ITVR20110239A1 - SEQUENCES OF MICRORNA IDENTIFIED IN POPULATIONS AND EMATICAL SUB-POPULATIONS - Google Patents
SEQUENCES OF MICRORNA IDENTIFIED IN POPULATIONS AND EMATICAL SUB-POPULATIONS Download PDFInfo
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
- C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
- C12N15/09—Recombinant DNA-technology
- C12N15/11—DNA or RNA fragments; Modified forms thereof; Non-coding nucleic acids having a biological activity
- C12N15/113—Non-coding nucleic acids modulating the expression of genes, e.g. antisense oligonucleotides; Antisense DNA or RNA; Triplex- forming oligonucleotides; Catalytic nucleic acids, e.g. ribozymes; Nucleic acids used in co-suppression or gene silencing
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- C12N2310/00—Structure or type of the nucleic acid
- C12N2310/10—Type of nucleic acid
- C12N2310/14—Type of nucleic acid interfering N.A.
- C12N2310/141—MicroRNAs, miRNAs
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- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
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- C12N2320/00—Applications; Uses
- C12N2320/10—Applications; Uses in screening processes
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Description
SEQUENZE DI MICRORNA INDIVIDUATE IN POPOLAZIONI E SUB-POPOLAZIONI EMATICHE MICRORNA SEQUENCES IDENTIFIED IN HEMATIC POPULATIONS AND SUB-POPULATIONS
CAMPO TECNICO DELL’INVENZIONE TECHNICAL FIELD OF INVENTION
La presente invenzione si riferisce all’identificazione di nuovi RNA di piccole dimensioni che sono nuovi microRNA presenti in cellule ematiche. The present invention relates to the identification of new small-sized RNAs which are new microRNAs present in blood cells.
STATO DELLA TECNICA ANTERIORE STATE OF THE PRIOR ART
I microRNA (di seguito chiamati semplicemente miRs) sono piccole molecole di RNA a singolo filamento, di circa 21-23 nucleotidi di lunghezza, che regolano l'espressione dei geni principalmente legandosi alle regioni 3'-non tradotte di specifici RNA messaggeri (mRNA), come descritto da Fabian MR, Sonenberg N, Filipowicz W, in “Regulation of mRNA translation and stability by microRNAs†, Annu Rev Biochem, 2010;79:351-379. MicroRNAs (hereafter simply referred to as miRs) are small single-stranded RNA molecules, approximately 21-23 nucleotides in length, which regulate gene expression primarily by binding to the 3'-untranslated regions of specific messenger RNAs (mRNAs) , as described by Fabian MR, Sonenberg N, Filipowicz W, in â € œRegulation of mRNA translation and stability by microRNAsâ €, Annu Rev Biochem, 2010; 79: 351-379.
I miRs non vengono tradotti in proteine, cioà ̈ sono RNA non codificanti. Essi sono processati da trascritti primari noti come pri-miRNA a corte strutture a forcina chiamate pre-miRNA e infine a miRs funzionali. MiRs are not translated into proteins, ie they are non-coding RNAs. They are processed from primary transcripts known as pri-miRNAs to short hairpin structures called pre-miRNAs and finally to functional miRs.
Dal momento che ogni miR à ̈ in grado di modulare l'espressione di più geni, il loro impatto complessivo sulla regolazione dei fenotipi delle cellulari normali à ̈ potenzialmente enorme. Since each miR is capable of modulating the expression of multiple genes, their overall impact on regulating normal cell phenotypes is potentially enormous.
Negli ultimi anni, i miRs hanno dimostrato di intervenire in processi diversi, tra cui lo sviluppo precoce, la proliferazione cellulare, l’apoptosi e la differenziazione cellulare. Inoltre, alterazioni nell'espressione, nella struttura e nella funzione dei miRs sono noti per svolgere un ruolo in diverse patologie tra cui il cancro. In recent years, miRs have been shown to intervene in various processes, including early development, cell proliferation, apoptosis and cell differentiation. Furthermore, alterations in the expression, structure and function of miRs are known to play a role in several diseases including cancer.
Analogamente ad altre unità trascrizionali, à ̈ probabile che un sottoinsieme significativo di tutti i miRs codificati nel genoma mostrino una espressione tessuto-specifica. Pertanto, una conoscenza approfondita del ruolo dei miRs in qualsiasi processo normale o patologico richiede l'identificazione del set completo di miRs, chiamato anche "miRnome", espresso nel tessuto in esame. Like other transcriptional units, a significant subset of all miRs encoded in the genome is likely to exhibit tissue-specific expression. Therefore, a thorough understanding of the role of miRs in any normal or pathological process requires the identification of the complete set of miRs, also called "miRnome", expressed in the tissue under examination.
Nella più recente versione del miRBase Sanger in http://www.mirbase.org, come descritto da GriffithsJones S, Saini HK, van Dongen S, Enright AJ in “miRBase: tools for microRNA genomics†, Nucleic Acids Res, 2008;36:D154-158, sono stati ad oggi identificati e depositati un totale di 1733 miRs umani e 1178 miRs murini. In the most recent version of the miRBase Sanger at http://www.mirbase.org, as described by GriffithsJones S, Saini HK, van Dongen S, Enright AJ in â € œmiRBase: tools for microRNA genomicsâ €, Nucleic Acids Res, 2008; 36: D154-158, a total of 1733 human and 1178 murine miRs have been identified and deposited to date.
Tuttavia, gli attuali metodi di identificazione di miRs non sono abbastanza sensibili per individuare miRs che sono espressi in poche cellule all'interno di un tessuto. Quindi, à ̈ probabile che molti miRs specifici per un dato tipo cellulare non siano stati ancora identificati, sostenendo la necessità di analizzare i profili miRs da popolazioni cellulari purificate. However, current methods of identifying miRs are not sensitive enough to detect miRs that are expressed in a few cells within a tissue. Hence, it is likely that many specific miRs for a given cell type have not yet been identified, supporting the need to analyze miRs profiles from purified cell populations.
SCOPI DELL’INVENZIONE AIMS OF THE INVENTION
Uno scopo della presente invenzione à ̈ di migliorare lo stato dell'arte precedente. An object of the present invention is to improve the prior art.
Un altro scopo della presente invenzione à ̈ di definire piccoli RNA che sono nuovi miRs specifici per date popolazioni di cellule ematiche. Another object of the present invention is to define small RNAs which are new miRs specific for given blood cell populations.
Un altro scopo della presente invenzione à ̈ di definire piccoli RNA che sono prodotti da T-cell leukemia virus di tipo 1 (HTLV-1). Another object of the present invention is to define small RNAs which are produced by T-cell leukemia virus type 1 (HTLV-1).
Inoltre, uno scopo della presente invenzione à ̈ quello di studiare i nuovi miRs identificati al fine di comprendere i loro effetti sulla differenziazione delle cellule normali. Furthermore, an aim of the present invention is to study the newly identified miRs in order to understand their effects on the differentiation of normal cells.
Un altro scopo della presente invenzione à ̈ quello di studiare i nuovi miRs identificati al fine di comprendere il loro ruolo in malattie ematologiche. Un altro scopo dell'invenzione à ̈ quello di definire miRs che servano come marcatori per malattie ematologiche. Another aim of the present invention is to study the newly identified miRs in order to understand their role in haematological diseases. Another object of the invention is to define miRs which serve as markers for haematological diseases.
Un altro scopo della presente invenzione à ̈ di costituire un array per microRNA comprendente piccoli RNA che sono nuovi miRs specifici per definite popolazioni cellulari ematologiche. Another object of the present invention is to constitute a microRNA array comprising small RNAs which are new miRs specific for defined hematological cell populations.
Inoltre, in una versione dell'invenzione, lo scopo à ̈ quello di fornire un metodo di correlazione del livello di espressione di almeno uno dei piccoli RNA che sono nuovi miRs specifici per definite popolazioni di cellule ematologiche in neoplasie ematologiche maligne, in particolare con lo sviluppo di neoplasie ematologiche e/o con l’istologia del tumore ematologico e/o con la differenziazione del tumore ematologico e/o con la sopravvivenza del paziente. Furthermore, in one version of the invention, the aim is to provide a method of correlating the expression level of at least one of the small RNAs that are new specific miRs for defined populations of haematological cells in malignant haematological neoplasms, in particular with the development of haematological neoplasms and / or with the histology of the haematological tumor and / or with the differentiation of the haematological tumor and / or with the survival of the patient.
In un'altra versione dell'invenzione, l'obiettivo à ̈ di fornire nuovi bersagli per farmaci, al fine di prevenire la proliferazione di uno o più tumori ematologici. Tali bersagli comprenderanno almeno una molecola isolata di RNA di 17-25 nucleotidi caratterizzata dal fatto di essere un miR specifico di cellule ematologiche o specifico per HTLV-1 e compresa tra le SEQ ID NO: 1-699. In another version of the invention, the goal is to provide new drug targets, in order to prevent the proliferation of one or more hematological tumors. Such targets will comprise at least one isolated 17-25 nucleotide RNA molecule characterized by being a hematological cell specific or HTLV-1 specific miR and ranging from SEQ ID NO: 1-699.
FORME DI ATTUAZIONE DELL’INVENZIONE FORMS OF IMPLEMENTATION OF THE INVENTION
La presente invenzione si riferisce a nuove piccole molecole di RNA. Questi nuovi piccoli RNA sono nuovi microRNA, in seguito denominati miRs. The present invention relates to new small RNA molecules. These new small RNAs are new microRNAs, hereinafter referred to as miRs.
Questi miRs sono lunghi 17-25 nucleotidi. These miRs are 17-25 nucleotides long.
Questi miRs sono stati isolati dalle popolazioni di cellule ematologiche analizzate, in particolare popolazioni leucocitarie, come meglio indicato di seguito. These miRs were isolated from the analyzed hematological cell populations, in particular leukocyte populations, as better indicated below.
L'identificazione di piccoli RNA specifici per un tipo cellulare à ̈ essenziale per comprendere i loro effetti sulla differenziazione delle cellule normali e rappresenterà le basi per studiare la loro espressione aberrante nelle patologie. The identification of small RNA specific for a cell type is essential to understand their effects on the differentiation of normal cells and will represent the basis for studying their aberrant expression in pathologies.
Nella presente invenzione, il ruolo dei miRs à ̈ stato analizzato in due contesti biologici: In the present invention, the role of miRs has been analyzed in two biological contexts:
1) la normale differenziazione linfoide e la linfomagenesi/leucemogenesi B e T; e 1) normal lymphoid differentiation and B and T lymphomagenesis / leukemogenesis; And
2) la differenziazione mielo-monocitica normale e durante la crescita neoplastica. 2) myelo-monocytic differentiation normal and during neoplastic growth.
L'approccio seguito à ̈ stato finalizzato all’isolamento del set completo di miRs espresso in queste cellule. The approach followed was aimed at isolating the complete set of miRs expressed in these cells.
Sono state generate librerie di piccoli RNA secondo quanto riportato in Lau NC, Lim LP, Weinstein EG, Bartel DP in “An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans†, Science, 2001;294:858-862. Small RNA libraries have been generated as reported in Lau NC, Lim LP, Weinstein EG, Bartel DP in â € œAn abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegansâ €, Science, 2001; 294: 858-862.
Tuttavia, la procedura per la preparazione di una libreria di piccoli RNA Ã ̈ stata modificata per adattarsi a una nuova tecnologia di sequenziamento che permette il sequenziamento diretto dei prodotti di PCR attraverso la tecnologia di nanosequenziamento 454 Life Sciences. However, the procedure for preparing a small RNA library has been modified to accommodate a new sequencing technology that allows direct sequencing of PCR products through 454 Life Sciences nanosequencing technology.
Questa procedura garantisce il sequenziamento di migliaia di sequenze in 2-3 ore ed evita la fase di generazione e analisi di colonie batteriche. Questo approccio ha generato grandi insiemi di dati in breve tempo e con costi notevolmente ridotti. Il 454 Genome Sequencer FLX di seconda generazione à ̈ in grado di produrre 100 Mb delle reads (vale a dire le sequenze) con il 99,5% di precisione e una lunghezza media di oltre 250 basi. This procedure guarantees the sequencing of thousands of sequences in 2-3 hours and avoids the step of generating and analyzing bacterial colonies. This approach generated large datasets in a short time and with significantly reduced costs. The second generation 454 Genome Sequencer FLX is capable of producing 100 Mb of reads (i.e. sequences) with 99.5% accuracy and an average length of over 250 bases.
La generazione di librerie di piccoli RNA per la definizione di miRs tramite la procedura originaria o modificata in modo diverso rispetto a quello precedentemente indicato può essere ottenuta senza uscire dagli scopi di protezione della presente invenzione. The generation of libraries of small RNAs for the definition of miRs by means of the original procedure or modified in a different way than that previously indicated can be obtained without departing from the protective aims of the present invention.
Al fine di definirne i miR specifici, sono state esaminate le seguenti popolazioni di cellule umane leucocitarie: In order to define their specific miRs, the following human leukocyte cell populations were examined:
Tabella 1 Table 1
# Tipo cellulare # Cellular type
1 Linfociti T CD4<+>, selezione positiva 1 CD4 <+> T lymphocytes, positive selection
2 Linfociti T CD4<+>stimolati, selezione positiva, 2 CD4 <+> stimulated T cells, positive selection,
3 Linfociti T CD4+, selezione negativa 3 CD4 + T lymphocytes, negative selection
4 Linfociti T CD4<+>stimolati, selezione negativa, 4 CD4 <+> stimulated T cells, negative selection,
5 Linea cellulare C91PL di linfociti T infettata da HTLV-1 5 HTLV-1 infected C91PL T cell line
6 Linea cellulare MT-2 di linfociti T infettata da HTLV-1 6 HTLV-1 infected MT-2 T cell line
7 Linfociti T periferici CD8<+>7 CD8 <+> peripheral T lymphocytes
8 Timociti immaturi CD4<+>/CD8<+>8 Immature CD4 <+> / CD8 <+> thymocytes
9 Popolazione totale dei timociti (non separati) 9 Total population of thymocytes (not separated)
10 CD14<+>(monociti/macrofagi) 10 CD14 <+> (monocytes / macrophages)
11 CD15<+>(granulociti) 11 CD15 <+> (granulocytes)
12 eosinofili 12 eosinophils
13 CD14<+>/CD16<->(monociti residenti) 13 CD14 <+> / CD16 <-> (resident monocytes)
14 CD14<low>/CD16<+>(monociti infiammatori) 14 CD14 <low> / CD16 <+> (inflammatory monocytes)
Al fine di definirne i miRs specifici, sono state esaminate le seguenti popolazioni di cellule murine leucocitarie: In order to define their specific miRs, the following mouse leukocyte cell populations were examined:
Tabella 2 Table 2
# Tipo cellulare # Cellular type
1 CD11b<+>da milza Balb/c (cellule mieloidi non soppressorie) 1 CD11b <+> from spleen Balb / c (non-suppressive myeloid cells)
2 CD11b<+>da milza di topi portatori di tumore 4T1 (cellule mieloidi soppressorie) 2 CD11b <+> from spleen of 4T1 tumor-bearing mice (myeloid suppressor cells)
3 CD11b<+>dal tumore di topi portatori di tumore 4T1 (cellule mieloidi soppressorie) 3 CD11b <+> from tumor of 4T1 tumor-bearing mice (myeloid suppressor cells)
Gli esperimenti riportati di seguito, a titolo di spiegazione ma non limitati alla presente invenzione, riguardano un metodo utilizzato per l'isolamento e l'identificazione di miRs nelle popolazioni cellulari di leucociti sopra riportate. Tuttavia, possono essere utilizzate anche ulteriori popolazioni di cellule o popolazioni di cellule leucocitarie isolate in modi differenti. Inoltre, in accordo con la presente invenzione, possono essere utilizzate varie tecniche convenzionali di biologia cellulare, biologia molecolare, microbiologia, DNA ricombinante e immunologia, insieme ad altre tecniche comunemente presenti nella pratica di laboratorio. The experiments reported below, by way of explanation but not limited to the present invention, concern a method used for the isolation and identification of miRs in the cell populations of leukocytes reported above. However, additional cell populations or leukocyte cell populations isolated in different ways can also be used. Furthermore, in accordance with the present invention, various conventional techniques of cell biology, molecular biology, microbiology, recombinant DNA and immunology can be used, together with other techniques commonly present in laboratory practice.
Isolamento di RNA da popolazioni leucocitarie purificate e linee cellulari Isolation of RNA from purified leukocyte populations and cell lines
I linfociti T CD4<+>periferici sono stati isolati per selezione negativa o positiva da campioni di cellule mononucleate del sangue periferico, qui denominati PBMC, da donatori sani, ottenute dalla separazione della frazione di buffy coat con Ficoll-Hypaque. Peripheral CD4 <+> T lymphocytes were isolated by negative or positive selection from peripheral blood mononuclear cell samples, here referred to as PBMC, from healthy donors, obtained by separation of the buffy coat fraction with Ficoll-Hypaque.
Per la selezione negativa, una parte del campione di PBMC à ̈ stato immediatamente processato utilizzando il MACS CD4<+>T cell Isolation Kit II (Miltenyi Biotec), lisato e l’RNA à ̈ stato estratto. I PBMC rimanenti sono stati coltivati in un terreno RPMI completo (1x10<6>cellule/ml) integrato con 100 microgrammi/ml di fitoemoagglutinina, chiamata anche PHA, per 48 ore seguite da 48 ore in presenza di 50 U/ml di interleuchina-2 (IL -2) e poi processati con il MACS CD4<+>T cell Isolation Kit II. In questo modo, sono state ottenute le popolazioni cellulari indicate rispettivamente con 3 e 4 nella tabella 1. Per la selezione positiva, l'intero campione PBMC à ̈ stato immediatamente trattato con MACS CD4 Microbeads (Miltenyi). Una metà del campione di cellule CD4<+>risultante à ̈ stato immediatamente lisato e l’RNA à ̈ stato estratto. L'altra metà à ̈ stata posta in cultura, stimolata con PHA seguita da IL-2, e poi raccolta per l'estrazione di RNA. In questo modo, sono state ottenute le popolazioni cellulari indicate rispettivamente con 1 e 2 nella tabella 1. For the negative selection, a part of the PBMC sample was immediately processed using the MACS CD4 <+> T cell Isolation Kit II (Miltenyi Biotec), lysate and the RNA was extracted. The remaining PBMCs were cultured in a complete RPMI medium (1x10 <6> cells / ml) supplemented with 100 micrograms / ml of phytohemagglutinin, also called PHA, for 48 hours followed by 48 hours in the presence of 50 U / ml of interleukin- 2 (IL -2) and then processed with the MACS CD4 <+> T cell Isolation Kit II. In this way, the cell populations indicated respectively with 3 and 4 in table 1 were obtained. For the positive selection, the entire PBMC sample was immediately treated with MACS CD4 Microbeads (Miltenyi). One half of the resulting CD4 <+> cell sample was immediately lysed and the RNA was extracted. The other half was cultured, stimulated with PHA followed by IL-2, and then collected for RNA extraction. In this way, the cell populations indicated respectively with 1 and 2 in Table 1 were obtained.
Le linee cellulari C91PL e MT-2, che sono linee di cellule T cronicamente infettate da HTLV-1, sono state mantenute in terreno RPMI addizionato con il 10% di siero fetale bovino, glutammina, penicillina e streptomicina. Cell lines C91PL and MT-2, which are HTLV-1 chronically infected T cell lines, were maintained in RPMI medium supplemented with 10% fetal bovine serum, glutamine, penicillin and streptomycin.
In questo modo, sono state ottenute le popolazioni cellulari indicate rispettivamente con 5 e 6 della tabella 1. In this way, the cell populations indicated respectively with 5 and 6 of table 1 were obtained.
Dopo il consenso informato, sono stati ottenuti campioni di timo come scarti di tessuto chirurgico da 35 pazienti pediatrici sottoposti a chirurgia cardiaca. I sottoinsiemi di timociti CD4<+>/CD8<+>sono stati purificati, con una percentuale di purificazione superiore al 95%, attraverso separazione cellulare (cell sorting) citofluorimetrico dopo la tripla marcatura con anticorpi anti-CD2, anti-CD4 e anti-CD8. Il cell sorting à ̈ stato effettuato con un FACSVantage Cell Sorter. After informed consent, thymus samples were obtained as surgical tissue scraps from 35 pediatric patients undergoing cardiac surgery. The CD4 <+> / CD8 <+> thymocyte subsets were purified, with a purification percentage greater than 95%, by flow cytometric cell sorting after triple labeling with anti-CD2, anti-CD4 and anti -CD8. Cell sorting was done with a FACSVantage Cell Sorter.
In questo modo, Ã ̈ stata ottenuta la popolazione di cellule indicata con 8 nella tabella 1. In this way, the cell population indicated with 8 in table 1 was obtained.
La popolazione di timociti totali non separati corrisponde al campione 9 della tabella 1. The total unseparated thymocyte population corresponds to sample 9 of table 1.
I linfociti T CD8<+>periferici sono stati isolati da PBMC mediante separazione immunomagnetica (Miltenyi Biotec) per una purezza superiore al 85%. Peripheral CD8 <+> T cells were isolated from PBMC by immunomagnetic separation (Miltenyi Biotec) to a purity greater than 85%.
Le cellule T CD8<+>periferiche risultanti corrispondono al campione 7 nella tabella 1. The resulting peripheral CD8 <+> T cells correspond to sample 7 in Table 1.
I granulociti sono stati isolati in condizioni prive di endotossine da un buffy coat di donatore sano per centrifugazione su Ficoll-Paque Plus. Nessun monocita à ̈ stato identificato nelle preparazioni dei neutrofili, come rivelato dalla colorazione May-GrÃ1⁄4nwald-Giemsa. I neutrofili sono stati ulteriormente purificati con selezione negativa magnetica utilizzando una miscela personalizzata contenente anticorpi CD3, CD19, CD36, CD49d, CD56 e glicoforina A (StemCell Technologies). Brevemente, le cellule (10<8>/ml) sono state risospese in un tampone contenente una soluzione tampone salina a base di fosfato (PBS) con il 2% di siero fetale bovino (FCS) e 1 mM di acido etilendiamminotetraacetico (EDTA) integrato con il EasySep Enrichment Custom Cocktail per 15 min. Nanoparticelle magnetiche (EasySep Magnetic Nanoparticles) sono state aggiunte e incubate a temperatura ambiente per 10 min. Le cellule sono state separate in un campo magnetico (2 x 5 min) e risospese in terreno RPMI integrato con il 10% di FCS con basso livello di endotossine. Mediante citometria di flusso, si à ̈ valutato che la preparazione di neutrofili così ottenuta ha una purezza superiore al 98%. Granulocytes were isolated under endotoxin-free conditions from a healthy donor buffy coat by centrifugation on Ficoll-Paque Plus. No monocytes were identified in the neutrophil preparations, as revealed by the May-GrÃ1⁄4nwald-Giemsa stain. Neutrophils were further purified with magnetic negative selection using a custom blend containing antibodies CD3, CD19, CD36, CD49d, CD56 and glycophorin A (StemCell Technologies). Briefly, the cells (10 <8> / mL) were resuspended in a buffer containing a phosphate-based saline buffer (PBS) with 2% fetal bovine serum (FCS) and 1 mM ethylenediaminetetraacetic acid (EDTA) integrated with the EasySep Enrichment Custom Cocktail for 15 min. EasySep Magnetic Nanoparticles were added and incubated at room temperature for 10 min. Cells were separated in a magnetic field (2 x 5 min) and resuspended in RPMI medium supplemented with 10% FCS with low endotoxin level. By flow cytometry, it was estimated that the neutrophil preparation thus obtained has a purity higher than 98%.
La popolazione dei granulociti CD15<+>corrisponde al campione 11 della tabella 1. The CD15 <+> granulocyte population corresponds to sample 11 of table 1.
I monociti/macrofagi sono stati isolati da buffy coat di donatori sani tramite centrifugazione Ficoll-Hypaque in gradiente di densità , e purificati e arricchiti attraverso separazione immunomagnetica positiva con biglie CD14<+>(Miltenyi, Biotech), come indicato dal produttore. Monocytes / macrophages were isolated from buffy coats of healthy donors by density gradient Ficoll-Hypaque centrifugation, and purified and enriched by positive immunomagnetic separation with CD14 <+> beads (Miltenyi, Biotech), as indicated by the manufacturer.
L’analisi di citometria a flusso ha dimostrato che oltre il 97% delle cellule ottenute sono positive per CD14. Flow cytometry analysis has shown that over 97% of the cells obtained are positive for CD14.
La popolazione di monocito/macrofagi CD14<+>corrisponde al campione 10 nella tabella 1. The CD14 <+> monocyte / macrophage population corresponds to sample 10 in Table 1.
Sono state inoltre analizzate due sotto-popolazioni e CD14<+>di monociti, cioà ̈ le cellul /CD16<->e CD14<+>/CD16<+>. Queste due popolazioni di monociti circolanti sono considerate i precursori dei macrofagi umani infiammatori (campione 14 nella tabella 1) e residenti (campione 13 nella tabella 1). Two sub-populations and CD14 <+> of monocytes were also analyzed, namely cells / CD16 <-> and CD14 <+> / CD16 <+>. These two circulating monocyte populations are considered the precursors of inflammatory human macrophages (sample 14 in table 1) and resident (sample 13 in table 1).
Gli eosinofili sono stati isolati in condizioni di assenza di endotossine da buffy coats di donatori sani mediante centrifugazione su Ficoll-Paque Plus. Gli eosinofili sono stati purificati ed arricchiti usando il kit EasySep Negative Human Eosinophil (Stemcell technology), come indicato dal produttore. La risultante popolazione di eosinofili purificati corrisponde al campione 12 nella tabella 1. Eosinophils were isolated under endotoxin-free conditions from buffy coats of healthy donors by centrifugation on Ficoll-Paque Plus. Eosinophils were purified and enriched using the EasySep Negative Human Eosinophil (Stemcell technology) kit, as indicated by the manufacturer. The resulting purified eosinophil population corresponds to sample 12 in Table 1.
Per i campioni CD11b<+>, sono stati sacrificati topi portatori di tumore o senza tumore, ed i loro tumori e milze sono stati raccolti in condizioni sterili. Sono state preparate sospensioni monocellulari, e le cellule sono state isolate con microsfere magnetiche coniugate con anticorpi monoclonali di ratto antimurino/umano (anti-mouse/human) CD11b<+>(Miltenyi Biotec). Le cellule sono state lavate con tampone per rimuovere l'anticorpo non legato e sono state isolate su colonne VarioMACS (Miltenyi Biotec) secondo le istruzioni del produttore. La purezza delle popolazioni di cellule à ̈ stata valutata mediante citometria di flusso e supera il 90%. For CD11b <+> samples, tumor-bearing or tumor-free mice were sacrificed, and their tumors and spleens collected under sterile conditions. Single-cell suspensions were prepared, and the cells were isolated with magnetic beads conjugated with mouse monoclonal anti-mouse / human (anti-mouse / human) CD11b <+> (Miltenyi Biotec) antibodies. Cells were washed with buffer to remove unbound antibody and isolated on VarioMACS (Miltenyi Biotec) columns according to the manufacturer's instructions. The purity of the cell populations was assessed by flow cytometry and exceeds 90%.
Le popolazioni di cellule risultanti sono indicate come campioni 1, 2 e 3 nella tabella 2. The resulting cell populations are shown as samples 1, 2 and 3 in Table 2.
Generazione di librerie di piccoli RNA Generation of small RNA libraries
L'RNA totale à ̈ stato isolato utilizzando TRIzol (Invitrogen). La qualità dell'RNA à ̈ stata valutata mediante elettroforesi utilizzando l'RNA 6000 Nano Assay LabChip Kit e l’Agilent 2100 Bioanalyzer, e la concentrazione dell'RNA à ̈ stata misurata utilizzando uno spettrofotometro NanoDrop. Una aliquota di 10 microgrammi di ogni preparazione di RNA totale à ̈ stata marcata con un RNA tracer di 23 nucleotidi marcato con<32>P (tracciante oligo RNA chiamato "# 909") e poi sottoposto a elettroforesi su gel di poliacrilamide (PAGE) denaturante al 15%, con un’aliquota di pesi molecolari per RNA precedentemente marcati con<32>P (<32>P-labelled Decade RNA ladder). La presenza del tracciante RNA ha permesso la visualizzazione di ogni modifica e la purificazione dopo l'esposizione del gel ad uno schermo phosphorimaging (Storm, GE Healthcare). Le specie che migrano nel range di dimensioni 17-25 nucleotidi sono state escisse dal gel, eluite e precipitate in etanolo. L'RNA à ̈ stato poi modificato mediante aggiunta di un linker di 17 nucleotidi (nt) chiamato "IDT Cloning Linker 1" (IDT) in corrispondenza dell’estremità 3' con l'RNA ligasi (GE Healthcare), e purificato in PAGE attraverso un gel denaturante al 12%. Successivamente, à ̈ stato modificato con un secondo linker oligonucleotidico di 17 nt chiamato "17.93R" in corrispondenza dell’estremità 5', e purificato nuovamente in PAGE attraverso un gel denaturante al 10%. Total RNA was isolated using TRIzol (Invitrogen). RNA quality was assessed by electrophoresis using the RNA 6000 Nano Assay LabChip Kit and the Agilent 2100 Bioanalyzer, and the RNA concentration was measured using a NanoDrop spectrophotometer. A 10 microgram aliquot of each total RNA preparation was labeled with a 23 nucleotide RNA tracer labeled with <32> P (tracer oligo RNA called "# 909") and then subjected to polyacrylamide gel electrophoresis (PAGE) 15% denaturing, with an aliquot of molecular weights for RNA previously labeled with <32> P (<32> P-labeled Decade RNA ladder). The presence of the RNA tracer allowed the visualization of each modification and purification after exposure of the gel to a phosphorimaging screen (Storm, GE Healthcare). Species migrating in the 17-25 nucleotide size range were excised from the gel, eluted and precipitated in ethanol. The RNA was then modified by adding a 17 nucleotide (nt) linker called "IDT Cloning Linker 1" (IDT) at the 3 'end with the RNA ligase (GE Healthcare), and purified in PAGE through a 12% denaturing gel. Subsequently, it was modified with a second 17 nt oligonucleotide linker called "17.93R" at the 5 'end, and purified again in PAGE through a 10% denaturing gel.
L’RNA modificato risultante à ̈ stato retrotrascritto e amplificato in PCR in una preparazione per il sequenziamento 454 secondo un protocollo fornito dal Dr. G. Hannon (Cold Spring Harbor Laboratory) con piccole modifiche come segue. The resulting modified RNA was back-transcribed and PCR amplified in a preparation for 454 sequencing according to a protocol provided by Dr. G. Hannon (Cold Spring Harbor Laboratory) with minor modifications as follows.
L’RNA à ̈ stato retrotrascritto utilizzando la reverse trascrittasi Superscript II (Invitrogen) e un primer anti-senso complementare al linker 3' chiamato "# 914 RT". The RNA was back-transcribed using the Superscript II reverse transcriptase (Invitrogen) and an anti-sense primer complementary to the 3 'linker called "# 914 RT".
Il cDNA risultante à ̈ stato amplificato in PCR con la DNA polimerasi Platinum Taq (Invitrogen) con un primer specifico per il linker 5’ denominato "# 913" e il primer "# 914 RT", specifico per il linker 3'. I prodotti di PCR sono stati purificati attraverso un gel di poliacrilammide non denaturante al 12% e digerito con PacI (New England Biolabs) per eliminare il cDNA complementare all’RNA tracer utilizzato, che contiene un sito PacI. The resulting cDNA was amplified in PCR with DNA polymerase Platinum Taq (Invitrogen) with a specific primer for linker 5â € ™ named "# 913" and primer "# 914 RT", specific for linker 3 '. The PCR products were purified through a 12% non-denaturing polyacrylamide gel and digested with PacI (New England Biolabs) to eliminate the cDNA complementary to the RNA tracer used, which contains a PacI site.
La miscela di digestione à ̈ stata sottoposta a PAGE attraverso un gel non denaturante al 12% per eliminare le molecole di tracciante digerito. The digestion mix was PAGE through a 12% non-denaturing gel to eliminate digested tracer molecules.
Il DNA ottenuto à ̈ stato sottoposto a un secondo round di PCR usando primer senso e antisenso A e B specifici per i linker 5' e 3', rispettivamente. Il primer A contiene una sequenza aggiuntiva di identificazione o “tag†, che à ̈ indicata come sottolineato nella lista di primer sottostante. L'uso di un primer A specifico per ogni popolazione cellulare ha permesso il sequenziamento di vari campioni contemporaneamente, accelerando la fase di sequenziamento: il tag ha permesso infatti di selezionare i reads relativi ad una data libreria sequenziata. The DNA obtained was subjected to a second round of PCR using sense and antisense primers A and B specific for the 5 'and 3' linkers, respectively. Primer A contains an additional identification sequence or â € œtagâ €, which is indicated as underlined in the primer list below. The use of a specific primer A for each cell population allowed the sequencing of various samples at the same time, accelerating the sequencing phase: the tag made it possible to select the reads relating to a given sequenced library.
Il prodotto di PCR Ã ̈ stato purificato tramite PAGE, digerito ancora con PacI, e nuovamente purificato in gel come sopra descritto. The PCR product was purified by PAGE, digested again with PacI, and again purified in gel as described above.
I campioni ottenuti sono stati sottoposti a sequenziamento di massa 454. The obtained samples were subjected to mass sequencing 454.
Oligonucleotidi utilizzati per modificare i piccoli RNA e tracciare la loro migrazione in PAGE denaturante: Oligonucleotides used to modify small RNAs and trace their migration into denaturing PAGE:
ï‚· oligo donatore estremità 3' denominato “IDT Cloning Linker 1†(SEQ ID NO: 700): ï ‚donor oligo end 3 'called â € œIDT Cloning Linker 1â € (SEQ ID NO: 700):
5'Appctgtaggcaccatcaat3ddc 5'Appctgtaggcaccatcaat3ddc
Nota: bloccato all’estremità 3' con ddC; adenililattivato all’estremità 5'. Note: blocked at the 3 'end with ddC; adenylactivated at the 5 'end.
ï‚· oligo accettore estremità 5 denominato “17.93R†(SEQ ID NO: 701): ï ‚· acceptor oligo end 5 called â € œ17.93Râ € (SEQ ID NO: 701):
5’ atcgtaggcaccugaaa 3’ 5â € ™ atcgtaggcaccugaaa 3â € ™
Nota: ibrido DNA-RNA; RNA scritto in corsivo Note: DNA-RNA hybrid; RNA written in italics
ï‚· oligo Tracer RNA denominato “#909†(SEQ ID NO: 702): ï ‚oligo Tracer RNA named â € œ # 909â € (SEQ ID NO: 702):
5’ ugucaguuuguuaauuaacccaa 3’ 5 'ugucaguuuguuaauuaacccaa 3'
Nota: modificato con un gruppo fosfato in 5’ Note: modified with a 5 'phosphate group
Primer utilizzati in RT-PCR per generare le librerie: Primers used in RT-PCR to generate libraries:
ï‚· Reverse transcription: denominato “#914 RT†(SEQ ID NO: 703): ï ‚Reverse transcription: named â € œ # 914 RTâ € (SEQ ID NO: 703):
5’ attgatggtgcctacag 3’ 5â € ™ attgatggtgcctacag 3â € ™
ï‚· Primo turno di PCR: ï ‚First round of PCR:
- Primer senso denominato “#913†(SEQ ID NO: 704): - Sense primer named â € œ # 913â € (SEQ ID NO: 704):
5’ atcgtaggcacctgaaa 3’ 5â € ™ atcgtaggcacctgaaa 3â € ™
- Primer Antisenso denominato “#914 RT†- Antisense primer called â € œ # 914 RTâ €
ï‚· Secondo turno di PCR: ï ‚· Second round of PCR:
- Primer senso denominato “A0†(SEQ ID NO: 705): - Sense primer called â € œA0â € (SEQ ID NO: 705):
5’ gcctccctcgcgccatcagatcgtaggcacctgaaa 3’ 5â € ™ gcctccctcgcgccatcagatcgtaggcacctgaaa 3â € ™
- Primer senso denominato “A1†(SEQ ID NO: 706): - Sense primer called â € œA1â € (SEQ ID NO: 706):
5’ gcctccctcgcgccatcagtagcatcgtaggcacctgaaa 3’ 5â € ™ gcctccctcgcgccatcagtagcatcgtaggcacctgaaa 3â € ™
- Primer senso denominato “A2†(SEQ ID NO: 707): - Sense primer called â € œA2â € (SEQ ID NO: 707):
5’ gcctccctcgcgccatcagcgtaatcgtaggcacctgaaa 3’ 5â € ™ gcctccctcgcgccatcagcgtaatcgtaggcacctgaaa 3â € ™
- Primer senso denominato “A3†(SEQ ID NO: 708): - Sense primer called â € œA3â € (SEQ ID NO: 708):
5’ gcctccctcgcgccatcagatcgatcgtaggcacctgaaa 3’ 5â € ™ gcctccctcgcgccatcagatcgatcgtaggcacctgaaa 3â € ™
- Primer senso denominato “A4†(SEQ ID NO: 709): - Sense primer called â € œA4â € (SEQ ID NO: 709):
5’ gcctccctcgcgccatcagtcagatcgtaggcacctgaaa 3’ 5â € ™ gcctccctcgcgccatcagtcagatcgtaggcacctgaaa 3â € ™
- Primer Antisenso denominato “B†(SEQ ID NO: 710): - Antisense primer called â € œBâ € (SEQ ID NO: 710):
5’ gccttgccagcccgctcagattgatggtgcctacag 3’ 5â € ™ gccttgccagcccgctcagattgatggtgcctacag 3â € ™
Individuazione di sequenze di piccoli RNA attraverso analisi bioinformatica Identification of small RNA sequences through bioinformatics analysis
Le sequenze dei reads sono state sottoposte ad analisi computazionali per identificare i microRNA noti e quelli nuovi. The sequences of the reads were subjected to computational analysis to identify known and new microRNAs.
Innanzitutto, le porzioni 5' e 3' di sequenze corrispondenti ai linker e ai primer di PCR utilizzati per generare le librerie sono state rimosse dalle sequenze grezze e sono state mantenute le risultanti sequenze, senza il tag (de-taggate), di 17-25 nt. First, the 5 'and 3' portions of sequences corresponding to the linkers and PCR primers used to generate the libraries were removed from the raw sequences and the resulting sequences, untagged (de-tagged), of 17- 25 nt.
Queste sequenze sono state mappate nei genomi umano e murino, permettendo al massimo un mancato appaiamento (mismatch) o un salto (gap). These sequences were mapped into the human and mouse genomes, allowing at most a mismatch or a gap.
Le sequenze con più di 50 loci diversi sul genoma e le sequenze a bassa complessità , derivate probabilmente da elementi ripetitivi, sono state scartate. Sequences with more than 50 different loci on the genome and low-complexity sequences, probably derived from repetitive elements, were discarded.
La regione genomica di 90 nt al 5' e al 3' di ogni sequenza à ̈ stata aggiunta per costruire un "premicroRNA", il quale à ̈ stato testato per valutare la probabilità di formare una struttura a forcina. The genomic region of 90 nt at the 5 'and 3' of each sequence was added to construct a "premicroRNA", which was tested to assess the likelihood of forming a hairpin structure.
Le sequenze che hanno superato il test per la struttura secondaria sono state poi filtrate per escludere quelle mappanti in posizioni gnomiche di RNA non codificanti noti, in modo da escludere sno-RNA, snRNA, rRNA e tRNA. The sequences that passed the secondary structure test were then filtered to exclude those mapping to known non-coding RNA gnomic positions, thus excluding sno-RNA, snRNA, rRNA and tRNA.
Le sequenze che hanno superato questo test, le cosiddette "sequenze pulite", sono state comparate con i miRs umani noti utilizzando il database UCSC di hairpin di microRNA e il Sanger miRBASE. The sequences that passed this test, the so-called "clean sequences", were compared with known human miRs using the UCSC microRNA hairpin database and the Sanger miRBASE.
In questi passaggi, sono stati consentiti 2 salti (gap) e 2 mancati appaiamenti (mismatch) al fine di tener conto di possibili eventi di modifiche dell’RNA. Questa fase ha permesso di suddividere le sequenze in miRs noti e nuovi candidati miRs. In these steps, 2 jumps (gaps) and 2 mismatches were allowed in order to take into account possible events of RNA modifications. This step allowed to divide the sequences into known miRs and new miRs candidates.
Le sequenze della seconda categoria sono state confrontate con i microRNA noti di altre specie presenti nel Sanger miRBASE, in cui sono stati consentiti 2 salti (gap) e 2 mancati appaiamenti (mismatch) allo scopo di distinguere tra "omologhi" e "nuovi candidati miRs ". The sequences of the second category were compared with the known microRNAs of other species present in the Sanger miRBASE, in which 2 gaps and 2 mismatches were allowed in order to distinguish between "homologues" and "new miRs candidates. ".
Le sequenze del secondo gruppo sono state classificate sia in base alla loro conservazione in 17 specie considerate dal software PHAST e comprendenti Homo sapiens, vari altri mammiferi, pollo, pesci vertebrati, Xenopus, sia secondo la loro posizione genomica, per determinare una posizione esterna rispetto ai geni esistenti, vale a dire intergenica, o entro geni esistenti, vale a dire intragenica. The sequences of the second group have been classified both according to their conservation in 17 species considered by the PHAST software and including Homo sapiens, various other mammals, chicken, vertebrate fish, Xenopus, and according to their genomic position, to determine an external position with respect to to existing genes, i.e. intergenic, or within existing genes, i.e. intragenic.
Le sequenze intrageniche sono state ulteriormente classificate in base alla loro posizione all'interno di esoni o introni dei geni codificanti o non codificanti. The intragenic sequences were further classified based on their position within exons or introns of the coding or non-coding genes.
Le sequenze identificate in popolazioni leucocitarie umane corrispondono alle sequenze da SEQ ID NO. 1 fino a SEQ ID NO. 368. Le sequenze identificate in popolazioni di cellule murine leucocitarie corrispondono alle sequenze da SEQ ID NO. 369 fino a SEQ ID NO. 697. The sequences identified in human leukocyte populations correspond to the sequences from SEQ ID NO. 1 up to SEQ ID NO. 368. The sequences identified in mouse leukocyte cell populations correspond to the sequences from SEQ ID NO. 369 up to SEQ ID NO. 697.
Per identificare i miRs virali, il set di sequenze "de-taggate" Ã ̈ stato confrontato con l'intero genoma di HTLV-1 (Genbank accession no. J02029 M33896). Le sequenze con una sovrapposizione pari o superiore al 90% con HTLV-1 e con al massimo 2 salti (gap) e al massimo 2 mancati appaiamenti (mismatch) sono stati ulteriormente analizzati. Le sequenze HTLV-1 risultanti corrispondono alle sequenze SEQ ID NO. To identify the viral miRs, the "de-tagged" sequence set was compared with the whole genome of HTLV-1 (Genbank accession no. J02029 M33896). Sequences with 90% or greater overlap with HTLV-1 and with a maximum of 2 gaps and a maximum of 2 mismatches were further analyzed. The resulting HTLV-1 sequences correspond to the SEQ ID NO sequences.
698 e SEQ ID NO. 699. 698 and SEQ ID NO. 699.
Verifica dell’espressione delle sequenze di piccoli RNA corrispondenti a nuovi candidati miR Verification of the expression of the small RNA sequences corresponding to new miR candidates
Un piccolo numero delle nuove sequenze à ̈ stato analizzato per Northern blotting o RT-PCR effettuata su RNA isolati da PBMC come descritto da Fulci V, Chiaretti S, Goldoni M, et al. in “Quantitative technologies establish a novel microRNA profile of chronic lymphocytic leukemia†, Blood. 2007;109:4944-4951, da Sharbati-Tehrani S, Kutz-Lohroff B, Bergbauer R, Scholven J, Einspanier R in “miR-Q: a novel quantitative RT-PCR approach for the expression profiling of small RNA molecules such as miRNAs in a complex sample†in BMC Mol Biol. A small number of the new sequences were analyzed by Northern blotting or RT-PCR performed on RNA isolated from PBMC as described by Fulci V, Chiaretti S, Goldoni M, et al. in â € œQuantitative technologies establish a novel microRNA profile of chronic lymphocytic leukemiaâ €, Blood. 2007; 109: 4944-4951, from Sharbati-Tehrani S, Kutz-Lohroff B, Bergbauer R, Scholven J, Einspanier R in â € œmiR-Q: a novel quantitative RT-PCR approach for the expression profiling of small RNA molecules such as miRNAs in a complex sampleâ € in BMC Mol Biol.
2008;9:34 e da Basso K, Sumazin P, Morozov P, et al “Identification of the human mature B cell miRNome†in Immunity. 2009;30:744-752. L’espressione di 10 sequenze à ̈ stata verificata in PBMC tramite questo approccio. 2008; 9: 34 and da Basso K, Sumazin P, Morozov P, et al â € œIdentification of the human mature B cell miRNomeâ € in Immunity. 2009; 30: 744-752. The expression of 10 sequences was verified in PBMC using this approach.
Tuttavia, per completare una convalida più massiva, e anche per definire un ruolo biologico per le nuove sequenze, sonde complementari alle stesse sono state spottate su array. However, to complete a more massive validation, and also to define a biological role for the new sequences, complementary probes have been spotted on arrays.
Questi array sono stati utilizzati per rilevare piccoli RNA presenti nelle cellule T CD4<+>e nelle linee cellulari C91PL e MT-2 infettate da HTLV-1, le stesse fonti di campioni biologici utilizzati per la generazione delle librerie di piccoli RNA 1-6. L’RNA à ̈ stato marcato con un fluorocromo utilizzando il miRCURY LNA microRNA Power Labeling Kit (Exiqon) e ibridato su array personalizzati secondo le istruzioni del produttore. Le immagini sono state acquisite con lo scanner Agilent e sottoposte ad analisi bio-informatica. Il confronto dei dati degli array personalizzati con le sequenze dalle librerie facilita l'identificazione di nuovi piccoli RNA che sono effettivamente espressi negli specifici tipi cellulari. These arrays were used to detect small RNAs present in CD4 <+> T cells and HTLV-1 infected C91PL and MT-2 cell lines, the same sources of biological samples used for the generation of small RNA libraries 1-6 . The RNA was labeled with a fluorochrome using the miRCURY LNA microRNA Power Labeling Kit (Exiqon) and hybridized to custom arrays according to the manufacturer's instructions. The images were acquired with the Agilent scanner and subjected to bio-computer analysis. Comparing data from custom arrays with sequences from libraries facilitates the identification of new small RNAs that are actually expressed in specific cell types.
Analisi simili saranno realizzate per gli altri campioni biologici. Similar analyzes will be performed for the other biological samples.
Il presente studio ha aggiunto nuovi membri alla classe dei piccoli RNA non codificanti, in particolare dei nuovi miRs. The present study added new members to the class of small non-coding RNAs, in particular new miRs.
La presente invenzione si riferisce anche all’array di miR contenente le sonde complementari alle molecole di miRs specifiche per cellule ematologiche: sequenze SEQ ID NO. 1-697. Questi array di miR sono adatti per una serie di studi, compresi quelli diagnostici e/o patologici. The present invention also refers to the miR array containing the probes complementary to the miRs molecules specific for haematological cells: SEQ ID NO sequences. 1-697. These miR arrays are suitable for a variety of studies, including diagnostic and / or pathological ones.
In particolare, l'array di miR può essere utilizzato per correlare il livello di espressione di almeno uno dei miRs compresi nello stesso con lo sviluppo dei tumori ematologici, in termini di istologia del tumore, differenziazione e/o sopravvivenza del paziente, ecc. In particular, the miR array can be used to correlate the expression level of at least one of the miRs included in it with the development of haematological tumors, in terms of tumor histology, patient differentiation and / or survival, etc.
In una versione dell'invenzione, l’array di miR viene utilizzato per studi sull'attività regolatoria di almeno uno dei miRs compresi nello stesso al fine di analizzare l'impatto della sua sovra-espressione o inibizione dell’espressione in condizioni di patologie di cellule leucocitarie. In one version of the invention, the miR array is used for studies on the regulatory activity of at least one of the miRs included in it in order to analyze the impact of its overexpression or inhibition of expression under conditions of pathologies of leukocyte cells.
In un'altra versione dell'invenzione, l’array di miR può essere utilizzato per confrontare l’espressione di almeno uno dei miRs con i profili di proteomica e/o fosfoproteomica di cellule ematologiche in condizioni di patologie ematologiche contro dati di controllo. In another version of the invention, the miR array can be used to compare the expression of at least one of the miRs with the proteomics and / or phosphoproteomics profiles of haematological cells under haematological conditions against control data .
I nuovi array sono adatti per l'analisi di un intero spettro di neoplasie ematologiche tra cui il linfoma di Hodgkin, leucemie e linfomi non-Hodgkin delle cellule B e T e, leucemie mieloidi e sindromi da displasia mieloide, così come di altre patologie. Almeno uno dei miRs indicati nella presente invenzione presenta ulteriori applicazioni in oncologia, in quanto alcune delle nuove sequenze possono mostrare distinti profili di espressione nelle cellule neoplastiche di tipo ematologico rispetto alla cellula normale. Tali sequenze potranno quindi servire come marcatori utilizzabili per classificare e/o raggruppare pazienti con tumori ematologici. The new arrays are suitable for the analysis of a full spectrum of haematological malignancies including Hodgkin's lymphoma, B- and T-cell leukemias and non-Hodgkin's lymphomas, myeloid leukemias and myeloid dysplasia syndromes, as well as other diseases . At least one of the miRs indicated in the present invention has further applications in oncology, since some of the new sequences can show distinct expression profiles in neoplastic cells of the haematological type compared to the normal cell. These sequences could then serve as markers that can be used to classify and / or group patients with hematological tumors.
In un'ulteriore versione dell’invenzione, le molecole isolate di piccoli RNA secondo la presente invenzione possono essere utilizzate come marcatori al fine di stabilire una correlazione tra risultati clinici, come la sopravvivenza del paziente e/o la risposta alla terapia, e il livello di espressione di almeno uno dei miRs dell'invenzione. In a further version of the invention, the isolated small RNA molecules according to the present invention can be used as markers in order to establish a correlation between clinical results, such as patient survival and / or response to therapy, and expression level of at least one of the miRs of the invention.
In un'altra versione dell'invenzione, almeno uno dei miRs della presente invenzione può regolare l'espressione di specifici geni in tumori ematologici. In another version of the invention, at least one of the miRs of the present invention can regulate the expression of specific genes in haematological tumors.
In un'altra versione dell'invenzione, le sequenze di piccoli RNA prodotte da HTLV-1, che corrispondono a SEQ ID NO. 698 e NO ID SEQ. 699, rappresentano i marcatori dell’infezione virale e possono influenzare l'espressione di mRNA virali e cellulari. In another version of the invention, the small RNA sequences produced by HTLV-1, which correspond to SEQ ID NO. 698 and NO ID SEQ. 699, represent markers of viral infection and can influence the expression of viral and cellular mRNAs.
In un'ulteriore versione, l'invenzione si riferisce a una composizione farmaceutica per prevenire la proliferazione di uno o più tumori ematologici, comprendente almeno una molecola isolata di piccoli RNA corrispondenti ad un miR di NO SEQ ID. 1-697. In a further version, the invention relates to a pharmaceutical composition for preventing the proliferation of one or more hematological tumors, comprising at least one isolated molecule of small RNA corresponding to a miR of NO SEQ ID. 1-697.
L'invenzione riguarda anche l'uso di questa composizione farmaceutica per la produzione di un medicamento per la prevenzione o il trattamento di un tumore ematologico. The invention also relates to the use of this pharmaceutical composition for the manufacture of a medicament for the prevention or treatment of a hematological tumor.
La presente invenzione così concepita può essere modificata ed avere ulteriori forme di realizzazione che rientrano nell’ambito protettivo della presente invenzione. The present invention thus conceived can be modified and have further embodiments that fall within the protective scope of the present invention.
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