cells, or induced pluripotent stem cells;
the pluripotent stem cell derivative comprises an adult stem cell, each germ layer cell or a tissue or organ into which the pluripotent stem cell is differentiated;
the adult stem cells include mesenchymal stem cells or neural stem cells.
In a fifth aspect of the present invention, there is provided:
the application of the pluripotent stem cells or the derivatives thereof and the exosomes secreted by the pluripotent stem cells in preparing anti-tumor therapeutic preparations or medicaments.
Further, the application of the pluripotent stem cells or the derivatives thereof and the exosomes secreted by the pluripotent stem cells in preparing NR4A1 high-expression tumor treatment preparations or medicines.
In a sixth aspect of the present invention, there is provided:
an exosome secreted by the pluripotent stem cell or a derivative thereof.
The invention has the beneficial effects that:
1. the pluripotent stem cells or the derivatives thereof provided by the first aspect of the invention can be applied to autologous cell-induced iPSCs or MSCs low-immunogenicity cells. After the expression sequence of the shRNA/shRNA-miR of the NR4A1 inhibition factor targeting NR4A1 is introduced into the genome of iPSCs induced by autologous cells, the iPSCs can express a large amount of shRNA/shRNA-miR of the targeting NR4A1 and are wrapped by exosomes secreted by the cells. The exosome carries the inhibiting factors to be combined with target cells and then releases the inhibiting factors, so that the NR4A1 pathway is blocked, the immunosuppression is relieved, the immune system is activated, and the activity of T cells is restored, so that the T cells can be effectively eliminated.
2. The pluripotent stem cells or derivatives thereof provided by the second aspect of the invention may also be used in allogeneic cell therapy. Because the B2M and CIITA genes in the pluripotent stem cells or the derivatives thereof are knocked out, the pluripotent stem cells or the derivatives thereof have low immunogenicity, and when the pluripotent stem cells or the derivatives thereof are transplanted into a recipient, RNA interference aiming at immune response related genes, mediated by transcription products of a small nucleic acid molecule coded by a first nucleic acid molecule and a second nucleic acid molecule, only acts on donor cells and does not interfere with the genome of cells of the recipient. Improving the immune compatibility between the graft and the recipient. The implant can continuously express the shRNA/shRNA-miR targeting NR4A1 at the receptor endogenously, and after the inhibition factors are wrapped by the exosomes, the exosomes carry the inhibition factors to be combined with target cells and then release the target cells, so that an NR4A1 pathway is blocked, immune inhibition is relieved, an immune system is activated, the activity of T cells is recovered, and the tumor cells can be effectively eliminated.
3. The pluripotent stem cells or derivatives thereof provided by the third aspect of the invention have immune compatibility, and can eliminate or reduce allogeneic immune rejection response. Furthermore, the RNA interference program of the pluripotent stem cell or the derivative thereof only acts on such an engineered pluripotent stem cell or the derivative thereof. Thus, when such cells or derivatives are transplanted into a recipient, RNA interference directed to a gene associated with an immune response mediated by the transcript of the small nucleic acid molecule encoded by the first nucleic acid molecule and the second nucleic acid molecule acts only on the donor cell and does not interfere with the genome of the recipient cell.
Furthermore, an inducible gene expression system is introduced into the genome of the pluripotent stem cell or the derivative thereof, and is used for regulating the expression of the first nucleic acid molecule, so that the immune compatibility and reversibility of the pluripotent stem cell or the derivative thereof are realized.
4. The pluripotent stem cell or the derivative thereof provided by the fourth aspect of the invention has an immune-compatible molecule expression sequence introduced into its genome, so that the pluripotent stem cell or the derivative thereof has low immunogenicity, and when the pluripotent stem cell or the derivative thereof is transplanted into a recipient, RNA interference directed to an immune response-related gene mediated by a transcription product of a small nucleic acid molecule encoded by a first nucleic acid molecule and a second nucleic acid molecule only acts on a donor cell, and does not interfere with the genome of the recipient cell. Improving the immune compatibility between the graft and the recipient. The implant can continuously express the shRNA/shRNA-miR targeting NR4A1 at the receptor endogenously, and after the inhibition factors are wrapped by the exosome, the exosome carries the inhibition factors to be combined with the target cell and then releases the inhibition factors, thereby blocking the NR4A1 pathway, relieving immune inhibition, activating the immune system, recovering the activity of T cells, and effectively eliminating tumor cells
Furthermore, the genome of the pluripotent stem cell or the derivative thereof provided by the fourth aspect of the invention is also introduced with an inducible gene expression system, the inducible gene expression system can regulate and control the expression of the immune compatible molecules, and the inducible gene expression system is regulated and controlled by an exogenous inducer, so that the on and off of the inducible gene expression system are controlled by adjusting the addition amount, the sustained action time and the type of the exogenous inducer, and the expression quantity of the expression sequence of the immune compatible molecules is further controlled, thereby realizing the reversible regulation and control of the immune compatibility of the pluripotent stem cell or the derivative thereof. When the inducible gene expression system is started, the transcription product of the small molecule nucleic acid which is normally expressed and a second nucleic acid molecule which is introduced into the 3' UTR region of the immune response related gene is specifically combined, so that an RNA interference program is started, mRNA of the immune response related gene is degraded or silenced, and the expression of the immune response related gene is blocked. Thus, when such cells or derivatives are transplanted into a recipient, the allogeneic immune rejection response may be eliminated or reduced, and the immune compatibility between the transplant and the recipient may be improved. When the graft suffers from pathological changes, the inducible gene expression system can be closed by adding an exogenous inducer, so that the expression of small nucleic acid molecules and the interference effect of the small nucleic acid on mRNA of the immune response related gene are stopped, the normal expression of the immune related gene is recovered, the antigen presenting capability of graft cells is further recovered, and the receptor can remove the pathological graft, thereby improving the clinical safety of the pluripotent stem cells or the derivatives thereof, and greatly expanding the value of the pluripotent stem cells or the derivatives thereof in clinical application.
5. The pluripotent stem cells or the derivatives thereof can gradually reduce the expression amount of small nucleic acid molecules in the pluripotent stem cells or the derivatives thereof by adjusting the addition amount and the sustained action time of the exogenous inducer, so that the donor cells can gradually express low-concentration immune-related genes to stimulate the donor, and the donor can gradually generate tolerance to transplanted cells or the derivatives thereof, and finally stable tolerance is achieved. In this case, even though mismatched HLA class I molecules are expressed on the surface of the graft cells, they are compatible with the recipient immune system.
Drawings
Figure 1 is a plasmid map of Cas9 (D10A).
FIG. 2 is a plasmid map of sgRNA Clone AAVS 1-1.
FIG. 3 is a plasmid map of sgRNA Clone AAVS 1-2.
FIG. 4 is a plasmid map of sgRNA clone B2M-1.
FIG. 5 is a plasmid map of sgRNA clone B2M-2.
FIG. 6 is a plasmid map of sgRNA clone B2M-3.
FIG. 7 is a plasmid map of sgRNA clone B2M-4.
FIG. 8 is a plasmid map of sgRNA clone CIITA-1.
FIG. 9 is a plasmid map of sgRNA clone CIITA-2.
FIG. 10 is a plasmid map of sgRNA clone CIITA-3.
FIG. 11 is a plasmid map of sgRNA clone CIITA-4.
FIG. 12 is a plasmid map of AAVS1KI Vector (shRNA, constitutive).
FIG. 13 is a plasmid map of AAVS1KI Vector (shRNA, inducible).
FIG. 14 is a plasmid map of AAVS1KI Vector (shRNA-miR, constitutive).
FIG. 15 is a plasmid map of AAVS1KI Vector (shRNA-miR, inducible).
FIG. 16 is a plasmid map of B2M KI Vector.
FIG. 17 is a plasmid map of CIITA KI Vector.
Detailed Description
In order to make the objects, technical solutions and technical effects of the present invention more clear, the present invention will be described in further detail with reference to specific embodiments. It should be understood that the detailed description and specific examples, while indicating the preferred embodiment of the invention, are given by way of illustration only.
The test materials and reagents used are, unless otherwise specified, all consumables and reagents which are customary and commercially available.
Experimental materials:
selection of the NR4A1 inhibitor
NR4a1 inhibitor: an shRNA or shRNA-miR targeting NR4A 1.
Target sequences of the shRNA or shRNA-miR sequences targeting NR4a1 used in the examples of the present invention are shown in table 1.
TABLE 1 target sequences for shRNA or shRNA-miR sequences targeting NR4A1
Figure BDA0002848713510000071
2. Construction of Small nucleic acid molecules
The sequence of the small nucleic acid molecule is a random sequence of a non-human species that does not target any mRNA or incrna of a human, preferably derived from caenorhabditis elegans.
The sequence of the small nucleic acid molecule used in this example was
5’-TTGTACTACACAAAAGTACTG-3’(SEQ ID NO.102);
Designing a first nucleic acid molecule and a second nucleic acid molecule according to the small nucleic acid molecules, wherein the first nucleic acid molecule and the second nucleic acid molecule are respectively as follows:
a first nucleic acid molecule (i.e., the shRNA expression framework or shRNA-miR expression framework of a small nucleic acid molecule):
(1) the sequence composition of the shRNA expression framework of the small nucleic acid molecule is as follows:
5’-CCACTCCCTATCAGTGATAGAGAAAAGTGAAAGTCGAGTTTACCACTCCCTATCAGTGATAGAGAAAAGTGAAAGTCGAGTTTACCACTCCCTATCAGTGATAGAGAAAAGTGAAAGTCGAGTTTACCACTCCCTATCAGTGATAGAGAAAAGTGAAAGTCGAGCTCGGTACCCGGGTCGAGGTAGGCGTGTACGGTGGGAGGCCTATATAAGCAGAGCTCGTTTAGTGAACCGTCAGATCGCCTGGAGACGCCATCCACGCTGTTTTGACCTCCATAGAAGACACCGGGACCGATCCAGCCTGCTAGCGCCACC(SEQ ID NO.4)N1...N21TTCAAGAGA(SEQ ID NO.5)N22...N42TTTTTT-3’。
wherein, the first and the second end of the pipe are connected with each other,
a)N1...N21is the sequence of the small nucleic acid molecule, N22...N42The reverse complementary sequence of the small nucleic acid molecule sequence;
b) if the plasmid needs to express shRNAs of a plurality of genes, each gene corresponds to a shRNA expression frame and then is connected seamlessly;
c) constitutive shRNA plasmids with different resistance genes only have different resistance genes and have the same other sequences;
d) n represents A or T or G or C base.
(2) shRNA-miR expression framework of small nucleic acid molecules: the small nucleic acid molecule sequence is used for replacing a target sequence in microRNA-30 or microRNA-155 to obtain the target sequence. The specific sequence is as follows:
5’-GAGGCTTCAGTACTTTACAGAATCGTTGCCTGCACATCTTGGAAACACTTGCTGGGATTACTTCTTCAGGTTAACCCAACAGAAGGCTAAAGAAGGTATATTGCTGTTGACAGTGAGCG(SEQ ID NO.6)M1N1...N21TAGTGAAGCCACAGATGTA(SEQ ID NO.7)N22...N42M2TGCCTACTGCCTCGGACTTCAAGGGGCTACTTTAGGAGCAATTATCTTGTTTACTAAAACTGAATACCTTGCTATCTCTTTGATACATTTTTACAAAGCTGAATTAAAATGGTATAAAT-3’(SEQ ID NO.8)。
wherein the content of the first and second substances,
a)N1...N21is a small nucleic acid molecule sequence, N22...N42Is a reverse complementary sequence of a small nucleic acid molecule sequence;
b) if the plasmid needs to express shRNA-miR of a plurality of genes, each gene corresponds to a shRNA-miR expression frame and is then connected seamlessly;
c) constitutive shRNA-miR plasmids with different resistance genes only have different resistance genes and have the same other sequences;
d) n represents A or T or G or C base, M base represents A or C base;
e) if N is present1Is a G base, then M1Is A base; otherwise M1Is a C base;
f)M1base and M2And (3) base complementation.
A second nucleic acid molecule: comprises a reverse complementary sequence of at least 3 repeated small nucleic acid molecule sequences, preferably a reverse complementary sequence of 6-10 repeated small nucleic acid molecule sequences. The reverse complement of the small nucleic acid molecule sequence can be linked by a random Linker sequence.
As an embodiment of the invention, the second nucleic acid molecule is formed by connecting the random sequence of the first 10nt and the reverse complement of the sequence of 8 repeated small nucleic acid molecules through a random linker sequence (CGTA):
5’-atTCTAGATACAGTACTTTTGTGTAGTACAACGTACAGTACTTTTGTGTAGTACAACGTACAGTACTTTTGTGTAGTACAACGTACAGTACTTTTGTGTAGTACAACGTACAGTACTTTTGTGTAGTACAACGTACAGTACTTTTGTGTAGTACAACGTACAGTACTTTTGTGTAGTACAACGTACAGTACTTTTGTGTAGTACAACGTA-3’(SEQ ID NO.9)。
3. selection of immune compatible molecules
The types and sequences of the immune-compatible molecules used in the examples of the present invention are shown in tables 2 and 3.
TABLE 2 types and roles of immune-compatible molecules
Figure BDA0002848713510000091
Figure BDA0002848713510000101
TABLE 3 target sequences for immune-compatible molecules
Figure BDA0002848713510000102
Figure BDA0002848713510000111
Figure BDA0002848713510000121
Figure BDA0002848713510000131
The shRNA or shRNA-miR immune compatible molecule sequences of the experimental groups in the following tables 8 to 9 are shRNA or shRNA-miR immune compatible molecules constructed by adopting the target sequence 1 in the table 3. Those skilled in the art will understand that: the shRNA or shRNA-miR immune compatible molecule constructed by other target sequences can also realize the technical effect of the invention and all fall into the protection scope of the claims of the invention.
Selection of shRNA/miRNA processing Complex genes and anti-Interferon Effector molecules
(1) selection of shRNA/miRNA processing Complex genes
shRNA/miRNA processing complex genes used in the invention include shRNA and/or miRNA processing machinery that can induce off-expression. The shRNA and/or miRNA processor capable of inducing closed expression specifically comprises: drosha (Access number: NM-001100412), Ago1(Access number: NM-012199), Ago2(Access number: NM-001164623), Dicer1(Access number: NM-001195573), export-5 (Access number: NM-020750), TRBP (Access number: NM-134323), PACT (Access number: NM-003690) and DGCR8(Access number: NM-022720).
(2) Selection of anti-Interferon Effector molecules
The anti-interferon effector molecules used in the invention comprise shRNA and/or shRNA-miR expression sequences which can induce closed expression and aim at inhibiting PKR, 2-5As, IRF-3 and IRF-7 genes so As to reduce the interferon reaction induced by dsRNA and avoid generating cytotoxicity.
Wherein the target sequences of the anti-interferon effector molecules are shown in Table 4.
TABLE 4 target sequences for anti-interferon effector molecules
Figure BDA0002848713510000132
Figure BDA0002848713510000141
The anti-interferon effector molecule sequences of the experimental groups in the following tables 8-9 are all shRNA or shRNA-miR constructed by adopting the target sequences in the table 4. Those skilled in the art will understand that: the technical effect of the invention can be realized by shRNA or shRNA-miR anti-interferon effector molecules constructed by other target sequences, and the shRNA or shRNA-miR anti-interferon effector molecules fall into the protection scope of the claims of the invention.
5. Selection of exosome processing synthetic genes
The exosome processing synthetic gene is selected from at least one of STEAP3(NM _182915), Syndecano-4 (NM _002999), L-aspartate oxidase fragment (SEQ ID NO.69), CD63-L7Ae (SEQ ID NO.70) and Cx 43S 368A. Wherein Cx 43S 368A is obtained by mutating S (serine) to A (alanine)) at position 368 of Cx43 (NM-000165).
6. Selection of Stem cell vectors
The stem cell carrier in the embodiment of the invention is a pluripotent stem cell, and the pluripotent stem cell can be selected from Embryonic Stem Cells (ESCs), Induced Pluripotent Stem Cells (iPSCs) and other forms of pluripotent stem cells, such as hPSCs-MSCs, NSCs and EBs cells.
Wherein the preparation method of the pluripotent stem cells comprises the following steps:
ESCs: HN4 cells were selected and purchased from Shanghai department of sciences.
And (2) iPSCs: using an episomal-iPSCs induction system (6F/BM1-4C), pE3.1-OG- -KS and pE3.1-L-Myc- -hmiR302 cluster were electrotransferred into somatic cells, RM1 medium was cultured for 2 days, 2 days with 2uM Parnate-containing BioCISO-BM1 medium, 2 days with 2uM Parnate, 0.25mM sodium butyrate, 3uM CHIR99021 and 0.5uM PD 03254901-containing BioCISO-BM1 medium, and then cultured continuously with BioCISO medium without other substances for about 17 days, iPSCs clonal cells were picked, and the picked iPSCs clonal cells were purified, digested, and passaged to obtain stable iPSCs. The specific construction method is as follows: stem Cell Res ther.2017nov 2; 8(1):245.
hPSCs-MSCs: iPSCs were cultured for 25 days in BioCISO medium containing 10uM TGF β inhibitor SB431542 until 80-90 cell confluence (2mg/mL Dispase), 1:3 passaging was performed on Matrigel-coated plates, followed by ESC-MSC medium (knockout DMEM medium containing 10% KSR, NEAA, diabody, glutamine, β -mercaptoethanol, 10ng/mL bFGF and SB-431542), fluid was changed every day, and culture was continued for 20 days until 80-90 cell confluence (1:3 passaging), and specific construction methods were as follows: proc Natl Acad Sci U S A.2015; 112(2):530-535.
NSCs: iPSCs are cultured for 14 days in an induction medium (knockout DMEM medium containing 10% KSR and TGF-beta inhibitor and BMP4 inhibitor), and rose annular nerve cells are picked and cultured in a low-adhesion culture plate. The medium in the low adhesion plates included DMEM/F12 (containing 1% N2, Invitrogen) and Neurobasal medium (containing 2% B27, Invitrogen) in a ratio of 1:1, along with 20ng/ml bFGF and 20ng/ml EGF. Digestion passages were performed using Accutase. The specific construction method is as follows: FASEB J.2014; 28(11):4642-4656.
EBs cells: the iPSCs with cell confluency of 95% were digested with BioC-PDE1 for 6min, and the cells were scraped into clumps by mechanical scraping, and the clumps were settled. The settled cell pellet was transferred to a low adhesion culture plate and cultured for 7 days using BioCISO-EB1, with fluid changes every other day. After 7 days, the cells were transferred to a Matrigel-coated plate and subjected to adherent culture using a BioCISO medium for 7 days, thereby obtaining Embryoid Bodies (EBs) having an inner, middle and outer mesoderm structure. The specific construction method is as follows: stem Cell Res ther.2017nov 2; 8(1):245.
The pluripotent stem cell derivative also includes adult stem cells, each germ layer cell or tissue, organ into which the pluripotent stem cells are differentiated; the adult stem cells include mesenchymal stem cells or neural stem cells.
Construction of plasmid vectors
Plasmid vectors used in embodiments of the invention include: cas9(D10A) plasmid, sgRNA plasmid, Donor fragment.
The genes in the plasmids are edited by a CRISPR-Cas9 gene editing system, the used Cas9 protein is Cas9(D10A), Cas9(D10A) is combined with sgRNA which is responsible for specifically recognizing a target sequence (genome DNA of a cell vector), and then the Cas9(D10A) performs single-strand cleavage on the target sequence. Double Strand breaks in genomic DNA (DSB) must occur, and two Cas9(D10A)/sgRNA groups must cleave both strands of genomic DNA of the cell vector separately, and not too far apart. The Cas9(D10A)/sgRNA scheme has the advantage of higher specificity and lower probability of off-target compared to the Cas 9/sgRNA scheme.
Wherein, the specific sequence of the sgRNA is as follows:
sgRNA-AAVS1-1:5’-TATAAGGTGGTCCCAGCTCG-3’(SEQ ID NO.71);
sgRNA-AAVS1-2:5’-AGGGCCGGTTAATGTGGCTC-3’(SEQ ID NO.72);
sgRNA-B2M-1:5’-CTCCTGTTATATTCTAGAAC-3’(SEQ ID NO.73);
sgRNA-B2M-2:5’-TTTCAGCATCAATGTACCCT-3’(SEQ ID NO.74);
sgRNA-B2M-3:5’-CGCGAGCACAGCTAAGGCCA-3’(SEQ ID NO.75);
sgRNA-B2M-4:5’–ACTCTCTCTTTCTGGCCTGG-3’(SEQ ID NO.76);
sgRNA-CIITA-1:5’-GGCACTCAGAAGACACTGAT-3’(SEQ ID NO.77);
sgRNA-CIITA-2:5’–AAGGTGTCTGGTCGGAGAGC-3’(SEQ ID NO.78);
sgRNA-CIITA-3:5’–ACCCAGCAGGGCGTGGAGCC-3’(SEQ ID NO.79);
sgRNA-CIITA-4:5’–GTCAGAGCCCCAAGGTAAAA-3’(SEQ ID NO.80)。
the specific method for constructing the plasmid vector comprises the following steps:
(1) cas9(D10A) plasmid: obtained directly from the Addgene (Plasmid 41816, Addgene) subscription.
(2) sgRNA plasmid: the Plasmid was constructed by putting different target sequences into original blank plasmids (Plasmid 41824, Addgene).
Wherein the target sequence put into the sgRNA plasmid comprises the sequence of the immune compatible molecule, the sequence of shRNA/miRNA processing complex gene, the sequence of anti-interferon effector molecule and the sequence of exosome processing synthetic gene.
(3) Donor fragment (KI plasmid):
a) designing a PCR primer, and amplifying by using a pUC18 plasmid (Takara, Code No.3218) as a template and a high fidelity enzyme (Nanjing Nozan organism, P505-d1) through a PCR method to obtain an Amp (R) -pUC origin fragment;
b) extracting genome DNA of human cells and designing corresponding primers, and then amplifying by using high-fidelity enzyme through a PCR method by taking the genome DNA of human as a template to obtain a recombinant arm;
c) designing PCR amplification primers of KI (Knock-in) plasmid elements, and then carrying out high-fidelity enzyme amplification by using plasmids containing the KI plasmid elements as templates to obtain KI plasmid elements (subclones);
d) the amplified Amp (R) -pUC origin fragment, recombination arm and KI plasmid components are connected by using multi-fragment recombinase (Nanjing Novozam organism, C113-02) or overlap PCR to form a complete circular plasmid.
Wherein the recombination arms comprise a B2M recombination arm, a CIITA recombination arm and an AAVS1 recombination arm.
The sequence of the B2M recombinant arm is shown as B2M-HR-L (SEQ ID NO.81) and B2M-HR-R (SEQ ID NO. 82).
The sequence of the CIITA recombination arm is shown as CIITA-HR-L (SEQ ID NO.83) and CIITA-HR-R (SEQ ID NO. 84).
The sequence of the AAVS1 recombinant arm is shown in AAVS1-HR-L (SEQ ID NO.85) and AAVS1-HR-R (SEQ ID NO. 86).
The plasmids prepared by the embodiment of the invention can be divided into constitutive plasmids and inducible plasmids according to the expression frame type in the plasmids.
The expression frame in the constitutive plasmid comprises shRNA constitutive expression frame and shRNAMIR constitutive expression frame. The expression function of the Donor fragment obtained by enzyme digestion of the constitutive plasmid cannot be regulated after knocking in the stem cell vector genome DNA.
The expression frames in the inducible plasmid comprise shRNA inducible expression frames and shRNAMIR inducible expression frames. After the Donor fragment obtained from the inducible plasmid is digested by enzyme and the stem cell vector genome DNA is knocked in, the expression function of the fragment can be regulated and controlled by adding an inducer, which is equivalent to adding a switch for turning on or off the expression function.
The specific sequence requirements and structural composition of the expression frameworks described above are as follows.
(1) The sequence composition of the shRNA constitutive expression framework is:
5’-GAGGGCCTATTTCCCATGATTCCTTCATATTTGCATATACGATACAAGGCTGTTAGAGAGATAATTGGAATTAATTTGACTGTAAACACAAAGATATTAGTACAAAATACGTGACGTAGAAAGTAATAATTTCTTGGGTAGTTTGCAGTTTTAAAATTATGTTTTAAAATGGACTATCATATGCTTACCGTAACTTGAAAGTATTTCGATTTCTTGGCTTTATATATCTTGTGGAAAGGACgctagcgccacc(SEQ ID NO.87)N1...N21TTCAAGAGAN22...N42TTTTTT-3’;
wherein the content of the first and second substances,
a)N1...N21shRNA target sequence which is the above-mentioned target sequence, N22...N42The reverse complementary sequence of the shRNA target sequence of the target sequence;
b) when plasmids constructed by using the shRNA constitutive expression frame need to express shRNAs of a plurality of genes, each gene respectively corresponds to one shRNA expression frame and then is connected seamlessly;
c) when the shRNA constitutive expression frame needs to carry different resistance genes, only the resistance gene sequences in the shRNA constitutive expression frame are different, and other sequences are the same;
d) n represents A or T or G or C base.
(2) The sequence composition of the shRNAmiR constitutive expression framework is as follows:
5’-GAGGCTTCAGTACTTTACAGAATCGTTGCCTGCACATCTTGGAAACACTTGCTGGGATTACTTCTTCAGGTTAACCCAACAGAAGGCTAAAGAAGGTATATTGCTGTTGACAGTGAGCGM1N1...N21TAGTGAAGCCACAGATGTAN22...N42M2TGCCTACTGCCTCGGACTTCAAGGGGCTACTTTAGGAGCAATTATCTTGTTTACTAAAACTGAATACCTTGCTATCTCTTTGATACATTTTTACAAAGCTGAATTAAAATGGTATAAAT-3’;
wherein the content of the first and second substances,
g)N1...N21shRNAMIR target sequence, N, being a target sequence as described above22...N42The reverse complement of the shRNAmiR target sequence to the target sequence;
h) when a plasmid constructed by using the shRNAMIR constitutive expression framework needs to express shRNAMIR of a plurality of genes, each gene corresponds to one shRNAMIR expression framework respectively and then is connected seamlessly;
i) when the shRNAmid R constitutive expression framework needs to carry different resistance genes, only the resistance gene sequences in the shRNAmid R constitutive expression framework are different, and other sequences are the same;
j) n represents A or T or G or C base, M base represents A or C base;
k) if N1 is G base, then M1Is A base; otherwise M1Is a C base;
l)M1base and M2And (3) base complementation.
(3) The sequence composition of the shRNA inducible expression framework is:
5’-GAGGGCCTATTTCCCATGATTCCTTCATATTTGCATATACGATACAAGGCTGTTAGAGAGATAATTGGAATTAATTTGACTGTAAACACAAAGATATTAGTACAAAATACGTGACGTAGAAAGTAATAATTTCTTGGGTAGTTTGCAGTTTTAAAATTATGTTTTAAAATGGACTATCATATGCTTACCGTAACTTGAAAGTATTTCGATTTCTTGGCTTTATATATCTTGTGGAAAGGACtttaccactccctatcagtgatagagaaaagtgaaagtcgagtttaccactccctatcagtgatagagaaaagtgaaagtcgagtttaccactccctatcagtgatagagaaaagtgaaagtcgagtttaccactccctatcagtgatagagaaaagtgaaagtcgagtttaccactccctatcagtgatagagaaaagtgaaagtcgagtttaccactccctatcagtgatagagaaaagtgaaagtcgagtttaccactccctatcagtgatagagaaaagtgaaagtcgagctcggtacccgggtcgaggtaggcgtgtacggtgggaggcctatataagcagagctcgtttagtgaaccgtcagatcgcctggagacgccatccacgctgttttgacctccatagaagacaccgggaccgatccagcctgctagcgccacc(SEQ ID NO.88)N1...N21TTCAAGAGAN22...N42TTTTTT-3’;
wherein the content of the first and second substances,
e)N1...N21the shRNA target sequence corresponding to the target sequence, N22...N42The reverse complementary sequence of the shRNA target sequence and/or the small nucleic acid molecule corresponding to the target sequence;
f) when plasmids constructed by using the shRNA constitutive expression frame need to express shRNAs of a plurality of genes, each gene corresponds to a shRNA expression frame respectively and then is connected seamlessly;
g) when the shRNA constitutive expression frame needs to carry different resistance genes, only the resistance gene sequences in the shRNA constitutive expression frame are different, and other sequences are the same;
h) n represents A or T or G or C base.
(4) The sequence composition of the shRNAmiR inducible expression framework is shown in the sequence composition of the shRNAmiR constitutive expression framework.
The plasmid map of Cas9(D10A) constructed by the method is shown in figure 1, the plasmid map of sgRNA of AAVS1 safety site is shown in figure 2-3, the plasmid map of sgRNA of B2M gene is shown in figure 4-7, the plasmid map of sgRNA of CIITA gene is shown in figure 8-11, the plasmid map (constitutive and inducible) of constructed AAVS1KI is shown in figure 12-15, the plasmid map of B2M KI is shown in figure 16, and the plasmid map of CIITA KI is shown in figure 17.
Constructing a stem cell vector:
in the technical scheme of the invention, the safety sites knocked in the genome of the stem cell vector comprise an AAVS1 safety site, an eGSH safety site and an H11 safety site.
The single-cell cloning operation of the knock-in of the AAVS1 gene comprises the following steps:
a) electric transfer program:
donor cell preparation: human pluripotent stem cells;
the kit comprises: human Stem Cell
Figure BDA0002848713510000171
Kit
1;
The instrument comprises the following steps: an electrotransfer instrument;
culture medium: BioCISO;
induction of plasmid: the corresponding plasmids constructed in the above examples.
b) The transformed human pluripotent stem cells are screened in a double antibiotic medium containing G418 and puro.
c) And (4) carrying out single cell clone screening and culture to obtain a single cell clone strain.
d) The obtained single-cell clone was cultured.
Wherein, the culture reagent of the single cell clone strain comprises:
the culture medium is as follows: BioCISO medium, 300. mu.g/ml G418 and 0.5. mu.g/ml puro. The culture medium needs to be placed at room temperature in advance, placed for 30-60 minutes in a dark condition until the room temperature is recovered, but not placed at 37 ℃ for preheating, so that the activity of the biological molecules is prevented from being reduced.
Matrix glue: hESC grade Matrigel. Before passage or cell recovery, adding the Matrigel working solution into a cell culture bottle dish and shaking up to ensure that the Matrigel completely submerges the bottom of the culture bottle dish and any Matrigel cannot be dried off before use. To ensure that cells adhere better and survive, Matrigel was placed in a 37 ℃ incubator for a period of time: 1:100 Xmatrigel can not be less than 0.5 hour; the 1:200 Xmatrigel cannot be less than 2 hours.
Digestion solution: EDTA was dissolved using DPBS to a final concentration of 0.5mM, pH 7.4. The EDTA cannot be diluted with water, otherwise the cells die due to reduced osmotic pressure.
Freezing and storing liquid: 60% BioCISO, 30% ESCS grade FBS, and 10% DMSO.
The culture step of the single-cell clone adopts the conventional subculture maintaining process in the field.
Wherein, the optimal passage time is that the overall confluency of the cells reaches 80 to 90 percent.
The optimal ratio of passage is 1: 4-1: 7, and the optimal confluency of the next day after passage is maintained at 20-30%.
The specific passage operation steps in the invention are as follows:
a) discarding the Matrigel from the coated cell culture flask, adding appropriate amount of the above culture medium, and adding 5% CO at 37 deg.C2Incubating in an incubator;
b) when the cells meet the passage requirements, removing culture medium supernatant, and adding a proper amount of 0.5mM EDTA digestive juice into a cell bottle dish;
c) the cells were incubated at 37 ℃ with 5% CO2Incubating in an incubator for 5-10 minutes (digesting until most cells are observed to shrink and become round under a microscope but not float), blowing the cells to separate the cells from the wall, sucking the cell suspension into a centrifugal tube, and centrifuging for 5 minutes at 200 g;
d) centrifuging, discarding supernatant, suspending the cells with culture medium, repeatedly blowing the cells until uniformly mixing, transferring the cells to a petrigel-coated bottle dish, shaking, observing under a mirror without abnormality, shaking, and standing at 37 deg.C and 5% CO2Culturing in an incubator;
e) observing the adherent survival state of the cells the next day, sucking off the culture medium, and changing the culture medium on time every day.
The gene knock-in detection method comprises the following steps:
1. single cell clone AAVS1 gene knock-in assay.
(1) AAVS1 gene knock-in assays.
The detection principle is as follows:
the cells treated by knock-in were tested for homozygote by PCR. Since the two Donor fragments have differences only in the sequences of the resistance genes, it is necessary to determine whether the cell is homozygous (the two chromosomes knock in the Donor fragments of different resistance genes), and it is only possible that the cell with double knockin will be the correct homozygous by examining whether the genome of the cell contains the Donor fragments of the two resistance genes.
The detection method comprises the following steps:
one primer was designed inside (non-recombinant arm portion) the Donor plasmid (KI plasmid), and then the other primer was designed in the genome of the cell (non-recombinant arm portion). If the Donor fragment is inserted correctly in the genome, the target band will appear, otherwise no target band will appear.
The specific sequences of the primers and amplification conditions are shown in the following table.
TABLE 5 detailed sequences of primers for detection of knock-in of AAVS1 Gene and amplification conditions
Figure BDA0002848713510000181
Figure BDA0002848713510000191
(2) B2M and CIITA gene knock-in test.
The detection method of the knock-in of the second nucleic acid molecule at the 3' UTR of B2M and CIITA gene was the same as the detection principle of AAVS1, and the PCR detection conditions used were as shown in tables 6 and 7:
TABLE 6 detailed sequences of knock-in detection primers for the B2M Gene and amplification conditions
Figure BDA0002848713510000192
TABLE 7 specific sequences of CIITA Gene knock-in detection primers and amplification conditions
Figure BDA0002848713510000193
Selected plasmids were knocked into the stem cell vector genome using techniques conventional in the art:
according to the grouping in the following tables 8 and 9, the sequence of the NR4a1 inhibitory factor, the sequence of an immune compatible molecule, the sequence of a shRNA/miRNA processing complex gene, the sequence of an anti-interferon effector molecule, and an exosome processing synthetic gene are knocked into a safe site of the stem cell expression vector (stem cell vector) by using a conventional technique in the art, so as to obtain different types of constitutive stem cell expression vectors and inducible stem cell expression vectors, and detect the expression feasibility thereof.
TABLE 8 constitutive knock-in expression experiment grouping
Figure BDA0002848713510000194
Figure BDA0002848713510000201
Wherein a "+" symbol indicates a knock-in of a gene or nucleic acid sequence and a "-" symbol indicates a knock-out of a gene.
General principle: shRNA (or shRNA-miR) of the targeted inhibition factor is put into a shRNA (or shRNA-miR) expression frame 2 of the corresponding plasmid, shRNA (or shRNA-miR) of the other inhibition factors are put into a shRNA (or shRNA-miR) expression frame 1 of the corresponding plasmid, and the gene sequence is put into an MCS.
B2M-3 ' UTR-miRNA-focus or CIITA-3 ' UTR-miRNA-focus, i.e. the second nucleic acid molecule (SEQ ID No.8), knocks into the 3 ' UTR region of the B2M and CIITA genes, respectively.
The B2M/CIITA-3 'UTR-shRNA is an shRNA expression framework of a small nucleic acid molecule, namely a first nucleic acid molecule, specifically targets a transcription product of a second nucleic acid molecule in a B2M gene and a CIITA gene 3' UTR region, and a knock-in site is a genome safety site AAVS 1.
B2M/CIITA-3 'UTR-shRNA-miR is an shRNA-miR expression framework of a small nucleic acid molecule, namely a first nucleic acid molecule, a transcription product of a second nucleic acid molecule in a targeting B2M gene and CIITA gene 3' UTR region, and a knock-in site is a genome safety site AAVS 1.
CD47 represents the CD47 expression sequence with the knock-in site being the genomic safety site AAVS 1.
If multiple fragments need to be inserted into the expression cassette or MCS, they can be ligated together using EMCV IRESWT (SEQ ID NO.101) and then inserted.
The sgRNA plasmid for gene knock-in was: sgRNA clone B2M-1, sgRNA clone B2M-2, sgRNA clone CIITA-1 and sgRNA clone CIITA-2.
sgRNA plasmids used for gene knockout were: sgRNA clone B2M-3, sgRNA clone B2M-4, sgRNA clone CIITA-3 and sgRNA clone CIITA-4.
(1) Aa1 grouping:
shRNA expression frame 2 of AAVS1KI Vector (shRNA, constitutive) plasmid placed shRNA sequences targeting NR4a 1.
(2) Aa2 grouping:
shRNA expression frame 2 of AAVS1KI Vector (shRNA, constitutive) plasmid is provided with shRNA sequence targeting NR4A1, shRNA expression frame 1 is provided with the rest shRNA sequence (including target sequence of B2M/CIITA-3' UTR-shRNA), and MCS is provided with gene sequence.
B2M KI Vector was placed in B2M-3' UTR-miRNA-focus.
CIITA KI Vector was placed into CIITA-3' UTR-miRNA-focus.
(3) Aa3 grouping:
shRNA expression frame 2 of AAVS1KI Vector (shRNA, constitutive) plasmid is placed into shRNA sequence of targeted NR4A1, shRNA expression frame 1 is placed into the rest shRNA target sequence, B2M and CIITA are knocked out, and MCS is placed into gene sequence.
(4) Aa4 grouping:
shRNA expression frame 2 of AAVS1KI Vector (shRNA, constitutive) plasmid is placed into shRNA sequence of targeted NR4A1, shRNA expression frame 1 is placed into the rest shRNA target sequence, and MCS is placed into gene sequence.
(5) Ab1 groups:
shRNA-miR expression frame 2 of AAVS1KI Vector (shRNA-miR, constitutive) plasmid is provided with a shRNA-miR sequence targeting NR4A 1.
(6) Ab2 groups:
shRNA-miR sequence of targeted NR4A1 is put into an shRNA-miR expression frame 2 of AAVS1KI Vector (shRNA-miR, constitutive type) plasmid, the rest shRNA-miR target sequence (including target sequence of B2M/CIITA-3' UTR-shRNA-miR) is put into an shRNA-miR expression frame 1, and gene sequence is put into MCS.
B2M KI Vector was placed in B2M-3' UTR-miRNA-focus.
CIITA KI Vector was placed in CIITA-3' UTR-miRNA-locus.
(7) Ab3 are grouped:
shRNA-miR sequence targeting NR4A1 is placed in shRNA-miR expression frame 2 of AAVS1KI Vector (shRNA-miR, constitutive) plasmid, the rest shRNA-miR target sequence is placed in shRNA-miR expression frame 1, B2M and CIITA are knocked out, and MCS is placed in gene sequence.
(8) Ab4 groups:
shRNA-miR sequence of targeted NR4A1 is put into shRNA-miR expression frame 2 of AAVS1KI Vector (shRNA-miR, constitutive) plasmid, the rest shRNA-miR target sequence is put into shRNA-miR expression frame 1, and gene sequence is put into MCS.
TABLE 9 inducible knock-in expression assay grouping
Figure BDA0002848713510000211
Figure BDA0002848713510000221
Wherein a "+" symbol indicates a knock-in of a gene or nucleic acid sequence and a "-" symbol indicates a knock-out of a gene.
The general principle is shown above in the constitutive knock-in expression experimental group.
(1) B1 grouping:
shRNA expression frame 2 of AAVS1KI Vector (shRNA, inducible) plasmid is placed into shRNA sequence of targeted NR4A1, shRNA expression frame 1 is placed into the rest shRNA target sequence (including B2M/CIITA-3' UTR-shRNA target sequence), and MCS is placed into gene sequence. Adding a Tet-Off system induction system.
B2M KI Vector was placed in B2M-3' UTR-miRNA-focus.
CIITA KI Vector was placed into CIITA-3' UTR-miRNA-focus.
(2) B2 grouping:
shRNA-miR sequence of targeted NR4A1 is placed in shRNA-miR expression frame 2 of AAVS1KI Vector (shRNA-miR, inducible) plasmid, the rest shRNA-miR target sequence (including target sequence of B2M/CIITA-3' UTR-shRNA-miR) is placed in shRNA-miR expression frame 1, and gene sequence is placed in MCS. Adding a Tet-Off system induction system.
B2M KI Vector was placed in B2M-3' UTR-miRNA-focus.
CIITA KI Vector was placed into CIITA-3' UTR-miRNA-focus.
(3) B3 grouping:
shRNA expression frame 2 of AAVS1KI Vector (shRNA, inducible) plasmid is placed into shRNA sequence of targeted NR4A1, shRNA expression frame 1 is placed into the rest shRNA target sequence (including B2M/CIITA-3' UTR-shRNA target sequence), and MCS is placed into gene sequence. Adding a Tet-Off system induction system.
(4) B4 grouping:
shRNA-miR expression frame 2 of AAVS1KI Vector (shRNA-miR, inducible) plasmid is placed into a shRNA-miR sequence of targeted NR4A1, shRNA-miR expression frame 1 is placed into the rest shRNA-miR target sequences (including target sequences of B2M/CIITA-3' UTR-shRNA-miR), and MCS is placed into a gene sequence. Adding a Tet-Off system induction system.
Wherein, the constitutive knock-in and the inducible knock-in can be firstly transformed on hPSCs when immune compatible transformation is carried out, and then the hPSCs are differentiated into derivatives of pluripotent stem cells for application after the transformation is finished; the immune compatibility can also be modified after differentiation of hPSCs into derivatives of pluripotent stem cells.
The Tet-Off system in the invention specifically comprises:
in the absence of tetracycline, the tTA protein continues to act on the tet promoter, resulting in sustained gene expression. This system is very useful in situations where it is desirable to maintain the transgene in a sustained expression state. When tetracycline is added, the tetracycline can change the structure of the tTA protein, so that the tTA protein cannot be combined with a promoter, and the expression level of a gene driven by the tTA protein is reduced. To keep the system in an "off" state, the tetracycline must be added continuously.
The sequence of the Tet-Off system and one or more immune compatible molecules is knocked into a genome safety site of the pluripotent stem cell, and the expression of the immune compatible molecules is accurately turned on or Off through the addition of tetracycline, so that the expression of major histocompatibility complex related genes in the pluripotent stem cell or the derivative thereof can be reversibly regulated and controlled.
The inhibitory effect of the pluripotent stem cells or derivatives thereof expressing the targeted NR4a1 inhibitor on NR4a1 was examined:
general watch8 and Table 9 Each experimental group scheme knocks in the genome safety sites of iPSCs, MSCs, NSCs and EBs cells at 37 ℃ with 0.5% CO2Culturing in an incubator, collecting culture medium supernatant, and extracting exosome in the culture supernatant by using an exosome extraction kit (BestBio, lot # BB-3901) for cells containing a knock-in exosome processing synthetic gene sequence. Centrifuging culture supernatant at 37 deg.C for 15min at 3000g, collecting supernatant, centrifuging at 4 deg.C for 20min at 10000g, collecting supernatant, adding extractive solution A at a ratio of 4:1, reversing the upper and lower parts for 1min, and standing at 37 deg.C overnight. Centrifuging at 37 deg.C for 60min at 10000g, and collecting precipitate. Then, the extracted NR4a1 inhibitor or an exosome containing the NR4a1 inhibitor was added to a culture medium for culturing a CHO cell expressing NR4a1, and the culture was carried out for 72 hours, followed by qPCR assay, to detect the expression level of NR4a 1.
The N (control) group refers to CHO cells expressing NR4a1 cultured without addition of NR4a1 inhibitor or NR4a1 inhibitor-containing exosomes.
The results of the tests of the respective experimental groups are shown in Table 10.
TABLE 10 qPCR results of NR4A1 expression assay of NR4A1 expressing cells
Figure BDA0002848713510000231
Figure BDA0002848713510000241
As can be seen from the above table, the NR4a1 inhibitor encapsulated by exosome expressed by the pluripotent stem cell or the derivative thereof of the present invention can effectively inhibit the expression of NR4a1 in the target cell. And the inhibition degree is relatively constant in each group, so that the NR4A1 inhibitor expressed by the pluripotent stem cell derivative is not influenced by cell differentiation morphology and other exogenous genes (immune compatibility modification).
Detection of antitumor Effect of pluripotent Stem cells expressing an inhibitor targeting NR4A1 or derivatives thereof:
the experimental group schemes in tables 8 and 9 were knocked into the genome-safe sites of iPSCs, MSCs, NSCs, and EBs cells to obtain NR4a 1-expressing inhibitor cells. The antitumor effect was examined using the CFSE (5, 6-carboxyfluoroscein diacetate, succinimidyl ester, hydroxyfluorescein diacetate succinimidyl ester) test.
CFSE test:
the principle is as follows: when T cells are cultured for 72h by using culture supernatant of pluripotent stem cells expressing NR4A1 inhibitor and then contacted with tumor cells, T attacks the tumor cells and causes the death of the tumor cells. While culture supernatants of pluripotent stem cells not expressing the NR4a1 inhibitor were cultured to generate tumor cells that were not recognized by T cells and immune escape occurred. So by detecting CFSE+PI+Cells (dead target cells), i.e., cells that reflect the ability of T cells to kill tumors.
The method comprises the following specific steps:
1) preparation of effector cells:
t cell isolation: human Peripheral Blood Mononuclear Cells (PBMC) were isolated using Ficoll density gradient centrifugation (Ficoll-hypaque density gradient centrifugation) followed by DynabeadsTMCD3(InvitrogenTMAnd the cargo number: 11151D) T cells are isolated by the kit. The cells were resuspended in RPMI1640 medium containing 10% FBS, the cells were counted by trypan blue staining, and concentrated to 1X107cells/mL.
2) Preparation of target cells:
the target cells were selected from tumor cells (NIC lung cancer), digested and resuspended, and cells were counted by trypan blue staining to obtain 1 × 10 cells7cells/mL of cell suspension.
3) CFSE working solution (final concentration of 5. mu. mol/L CFSE) was added to the target cells at 37 ℃ with 5% CO2Incubate for 10min and wash 2 times. After trypan blue staining counting, the cell is resuspended by a culture medium to prepare 1X106cells/mL are ready for use.
4) Target and effector cells were added to 5ml flow tubes, 100. mu.l of target cells (1X 10)5ml-1) And effector cells (E/T is 1:2, 1:5, 1:10, E/T is the ratio of target cells to effector cells T) and to target only cellsCells were used as controls. Effector cells and target cells were gently mixed in a flow tube. Adding PI, standing at 37 deg.C, and 5% CO2The culture was incubated for 4 h. Flow cytometry detection of CFSE+PI+Percentage of cells (dead target cells).
Target cell death (%) -target cell death (%) plus T cell stimulation (%) -target cell natural death (%)
The results are shown in Table 11.
TABLE 11 Effect of NR4A1 inhibitor expressed in each experimental group on T cell killing of tumor cells
Figure BDA0002848713510000251
Figure BDA0002848713510000261
The N (control) group refers to T cells that were not treated with the culture supernatant of the pluripotent stem cells expressing the NR4a1 inhibitor. Independent samples were tested for T (./p < 0.01).
Through the experiments, the NR4A1 inhibitory factor which is expressed by the pluripotent stem cell or the derivative thereof and is wrapped by an exosome can be proved to have the anti-tumor effect.
Pluripotent stem cells expressing targeted NR4a1 inhibitors find use in a variety of tumor therapies:
B2M and CIITA knockout protocol groups (Aa3, Ab3) were selected for testing in immunocompatible cells (hPSCs, MSCs, NSCs, EBs).
In the humanized NSG mouse tumor model, each group of experimental cells was injected and the effect on the treatment of MC colon cancer, MM melanoma was observed. In order to avoid the problem of immune compatibility, the immune cells used are derived from the same person as the hPSCs and the derivatives of hPSCs.
The method comprises the following specific steps:
in humanized NSG mice (The Jackson Laboratory (JAX)), The right axilla was injected subcutaneously with 5X 106Tumor (MC)Colon cancer, MM melanoma) cells until the tumor grows to 60MM3At size, tail vein injection of 200uL PBS (containing human immune cells and 10)6A pluripotent stem cell derivative expressing an NR4a1 inhibitor encapsulated by exosome) was subjected to tumor treatment, in which only a group containing human immune cells was injected as a control group. Mice were sacrificed after 20 days and tumor sizes were compared between groups and statistical analysis of differences was performed.
The results are shown in Table 12.
TABLE 12 antitumor Effect of pluripotent Stem cells or derivatives thereof in Each test group
Figure BDA0002848713510000262
Figure BDA0002848713510000271
Independent samples were tested for T (./p < 0.01).
Through the experiments, the stem cells expressing the NR4A1 inhibitory factor or the derivatives thereof prepared by the invention can be proved to be capable of effectively blocking NR4A1 to play an anti-tumor role.
Immune compatibility testing of pluripotent stem cells expressing inhibitors targeting NR4a 1:
by utilizing the characteristic of low immunogenicity of the MSCs, the hPSCs capable of expressing NR4A1 inhibitor (shRNA targeting NR4A 1) are injected into a humanized NSG mouse tumor model to form immune compatible MSCs, and the effect of treating tumors (MM melanoma) is observed. Wherein the immunocyte and the MSCs derived from hPSCs are derived from non-identical persons.
The control group is an NSG mouse tumor model without MSCs cell injection;
the Dox addition group is: the mice were continuously fed with 0.5mg/mL of Dox in the mouse diet starting from the injection of the inhibitor-expressing cells until the end of the experiment.
The results of the reversible expression test for the immune-compatible molecule inducible expression panel are shown in table 13.
TABLE 13 reversible expression test results for immune-compatible molecule inducible expression panels
Figure BDA0002848713510000281
Independent samples were tested for T (/ p < 0.01).
The above experiment shows that: MSCs expressing only suppressive factors (group 2), which have low immunogenicity and can exist in foreign body for a certain time, can exert a certain tumor treatment effect, while those that are immunologically compatibly engineered (groups 3-7, including constitutive and reversible inducible immunocompatibilities), which have better immune compatibility effects, are present in vivo for a longer time (or can achieve long-term coexistence) than MSCs not immunologically compatibly engineered, which exert a better tumor treatment effect, whereas group 4 is a B2M and CIITA gene knock-out group, which completely eliminates the influence of HLA-I and HLA-II molecules, and thus, has the best tumor treatment effect. However, there are groups 6-9 protocol settings because of their constitutive immune compatible modifications (knock-in/knock-out) and their inability to clear when a graft becomes mutated or otherwise undesirable. In groups 8-9, the mice injected with the suppressor cells were shown to have abolished the immune compatibility effect by administering Dox inducer (always administered) to the mice at the same time as the injection of the suppressor cells into the mice, which was found in vivo for a time period comparable to that of the MSCs without immune compatibility modification, and the tumor therapy effect was comparable to that of the MSCs without immune compatibility modification.
The embodiments of the present invention are not limited to the embodiments, and any other changes, modifications, substitutions, combinations, and simplifications which do not depart from the spirit and principle of the present invention should be construed as equivalents and are included in the scope of the present invention.
SEQUENCE LISTING
<110> future Chile regenerative medicine institute (Guangzhou) Co., Ltd
Wang Linli
<120> pluripotent stem cell expressing targeted NR4A1 inhibitory factor, and derivatives and application thereof
<130>
<160> 103
<170> PatentIn version 3.5
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gctacctgga gcttcttaac a 21
<210> 14
<211> 21
<212> DNA
<213> human
<400> 14
ggagcttctt aacagcgatg c 21
<210> 15
<211> 21
<212> DNA
<213> human
<400> 15
gggtctccag tatattcatc t 21
<210> 16
<211> 21
<212> DNA
<213> human
<400> 16
gctcccactc catgaggtat t 21
<210> 17
<211> 21
<212> DNA
<213> human
<400> 17
ggtatttctt cacatccgtg t 21
<210> 18
<211> 21
<212> DNA
<213> human
<400> 18
aggagacacg gaatgtgaag g 21
<210> 19
<211> 21
<212> DNA
<213> human
<400> 19
gctcccactc catgaggtat t 21
<210> 20
<211> 21
<212> DNA
<213> human
<400> 20
ggtatttcta cacctccgtg t 21
<210> 21
<211> 21
<212> DNA
<213> human
<400> 21
ggaccggaac acacagatct a 21
<210> 22
<211> 21
<212> DNA
<213> human
<400> 22
ttcttacttc cctaatgaag t 21
<210> 23
<211> 21
<212> DNA
<213> human
<400> 23
aagttaagaa cctgaatata a 21
<210> 24
<211> 21
<212> DNA
<213> human
<400> 24
aacctgaata taaatttgtg t 21
<210> 25
<211> 21
<212> DNA
<213> human
<400> 25
gggtctggtg ggcatcatta t 21
<210> 26
<211> 21
<212> DNA
<213> human
<400> 26
ggtctggtgg gcatcattat t 21
<210> 27
<211> 21
<212> DNA
<213> human
<400> 27
gcatcattat tgggaccatc t 21
<210> 28
<211> 21
<212> DNA
<213> human
<400> 28
gatgaccaca ttcaaggaag a 21
<210> 29
<211> 21
<212> DNA
<213> human
<400> 29
gaccacattc aaggaagaac t 21
<210> 30
<211> 21
<212> DNA
<213> human
<400> 30
gctttcctgc ttggcagtta t 21
<210> 31
<211> 21
<212> DNA
<213> human
<400> 31
gcgtaagtct gagtgtcatt t 21
<210> 32
<211> 21
<212> DNA
<213> human
<400> 32
gacaatttaa ggaagaatct t 21
<210> 33
<211> 21
<212> DNA
<213> human
<400> 33
ggccatagtt ctccctgatt g 21
<210> 34
<211> 21
<212> DNA
<213> human
<400> 34
gccatagttc tccctgattg a 21
<210> 35
<211> 21
<212> DNA
<213> human
<400> 35
gcagatgacc acattcaagg a 21
<210> 36
<211> 21
<212> DNA
<213> human
<400> 36
gcagcaggat aagtatgagt g 21
<210> 37
<211> 21
<212> DNA
<213> human
<400> 37
gcaggataag tatgagtgtc a 21
<210> 38
<211> 21
<212> DNA
<213> human
<400> 38
ggttcctgca cagagacatc t 21
<210> 39
<211> 21
<212> DNA
<213> human
<400> 39
ggatgtggaa cccacagata c 21
<210> 40
<211> 21
<212> DNA
<213> human
<400> 40
gatgtggaac ccacagatac a 21
<210> 41
<211> 21
<212> DNA
<213> human
<400> 41
gtggaaccca cagatacaga g 21
<210> 42
<211> 21
<212> DNA
<213> human
<400> 42
gggtagcaac tgtcaccttg a 21
<210> 43
<211> 21
<212> DNA
<213> human
<400> 43
ggatttcgtg ttccagttta a 21
<210> 44
<211> 21
<212> DNA
<213> human
<400> 44
gcatgtgcta cttcaccaac g 21
<210> 45
<211> 21
<212> DNA
<213> human
<400> 45
gctcacagtc atcaattata g 21
<210> 46
<211> 21
<212> DNA
<213> human
<400> 46
gccctgaaga cagaatgttc c 21
<210> 47
<211> 21
<212> DNA
<213> human
<400> 47
gcggaccatg tgtcaactta t 21
<210> 48
<211> 21
<212> DNA
<213> human
<400> 48
gcctgatagg acccatattc c 21
<210> 49
<211> 21
<212> DNA
<213> human
<400> 49
gcatccaata gacgtcattt g 21
<210> 50
<211> 21
<212> DNA
<213> human
<400> 50
gcgtcactgg cacagatata a 21
<210> 51
<211> 21
<212> DNA
<213> human
<400> 51
ggatggattt gattatgatc c 21
<210> 52
<211> 21
<212> DNA
<213> human
<400> 52
ggaccttgga acaatggatt g 21
<210> 53
<211> 21
<212> DNA
<213> human
<400> 53
gctaattctt gctgaacttc t 21
<210> 54
<211> 21
<212> DNA
<213> human
<400> 54
gcagttctgt tgccactctc t 21
<210> 55
<211> 21
<212> DNA
<213> human
<400> 55
gggagagttc atccaggaaa t 21
<210> 56
<211> 21
<212> DNA
<213> human
<400> 56
ggagagttca tccaggaaat t 21
<210> 57
<211> 21
<212> DNA
<213> human
<400> 57
gggttggttt atccaggaat a 21
<210> 58
<211> 21
<212> DNA
<213> human
<400> 58
ggatcagaag agaagccaac g 21
<210> 59
<211> 21
<212> DNA
<213> human
<400> 59
ggttcaccat ccaggtgttc a 21
<210> 60
<211> 21
<212> DNA
<213> human
<400> 60
ggaggaactt tgtgaacatt c 21
<210> 61
<211> 21
<212> DNA
<213> human
<400> 61
gctgtaagaa ggatgctttc a 21
<210> 62
<211> 21
<212> DNA
<213> human
<400> 62
gctgcaggca ggattgtttc a 21
<210> 63
<211> 19
<212> DNA
<213> human
<400> 63
gcctcgagtt tgagagcta 19
<210> 64
<211> 19
<212> DNA
<213> human
<400> 64
agacattctg gatgagtta 19
<210> 65
<211> 19
<212> DNA
<213> human
<400> 65
gggtctgtta cccaaagaa 19
<210> 66
<211> 21
<212> DNA
<213> human
<400> 66
ggacactggt tcaacacctg t 21
<210> 67
<211> 21
<212> DNA
<213> human
<400> 67
ggttcaacac ctgtgacttc a 21
<210> 68
<211> 21
<212> DNA
<213> human
<400> 68
acctgtgact tcatgtgtgc g 21
<210> 69
<211> 1607
<212> DNA
<213> human
<400> 69
atgaatactc tccctgaaca ttcatgtgac gtgttgatta tcggtagcgg cgcagccgga 60
ctttcactgg cgctacgcct ggctgaccag catcaggtca tcgttctaag taaggccggt 120
aacgaggttc aacattttat gcccagggcg gtattgccgc cgtgtttgat aaactgacag 180
cattgactcg catgtggaag acacattgat tgccggggct ggtatttgcg atcgccatgc 240
agttgaattt gtcgccagca atgcacgatc ctgtgtgcaa tggctaatcg accagggggt 300
gttgtttgat acccacattc aaccgaatgg cgaagaaagt taccatctga cccgtgaagg 360
tggacatagt caccgtcgta ttcttcatgc cgccgacgcc accggtagag aagtagaaac 420
cacgctggtg agcaaggcgc tgaaccatcc gaatattcgc gtgctggagc gcagcaacgc 480
ggttgatctg attgtttctg acaaaattgg cctgccgggc acgcgacggg ttgttggcgc 540
gtgggtatgg aaccgtaata aagaaacggt ggaaacctgc cacgcaaaag cggtggtgct 600
ggcaaccggc ggtgcgtcga aggtttatca gtacaccacc aatccggata tttcttctgg 660
cgatggcatt gctatggcgt ggcgcgcagg ctgccggttg ccaatctcga tttaatcagt 720
tccaccctac cgcgctatat cacccacagg cacgcaattt cctgttaaca gaagcactgc 780
gcggcgaggc gcttatctca agcgcccgga tggtacgcgt ttatccgatt ttgatgagcg 840
cggcgaactg ccccgcgcga tattgtcgcc cgcgccattg accatgaaat gaaacgcctc 900
ggcgcagatt gtatgttcct tgatatcagc cataagcccg ccgattttat tcgccagcat 960
ttcccgatga tttatgaaaa gctgctcggg ctgggattga tctcacacaa gaaccggtac 1020
cgattgtgcc tgctgcacat tatacctgcg gtggtgtaat ggttgatgat catgggcgta 1080
cggacgtcga gggcttgtat gccattggcg aggtgagtta taccggctta cacggcgcta 1140
accgcatggc ctcgaattca ttgctggagt gtctggtcta tggctggtcg gcggcggaag 1200
atatcaccag acgtatgcct tatgcccacg acatcagtac gttaccgccg tgggatgaaa 1260
gccgcgttga gaaccctgac gaacggtagt aattcagcat aactggcacg agctacgtct 1320
gtttatgtgg gattacgttg gcattgtgcg cacaacgaag cgcctggaac gcgccctgcg 1380
gcggataacc atgctccaac aagaaataga cgaatattac gcccatttcc gcgtctcaaa 1440
taatttgctg gagctgcgta atctggtaca ggttgccgag ttgattgttc gctgtgcaat 1500
gatgcgtaaa gagagtcggg gttgcatttc acgctggatt atccggaact gctcacccat 1560
tccggtccgt cgatccttcc cccggcaatc attacataaa cagataa 1607
<210> 70
<211> 411
<212> DNA
<213> human
<400> 70
ggaagtggtg ccggcaccgg cggcatgtac gtgcgcttcg aggtgcccga ggacatgcag 60
aacgaggccc tgagcctgct ggaaaaagtg cgcgagagcg gcaaagtgaa gaagggcacc 120
aacgaaacca ccaaggccgt ggaacggggc ctggccaagc tggtgtatat cgccgaggac 180
gtggaccccc ccgagattgt ggcccatctg cccctgctgt gcgaagagaa gaacgtgccc 240
tacatctacg tgaagtccaa gaacgacctg ggcagagccg tgggcatcga ggtgccatgt 300
gcctctgccg ccatcatcaa cgagggcgag ctgcggaaag aactgggcag cctggtggaa 360
aagatcaagg gcctgcagaa gggttccggt ggatccggtt ccggacgggc t 411
<210> 71
<211> 20
<212> DNA
<213> Artificial sequence
<400> 71
tataaggtgg tcccagctcg 20
<210> 72
<211> 20
<212> DNA
<213> Artificial sequence
<400> 72
agggccggtt aatgtggctc 20
<210> 73
<211> 20
<212> DNA
<213> Artificial sequence
<400> 73
ctcctgttat attctagaac 20
<210> 74
<211> 20
<212> DNA
<213> Artificial sequence
<400> 74
tttcagcatc aatgtaccct 20
<210> 75
<211> 20
<212> DNA
<213> Artificial sequence
<400> 75
cgcgagcaca gctaaggcca 20
<210> 76
<211> 20
<212> DNA
<213> Artificial sequence
<400> 76
actctctctt tctggcctgg 20
<210> 77
<211> 20
<212> DNA
<213> Artificial sequence
<400> 77
ggcactcaga agacactgat 20
<210> 78
<211> 20
<212> DNA
<213> Artificial sequence
<400> 78
aaggtgtctg gtcggagagc 20
<210> 79
<211> 20
<212> DNA
<213> Artificial sequence
<400> 79
acccagcagg gcgtggagcc 20
<210> 80
<211> 20
<212> DNA
<213> Artificial sequence
<400> 80
gtcagagccc caaggtaaaa 20
<210> 81
<211> 900
<212> DNA
<213> Artificial sequence
<400> 81
cctggacttc tccagtactt tctggctgga ttggtatctg aggctagtag gaagggcttg 60
ttcctgctgg gtagctctaa acaatgtatt catgggtagg aacagcagcc tattctgcca 120
gccttatttc taaccatttt agacatttgt tagtacatgg tattttaaaa gtaaaactta 180
atgtcttcct tttttttctc cactgtcttt ttcatagatc gagacatgta agcagcatca 240
tggaggtaag tttttgacct tgagaaaatg tttttgtttc actgtcctga ggactattta 300
tagacagctc taacatgata accctcacta tgtggagaac attgacagag taacatttta 360
gcagggaaag aagaatccta cagggtcatg ttcccttctc ctgtggagtg gcatgaagaa 420
ggtgtatggc cccaggtatg gccatattac tgaccctcta cagagagggc aaaggaactg 480
ccagtatggt attgcaggat aaaggcaggt ggttacccac attacctgca aggctttgat 540
ctttcttctg ccatttccac attggacatc tctgctgagg agagaaaatg aaccactctt 600
ttcctttgta taatgttgtt ttattcttca gacagaagag aggagttata cagctctgca 660
gacatcccat tcctgtatgg ggactgtgtt tgcctcttag aggttcccag gccactagag 720
gagataaagg gaaacagatt gttataactt gatataatga tactataata gatgtaacta 780
caaggagctc cagaagcaag agagagggag gaacttggac ttctctgcat ctttagttgg 840
agtccaaagg cttttcaatg aaattctact gcccagggta cattgatgct gaaaccccat 900
<210> 82
<211> 900
<212> DNA
<213> Artificial sequence
<400> 82
tcaaatctcc tgttatattc tagaacaggg aattgatttg ggagagcatc aggaaggtgg 60
atgatctgcc cagtcacact gttagtaaat tgtagagcca ggacctgaac tctaatatag 120
tcatgtgtta cttaatgacg gggacatgtt ctgagaaatg cttacacaaa cctaggtgtt 180
gtagcctact acacgcatag gctacatggt atagcctatt gctcctagac tacaaacctg 240
tacagcctgt tactgtactg aatactgtgg gcagttgtaa cacaatggta agtatttgtg 300
tatctaaaca tagaagttgc agtaaaaata tgctatttta atcttatgag accactgtca 360
tatatacagt ccatcattga ccaaaacatc atatcagcat tttttcttct aagattttgg 420
gagcaccaaa gggatacact aacaggatat actctttata atgggtttgg agaactgtct 480
gcagctactt cttttaaaaa ggtgatctac acagtagaaa ttagacaagt ttggtaatga 540
gatctgcaat ccaaataaaa taaattcatt gctaaccttt ttcttttctt ttcaggtttg 600
aagatgccgc atttggattg gatgaattcc aaattctgct tgcttgcttt ttaatattga 660
tatgcttata cacttacact ttatgcacaa aatgtagggt tataataatg ttaacatgga 720
catgatcttc tttataattc tactttgagt gctgtctcca tgtttgatgt atctgagcag 780
gttgctccac aggtagctct aggagggctg gcaacttaga ggtggggagc agagaattct 840
cttatccaac atcaacatct tggtcagatt tgaactcttc aatctcttgc actcaaagct 900
<210> 83
<211> 900
<212> DNA
<213> Artificial sequence
<400> 83
cttgacaagt ctcctgctcc tcactatgaa gatcactgtc ccccagccct gtgctccccg 60
cactgtgctg cacgtccacc tccattccac tgcccctccc atccccccat cttgatagca 120
cccttcccag gtgtcaagct gcccctccta gagtgtcctg cctaaacccc ctctcctggc 180
tcctcccgct acagcatgtt ctctgaggac actaaccacg ctggaccttg aactgggtac 240
ttgtggacac agctcttctc caggctgtat cccatgagcc tcagcatcct ggcacccggc 300
ccctgctggt tcagggttgg cccctgcccg gctgcggaat gaaccacatc ttgctctgct 360
gacagacaca ggcccggctc caggctcctt tagcgcccag ttgggtggat gcctggtggc 420
agctgcggtc cacccaggag ccccgaggcc ttctctgaag gacattgcgg acagccacgg 480
ccaggccaga gggagtgaca gaggcagccc cattctgcct gcccaggccc ctgccaccct 540
ggggagaaag tacttctttt tttttatttt tagacagagt ctcactgttg cccaggctgg 600
cgtgcagtgg tgcgatctgg gttcactgca acctccgcct cttgggttca agcgattctt 660
ctgcttcagc ctcccgagta gctgggacta caggcaccca ccatcatgtc tggctaattt 720
ttcattttta gtagagacag ggttttgcca tgttggccag gctggtctca aactcttgac 780
ctcaggtgat ccacccacct cagcctccca aagtgctggg attacaagcg tgagccactg 840
caccgggcca cagagaaagt acttctccac cctgctctcc gaccagacac cttgacaggg 900
<210> 84
<211> 900
<212> DNA
<213> Artificial sequence
<400> 84
cacaccgggc actcagaaga cactgatggg caacccccag cctgctaatt ccccagattg 60
caacaggctg ggcttcagtg gcagctgctt ttgtctatgg gactcaatgc actgacattg 120
ttggccaaag ccaaagctag gcctggccag atgcaccagc ccttagcagg gaaacagcta 180
atgggacact aatggggcgg tgagagggga acagactgga agcacagctt catttcctgt 240
gtcttttttc actacattat aaatgtctct ttaatgtcac aggcaggtcc agggtttgag 300
ttcataccct gttaccattt tggggtaccc actgctctgg ttatctaata tgtaacaagc 360
caccccaaat catagtggct taaaacaaca ctcacattta ttctgctcac atatctgtca 420
tttgagcagg gctcagcggg gacagctcct tctgtcctac tctgtgtcag gtggggcagc 480
ttgagggttg ggctggtgtc acctgaagac tcattcttct gtacgtctga caggcaatgc 540
tggctgttgg ctgggggcct cagtgccact acggaatagt tggctaggac ccctccatgt 600
gggctagttg ggcttcctca tagtatggtg gctgggttgg agggtgtccc aaaaagaaag 660
gaggggatag agagagacca cttttcataa cctagcctta gaagtcacac agtattactt 720
ctgctacata tatatgtttt aagaggcagg gtctcactct gtcgcccagt ctggaatgca 780
gtggtatgat cacggctcac tgcagcctca acctcctggg ctaagtgatc ctcccacctc 840
agcctcccga atagctggga ctacaggtgt gagtcaccaa gcccagttaa tctttagttt 900
<210> 85
<211> 804
<212> DNA
<213> Artificial sequence
<400> 85
tgctttctct gacctgcatt ctctcccctg ggcctgtgcc gctttctgtc tgcagcttgt 60
ggcctgggtc acctctacgg ctggcccaga tccttccctg ccgcctcctt caggttccgt 120
cttcctccac tccctcttcc ccttgctctc tgctgtgttg ctgcccaagg atgctctttc 180
cggagcactt ccttctcggc gctgcaccac gtgatgtcct ctgagcggat cctccccgtg 240
tctgggtcct ctccgggcat ctctcctccc tcacccaacc ccatgccgtc ttcactcgct 300
gggttccctt ttccttctcc ttctggggcc tgtgccatct ctcgtttctt aggatggcct 360
tctccgacgg atgtctccct tgcgtcccgc ctccccttct tgtaggcctg catcatcacc 420
gtttttctgg acaaccccaa agtaccccgt ctccctggct ttagccacct ctccatcctc 480
ttgctttctt tgcctggaca ccccgttctc ctgtggattc gggtcacctc tcactccttt 540
catttgggca gctcccctac cccccttacc tctctagtct gtgctagctc ttccagcccc 600
ctgtcatggc atcttccagg ggtccgagag ctcagctagt cttcttcctc caacccgggc 660
ccctatgtcc acttcaggac agcatgtttg ctgcctccag ggatcctgtg tccccgagct 720
gggaccacct tatattccca gggccggtta atgtggctct ggttctgggt acttttatct 780
gtcccctcca ccccacagtg gggc 804
<210> 86
<211> 837
<212> DNA
<213> Artificial sequence
<400> 86
actagggaca ggattggtga cagaaaagcc ccatccttag gcctcctcct tcctagtctc 60
ctgatattgg gtctaacccc cacctcctgt taggcagatt ccttatctgg tgacacaccc 120
ccatttcctg gagccatctc tctccttgcc agaacctcta aggtttgctt acgatggagc 180
cagagaggat cctgggaggg agagcttggc agggggtggg agggaagggg gggatgcgtg 240
acctgcccgg ttctcagtgg ccaccctgcg ctaccctctc ccagaacctg agctgctctg 300
acgcggccgt ctggtgcgtt tcactgatcc tggtgctgca gcttccttac acttcccaag 360
aggagaagca gtttggaaaa acaaaatcag aataagttgg tcctgagttc taactttggc 420
tcttcacctt tctagtcccc aatttatatt gttcctccgt gcgtcagttt tacctgtgag 480
ataaggccag tagccagccc cgtcctggca gggctgtggt gaggaggggg gtgtccgtgt 540
ggaaaactcc ctttgtgaga atggtgcgtc ctaggtgttc accaggtcgt ggccgcctct 600
actccctttc tctttctcca tccttctttc cttaaagagt ccccagtgct atctgggaca 660
tattcctccg cccagagcag ggtcccgctt ccctaaggcc ctgctctggg cttctgggtt 720
tgagtccttg gcaagcccag gagaggcgct caggcttccc tgtccccctt cctcgtccac 780
catctcatgc ccctggctct cctgcccctt ccctacaggg gttcctggct ctgctct 837
<210> 87
<211> 253
<212> DNA
<213> Artificial sequence
<400> 87
gagggcctat ttcccatgat tccttcatat ttgcatatac gatacaaggc tgttagagag 60
ataattggaa ttaatttgac tgtaaacaca aagatattag tacaaaatac gtgacgtaga 120
aagtaataat ttcttgggta gtttgcagtt ttaaaattat gttttaaaat ggactatcat 180
atgcttaccg taacttgaaa gtatttcgat ttcttggctt tatatatctt gtggaaagga 240
cgctagcgcc acc 253
<210> 88
<211> 686
<212> DNA
<213> Artificial sequence
<400> 88
gagggcctat ttcccatgat tccttcatat ttgcatatac gatacaaggc tgttagagag 60
ataattggaa ttaatttgac tgtaaacaca aagatattag tacaaaatac gtgacgtaga 120
aagtaataat ttcttgggta gtttgcagtt ttaaaattat gttttaaaat ggactatcat 180
atgcttaccg taacttgaaa gtatttcgat ttcttggctt tatatatctt gtggaaagga 240
ctttaccact ccctatcagt gatagagaaa agtgaaagtc gagtttacca ctccctatca 300
gtgatagaga aaagtgaaag tcgagtttac cactccctat cagtgataga gaaaagtgaa 360
agtcgagttt accactccct atcagtgata gagaaaagtg aaagtcgagt ttaccactcc 420
ctatcagtga tagagaaaag tgaaagtcga gtttaccact ccctatcagt gatagagaaa 480
agtgaaagtc gagtttacca ctccctatca gtgatagaga aaagtgaaag tcgagctcgg 540
tacccgggtc gaggtaggcg tgtacggtgg gaggcctata taagcagagc tcgtttagtg 600
aaccgtcaga tcgcctggag acgccatcca cgctgttttg acctccatag aagacaccgg 660
gaccgatcca gcctgctagc gccacc 686
<210> 89
<211> 22
<212> DNA
<213> Artificial sequence
<400> 89
ccatagctca gtctggtcta tc 22
<210> 90
<211> 22
<212> DNA
<213> Artificial sequence
<400> 90
ctcttcgtcc agatcatcct ga 22
<210> 91
<211> 22
<212> DNA
<213> Artificial sequence
<400> 91
ccatagctca gtctggtcta tc 22
<210> 92
<211> 20
<212> DNA
<213> Artificial sequence
<400> 92
cacaccttgc cgatgtcgag 20
<210> 93
<211> 24
<212> DNA
<213> Artificial sequence
<400> 93
gcactgaacg aacatctcaa gaag 24
<210> 94
<211> 22
<212> DNA
<213> Artificial sequence
<400> 94
ctcttcgtcc agatcatcct ga 22
<210> 95
<211> 24
<212> DNA
<213> Artificial sequence
<400> 95
gcactgaacg aacatctcaa gaag 24
<210> 96
<211> 20
<212> DNA
<213> Artificial sequence
<400> 96
cacaccttgc cgatgtcgag 20
<210> 97
<211> 22
<212> DNA
<213> Artificial sequence
<400> 97
tgctccgggt ttgtctcaga tg 22
<210> 98
<211> 22
<212> DNA
<213> Artificial sequence
<400> 98
ctcttcgtcc agatcatcct ga 22
<210> 99
<211> 22
<212> DNA
<213> Artificial sequence
<400> 99
tgctccgggt ttgtctcaga tg 22
<210> 100
<211> 20
<212> DNA
<213> Artificial sequence
<400> 100
cacaccttgc cgatgtcgag 20
<210> 101
<211> 590
<212> DNA
<213> Artificial sequence
<400> 101
cccctctccc tccccccccc ctaacgttac tggccgaagc cgcttggaat aaggccggtg 60
tgcgtttgtc tatatgttat tttccaccat attgccgtct tttggcaatg tgagggcccg 120
gaaacctggc cctgtcttct tgacgagcat tcctaggggt ctttcccctc tcgccaaagg 180
aatgcaaggt ctgttgaatg tcgtgaagga agcagttcct ctggaagctt cttgaagaca 240
aacaacgtct gtagcgaccc tttgcaggca gcggaacccc ccacctggcg acaggtgcct 300
ctgcggccaa aagccacgtg tataagatac acctgcaaag gcggcacaac cccagtgcca 360
cgttgtgagt tggatagttg tggaaagagt caaatggctc tcctcaagcg tattcaacaa 420
ggggctgaag gatgcccaga aggtacccca ttgtatggga tctgatctgg ggcctcggtg 480
cacatgcttt acatgtgttt agtcgaggtt aaaaaaacgt ctaggccccc cgaaccacgg 540
ggacgtggtt ttcctttgaa aaacacgatg ataatatggc cacaaccatg 590
<210> 102
<211> 21
<212> DNA
<213> Caenorhabditis elegans
<400> 102
ttgtactaca caaaagtact g 21
<210> 103
<211> 24
<212> DNA
<213> Caenorhabditis elegans
<400> 103
tcacaacctc ctagaaagag taga 24

Claims (22)

1. A pluripotent stem cell or a derivative thereof, wherein a genome of the pluripotent stem cell or the derivative thereof has an expression sequence of NR4A1 inhibitor introduced therein; the NR4A1 inhibitor is at least one of shRNA and/or shRNA-miR of targeted NR4A 1.
2. The pluripotent stem cell or the derivative thereof according to claim 1, wherein the NR4A 1-targeting shRNA and/or shRNA-miR sequence is shown in SEQ ID No. 1-SEQ ID No. 3.
3. The pluripotent stem cell or derivative thereof according to claim 1, wherein the B2M gene and/or the CIITA gene of the genome of the pluripotent stem cell or derivative thereof is knocked out.
4. The pluripotent stem cell or derivative thereof according to claim 1, wherein: the genome of the pluripotent stem cell or the derivative thereof is also introduced with a first nucleic acid molecule;
and, a second nucleic acid molecule is further introduced into the 3' UTR region of the immune response-associated gene in the pluripotent stem cell or the derivative thereof;
the first nucleic acid molecule encodes a small nucleic acid molecule that mediates RNA interference, which small nucleic acid molecule specifically targets the transcript of the second nucleic acid molecule, and which small nucleic acid molecule does not target any other mRNA or incrna of the pluripotent stem cell or a derivative thereof.
5. The pluripotent stem cell or the derivative thereof according to claim 4, wherein the small nucleic acid molecule comprises at least one of a short interfering nucleic acid, a short interfering RNA, a double-stranded RNA, preferably miRNA, shRNA-miR.
6. The pluripotent stem cells or the derivatives thereof according to claim 5, wherein the pluripotent stem cells or the derivatives thereof are derived from a human; the sequence of the small nucleic acid molecule is a random sequence of a non-human species that does not target any mRNA or incrna of a human.
7. The pluripotent stem cell or the derivative thereof according to claim 4, wherein the second nucleic acid molecule comprises the reverse complement of at least 3 repeats of the small nucleic acid molecule sequence, preferably 6-10 repeats of the small nucleic acid molecule sequence.
8. The pluripotent stem cells or the derivatives thereof according to claim 1, wherein the genome of the pluripotent stem cells or the derivatives thereof further comprises an expression sequence of at least one immune compatible molecule for regulating the expression of genes associated with an immune response in the pluripotent stem cells or the derivatives thereof.
9. The pluripotent stem cell or the derivative thereof according to claim 4 or 8, wherein the genes associated with the immune response comprise:
(1) major histocompatibility complex genes including at least one of HLA-A, HLA-B, HLA-C, HLA-DRA, HLA-DRB1, HLA-DRB3, HLA-DRB4, HLA-DRB5, HLA-DQA1, HLA-DQB1, HLA-DPA1, and HLA-DPB 1;
(2) major histocompatibility complex-associated genes including at least one of B2M and CIITA.
10. The pluripotent stem cell or derivative thereof of claim 8, wherein the immune-compatible molecule comprises at least one of:
(1) an immune tolerance-related gene including at least one of CD47 and HLA-G;
(2) HLA-C molecules, including HLA-C multiple alleles of which the proportion in the population is over 90 percent in total, or fusion protein genes consisting of the HLA-C multiple alleles of which the proportion is over 90 percent and B2M;
(3) shRNA and/or shRNA-miR targeting major histocompatibility complex genes including at least one of HLA-A, HLA-B, HLA-C, HLA-DRA, HLA-DRB1, HLA-DRB3, HLA-DRB4, HLA-DRB5, HLA-DQA1, HLA-DQB1, HLA-DPA1, and HLA-DPB 1;
(4) shRNA and/or shRNA-miR targeting a major histocompatibility complex-associated gene that includes at least one of B2M and CIITA.
11. The pluripotent stem cell or derivative thereof of claim 10, wherein:
the target sequence of the shRNA and/or shRNA-miR targeting B2M is selected from one of SEQ ID NO. 10-SEQ ID NO. 12;
the target sequence of the shRNA and/or shRNA-miR of the targeting CIITA is selected from one of SEQ ID NO. 13-SEQ ID NO. 15;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-A is selected from one of SEQ ID NO. 16-SEQ ID NO. 18;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-B is selected from one of SEQ ID NO. 19-SEQ ID NO. 21;
the target sequence of the shRNA and/or shRNA-miR targeting the HLA-C is selected from one of SEQ ID NO. 22-SEQ ID NO. 24;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DRA is selected from one of SEQ ID NO. 25-SEQ ID NO. 27;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DRB1 is selected from one of SEQ ID NO. 28-SEQ ID NO. 30;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DRB3 is selected from one of SEQ ID NO. 31-SEQ ID NO. 32;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DRB4 is selected from one of SEQ ID NO. 33-SEQ ID NO. 35;
the target sequence of the shRNA and/or shRNA-miR targeting HLA-DRB5 is selected from one of SEQ ID NO. 36-SEQ ID NO. 38;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DQA1 is selected from one of SEQ ID NO. 39-SEQ ID NO. 41;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DQB1 is selected from one of SEQ ID NO. 42-SEQ ID NO. 44;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DPA1 is selected from one of SEQ ID NO. 45-SEQ ID NO. 47;
the target sequence of the shRNA and/or shRNA-miR of the target HLA-DPB1 is selected from one of SEQ ID NO. 48-SEQ ID NO. 51.
12. The pluripotent stem cell or the derivative thereof according to any one of claims 1 to 11, wherein a shRNA and/or miRNA processing complex-associated gene and/or an anti-interferon effector molecule is further introduced into the genome of the pluripotent stem cell or the derivative thereof, wherein: the shRNA and/or miRNA processing complex related gene comprises at least one of Drosha, Ago1, Ago2, Dicer1, Exportin-5, TRBP (TARBP2), PACT (PRKRA) and DGCR 8; the anti-interferon effector molecule is shRNA and/or shRNA-miR of at least one of target PKR, 2-5As, IRF-3 and IRF-7.
13. The pluripotent stem cell or the derivative thereof according to claim 12, wherein the target sequence of the PKR-targeting shRNA and/or shRNA-miR is selected from one of SEQ ID No.51 to SEQ ID No. 53;
the target sequence of the shRNA and/or shRNA-miR targeting 2-5As is selected from one of SEQ ID NO. 54-SEQ ID NO. 62;
the target sequence of the shRNA and/or shRNA-miR of the target IRF-3 is selected from one of SEQ ID NO. 63-SEQ ID NO. 65;
the target sequence of the shRNA and/or shRNA-miR of the target IRF-7 is selected from one of SEQ ID NO. 66-SEQ ID NO. 68.
14. The pluripotent stem cell or the derivative thereof according to claim 2, 11 or 13, wherein the expression frameworks of the shRNA and/or shRNA-miR targeting NR4a1, major histocompatibility complex gene, major histocompatibility complex-related gene, anti-interferon effector molecule are as follows:
the shRNA expression framework is as follows: the gene sequence sequentially comprises an shRNA target sequence, a stem-loop sequence, a reverse complementary sequence of the shRNA target sequence and Poly T from 5 'to 3';
wherein the shRNA target sequence, the stem-loop sequence and the reverse complementary sequence of the shRNA target sequence form a hairpin structure; poly T is a transcription terminator of RNA polymerase III;
shRNA-miR expression framework: and replacing the shRNA target sequence in the shRNA expression frame by using the shRNA-miR target sequence.
15. The pluripotent stem cell or the derivative thereof according to claim 4, 8 or 12, wherein an inducible gene expression system is further introduced into the genome of the pluripotent stem cell or the derivative thereof for regulating the expression of the first nucleic acid molecule and/or the immune-compatible molecule and/or the shRNA and/or the miRNA processing complex-associated gene and/or the anti-interferon effector molecule.
16. The pluripotent stem cells or derivatives thereof according to claim 15, wherein the inducible gene expression system comprises at least one of a Tet-Off system, a dimer inducible expression system.
17. The pluripotent stem cell or derivative thereof according to any one of claims 1 to 16, wherein the genome of the pluripotent stem cell or derivative thereof further comprises an exosome-processing synthetic gene comprising at least one of STEAP3, Syndevan-4, an L-aspartate oxidase fragment, CD63-L7Ae and Cx 43S 368A.
18. The pluripotent stem cell or the derivative thereof according to any one of claims 1 to 17, wherein the expression sequence of the NR4a1 repressor, the first nucleic acid molecule, the expression sequence of an immune-compatible molecule, the shRNA and/or miRNA processing complex-associated gene, the anti-interferon effector molecule, the inducible gene expression system, the exosome processing synthetic gene are introduced by viral vector interference, non-viral vector transfection or gene editing, preferably by knock-in.
19. The pluripotent stem cell or the derivative thereof according to any one of claims 1 to 17, wherein the introduction site of the NR4a1 inhibitor expression sequence, the expression sequence of an immune-compatible molecule, the shRNA and/or miRNA processing complex-associated gene, the anti-interferon effector molecule, the inducible gene expression system, the exosome processing synthetic gene is a genome-safe site, preferably one or more of an AAVS 1-safe site, an eGSH-safe site, and an H11-safe site.
20. The pluripotent stem cell or the derivative thereof according to any one of claims 1 to 19, wherein:
the pluripotent stem cells comprise embryonic stem cells, embryonic germ cells, embryonic cancer cells, or induced pluripotent stem cells;
the pluripotent stem cell derivative comprises an adult stem cell, each germ layer cell or a tissue or organ into which the pluripotent stem cell is differentiated;
the adult stem cells include mesenchymal stem cells or neural stem cells.
21. Use of the pluripotent stem cells or derivatives thereof and exosomes secreted therefrom according to claim 20 for the preparation of an anti-tumor therapeutic agent or drug.
22. An exosome secreted from the pluripotent stem cell or derivative thereof of any one of claims 1 to 20.
CN202011520272.6A 2020-12-21 2020-12-21 Pluripotent stem cell expressing targeted NR4A1 inhibitory factor, and derivative and application thereof Pending CN114645020A (en)

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CN111556892A (en) * 2017-12-08 2020-08-18 菲特治疗公司 Immunotherapy using enhanced iPSC-derived effector cells
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CN111556892A (en) * 2017-12-08 2020-08-18 菲特治疗公司 Immunotherapy using enhanced iPSC-derived effector cells
WO2020237040A1 (en) * 2019-05-22 2020-11-26 KSQ Therapeutics, Inc. Nr4a super-repressors and methods of use thereof

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