Integrated analysis of miRNA and mRNA during differentiation of human CD34+ cells delineates the regulatory roles of microRNA in hematopoiesis

Experimental Hematology

Volumn 42, Issue 1, 2014, Pages 14-27.e2

  Raghavachari, Nalini ^a,b   Liu, Poching ^c   Barb, Jennifer J ^a   Yang, Yanqin ^a   Wang, Richard ^a   Nguyen, Quang Tri ^c   Munson, Peter J ^c  

^a NATIONAL HEART LUNG AND BLOOD INSTITUTE   (United States)

^b NATIONAL INSTITUTES OF HEALTH   (United States)

^c NATIONAL INSTITUTES OF HEALTH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA; MICRORNA; MICRORNA 103; MICRORNA 106A; MICRORNA 107; MICRORNA 1228; MICRORNA 1275; MICRORNA 1281; MICRORNA 1308; MICRORNA 145; MICRORNA 150; MICRORNA 17; MICRORNA 181B; MICRORNA 1825; MICRORNA 18A; MICRORNA 191; MICRORNA 1975; MICRORNA 198; MICRORNA 221; MICRORNA 222; MICRORNA 320B; MICRORNA 423; MICRORNA 4306; MICRORNA 493; MICRORNA 500; MICRORNA 501; MICRORNA 551B; MICRORNA 886; MICRORNA 92A; UNCLASSIFIED DRUG;

APOPTOSIS; ARTICLE; B LYMPHOCYTE; CELL DIFFERENTIATION; CELL GROWTH; CELL PROLIFERATION; CONTROLLED STUDY; DOWN REGULATION; ERYTHROPOIESIS; GENE EXPRESSION; GENE EXPRESSION PROFILING; GENE TARGETING; GRANULOPOIESIS; HUMAN; HUMAN CELL; LYMPHOCYTE PROLIFERATION; MEGAKARYOPOIESIS; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; SIGNAL TRANSDUCTION; T LYMPHOCYTE; UPREGULATION;

EID: 84890053144     PISSN: 0301472X     EISSN: 18732399     Source Type: Journal    
DOI: 10.1016/j.exphem.2013.10.003     Document Type: Article

References (50)

1. Huang S., He X. microRNAs: tiny RNA molecules, huge driving forces to move the cell. Protein Cell 2010, 1:916-926.
2. Rager J.E., Smeester L., Jaspers I., Sexton K.G., Fry R.C. Epigenetic changes induced by air toxics: formaldehyde exposure alters miRNA expression profiles in human lung cells. Environ Health Perspect 2011, 119:494-500.
3. Thorne J.L., Maguire O., Doig C.L., et al. Epigenetic control of a VDR-governed feed-forward loop that regulates p21(waf1/cip1) expression and function in non-malignant prostate cells. Nucleic Acids Res 2011, 39:2045-2056.
4. Gotte M. MicroRNAs in breast cancer pathogenesis. Minerva Ginecol 2010, 62:559-571.
5. Rearick D., Prakash A., McSweeny A., Shepard S.S., Fedorova L., Fedorov A. Critical association of ncRNA with introns. Nucleic Acids Res 2011, 39:2357-2366.
6. Shi Y., Zhao X., Hsieh J., et al. MicroRNA regulation of neural stem cells and neurogenesis. J Neurosci 2010, 30:14931-14936.
7. Wong W. Focus issue: signals for gene expression. Sci Signal 2010, 3:eg10.
8. Schanen B.C., Li X. Transcriptional regulation of mammalian miRNA genes. Genomics 2011, 97:1-6.
9. David M. Interferons and microRNAs. J Interferon Cytokine Res 2010, 30:825-828.
10. Mishra P.J. MicroRNA polymorphisms: a giant leap towards personalized medicine. Per Med 2009, 6:119-125.
11. Kuchen S., Resch W., Yamane A., et al. Regulation of microRNA expression and abundance during lymphopoiesis. Immunity 2010, 32:828-839.
12. Slavov S.N., Gimenes Teixeira H.L., Rego E.M. The role of micro-ribonucleic acids in normal hematopoiesis and leukemic T-lymphogenesis. Braz J Med Biol Res 2010, 43:619-626.
13. Zhao G., Yu D., Weiss M.J. MicroRNAs in erythropoiesis. Curr Opin Hematol 2010, 17:155-162.
14. Vasilatou D., Papageorgiou S., Pappa V., Papageorgiou E., Dervenoulas J. The role of microRNAs in normal and malignant hematopoiesis. Eur J Haematol 2010, 84:1-16.
15. Muniategui A., Nogales-Cadenas R., Vazquez M., et al. Quantification of miRNA-mRNA interactions. PLoS One 2012, 7:e30766.
16. Grutzkau A., Radbruch A. Small but mighty: how the MACS-technology based on nanosized superparamagnetic particles has helped to analyze the immune system within the last 20 years. Cytometry A 2010, 77:643-647.
17. McNemar Q. Statistical theory and research design. Annu Rev Psychol 1952, 3:409-418.
18. Liu P., Barb J., Woodhouse K., Taylor J.G., Munson P.J., Raghavachari N. Transcriptome profiling and sequencing of differentiated human hematopoietic stem cells reveal lineage-specific expression and alternative splicing of genes. Physiol Genomics 2011, 43:1117-1134.
19. Santos P., Arumemi F., Park K.S., Borghesi L., Milcarek C. Transcriptional and epigenetic regulation of B cell development. Immunol Res 2011, 50:105-112.
20. Welch J.S., Yuan W., Ley T.J. PML-RARA can increase hematopoietic self-renewal without causing a myeloproliferative disease in mice. J Clin Invest 2011, 121:1636-1645.
21. Geissmann F., Manz M.G., Jung S., Sieweke M.H., Merad M., Ley K. Development of monocytes, macrophages, and dendritic cells. Science 2010, 327:656-661.
22. Fisher A.G. Cellular identity and lineage choice. Nat Rev Immunol 2002, 2:977-982.
23. Fatica A., Rosa A., Fazi F., et al. MicroRNAs and hematopoietic differentiation. Cold Spring Harb Symp Quant Biol 2006, 71:205-210.
24. Pasquinelli A.E., Hunter S., Bracht J. MicroRNAs: a developing story. Curr Opin Genet Dev 2005, 15:200-205.
25. Chen C.Z., Lodish H.F. MicroRNAs as regulators of mammalian hematopoiesis. Semin Immunol 2005, 17:155-165.
26. Hua Z., Chun W., Fang-Yuan C. MicroRNA-146a and hemopoietic disorders. Int J Hematol 2011, 94:224-229.
27. Guglielmelli P., Tozzi L., Bogani C., et al. Overexpression of microRNA-16-2 contributes to the abnormal erythropoiesis in polycythemia vera. Blood 2011, 117:6923-6927.
28. Byon J.C., Papayannopoulou T. MicroRNAs: Allies or foes in erythropoiesis?. J Cell Physiol 2012, 227:7-13.
29. Tenedini E., Roncaglia E., Ferrari F., et al. Integrated analysis of microRNA and mRNA expression profiles in physiological myelopoiesis: role of hsa-mir-299-5p in CD34+ progenitor cells commitment. Cell Death Dis 2010, 1:e28.
30. Castoldi M., Vujic Spasic M., Altamura S., et al. The liver-specific microRNA miR-122 controls systemic iron homeostasis in mice. J Clin Invest 2011, 121:1386-1396.
31. Pillai M.M., Yang X., Balakrishnan I., Bemis L., Torok-Storb B. MiR-886-3p down regulates CXCL12 (SDF1) expression in human marrow stromal cells. PLoS One 2010, 5:e14304.
32. Li G., Wu Z., Li X., Ning X., Li Y., Yang G. Biological role of microRNA-103 based on expression profile and target genes analysis in pigs. Mol Biol Rep 2011, 38:4777-4786.
33. Rasmussen K.D., Simmini S., Abreu-Goodger C., et al. The miR-144/451 locus is required for erythroid homeostasis. J Exp Med 2010, 207:1351-1358.
34. Kong K.Y., Owens K.S., Rogers J.H., et al. MIR-23A microRNA cluster inhibits B-cell development. Exp Hematol 2010, 38:629-640. e621.
35. Georgantas R.W., Hildreth R., Morisot S., et al. CD34+ hematopoietic stem-progenitor cell microRNA expression and function: a circuit diagram of differentiation control. Proc Natl Acad Sci U S A 2007, 104:2750-2755.
36. Bruchova-Votavova H., Yoon D., Prchal J.T. miR-451 enhances erythroid differentiation in K562 cells. Leuk Lymphoma 2010, 51:686-693.
37. Han Y.C., Park C.Y., Bhagat G., et al. microRNA-29a induces aberrant self-renewal capacity in hematopoietic progenitors, biased myeloid development, and acute myeloid leukemia. J Exp Med 2010, 207:475-489.
38. Felli N., Pedini F., Romania P., et al. MicroRNA 223-dependent expression of LMO2 regulates normal erythropoiesis. Haematologica 2009, 94:479-486.
39. Schaar D.G., Medina D.J., Moore D.F., Strair R.K., Ting Y. miR-320 targets transferrin receptor 1 (CD71) and inhibits cell proliferation. Exp Hematol 2009, 37:245-255.
40. Ben-Ami O., Pencovich N., Lotem J., Levanon D., Groner Y. A regulatory interplay between miR-27a and Runx1 during megakaryopoiesis. Proc Natl Acad Sci U S A 2009, 106:238-243.
41. Romania P., Lulli V., Pelosi E., Biffoni M., Peschle C., Marziali G. MicroRNA 155 modulates megakaryopoiesis at progenitor and precursor level by targeting Ets-1 and Meis1 transcription factors. Br J Haematol 2008, 143:570-580.
42. Fu Y.F., Du T.T., Dong M., et al. Mir-144 selectively regulates embryonic alpha-hemoglobin synthesis during primitive erythropoiesis. Blood 2009, 113:1340-1349.
43. Zhao H., Kalota A., Jin S., Gewirtz A.M. The c-myb proto-oncogene and microRNA-15a comprise an active autoregulatory feedback loop in human hematopoietic cells. Blood 2009, 113:505-516.
44. Barroga C.F., Pham H., Kaushansky K. Thrombopoietin regulates c-Myb expression by modulating micro RNA 150 expression. Exp Hematol 2008, 36:1585-1592.
45. Rajewsky N. microRNA target predictions in animals. Nat Genet 2006, 38(Suppl):S8-13.
46. Wang X. miRDB: a microRNA target prediction and functional annotation database with a wiki interface. RNA 2008, 14:1012-1017.
47. Wang X., El Naqa I.M. Prediction of both conserved and nonconserved microRNA targets in animals. Bioinformatics 2008, 24:325-332.
48. Bartel D.P. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 2004, 116:281-297.
49. van Rooij E. The art of microRNA research. Circ Res 2011;108:219-234.
50. Hoang T. The origin of hematopoietic cell type diversity. Oncogene 2004, 23:7188-7198.