Genetic module and miRNome trait analyses reflect the distinct biological features of endothelial progenitor cells from different anatomic locations

BMC Genomics

Volumn 13, Issue 1, 2012, Pages

  Cheng, Cheng Chung ^a   Lo, Hung Hao ^b   Huang, Tse Shun ^b   Cheng, Yi Chieh ^b   Chang, Shi Ting ^b   Chang, Shing Jyh ^c   Wang, Hsei Wei ^b,d  

^a TRI SERVICE GENERAL HOSPITAL   (Taiwan)

^b NATIONAL YANG MING UNIVERSITY   (Taiwan)

^c MACKAY MEMORIAL HOSPITAL   (Taiwan)

^d TAIPEI CITY HOSPITAL   (Taiwan)

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA; MICRORNA; MICRORNA 10A; MICRORNA 31; UNCLASSIFIED DRUG;

ADULT; ANGIOGENESIS; ARTICLE; BLOOD; CELL MIGRATION; CELL PROLIFERATION; CONTROLLED STUDY; ENDOTHELIAL PROGENITOR CELL; HUMAN; HUMAN CELL; IN VITRO STUDY; MICROTUBULE; MONONUCLEAR CELL; RNA SEQUENCE; UMBILICAL CORD BLOOD;

CELL MOVEMENT; CELLS, CULTURED; COMPUTATIONAL BIOLOGY; ENDOTHELIAL CELLS; FETAL BLOOD; GENE EXPRESSION PROFILING; HUMANS; LEUKOCYTES, MONONUCLEAR; MICRORNAS; STEM CELLS;

EID: 84865602415     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-13-447     Document Type: Article

References (50)

1. Crimi E, Ignarro LJ, Napoli C. Microcirculation and oxidative stress. Free Radic Res 2007, 41(12):1364-1375. 10.1080/10715760701732830, 18075839.
2. Dzau VJ, Gnecchi M, Pachori AS, Morello F, Melo LG. Therapeutic potential of endothelial progenitor cells in cardiovascular diseases. Hypertension 2005, 46(1):7-18. 10.1161/01.HYP.0000168923.92885.f7, 15956118.
3. Kinnaird T, Stabile E, Zbinden S, Burnett MS, Epstein SE. Cardiovascular risk factors impair native collateral development and may impair efficacy of therapeutic interventions. Cardiovasc Res 2008, 78(2):257-264. 10.1093/cvr/cvm116, 18178573.
4. Feihl F, Liaudet L, Levy BI, Waeber B. Hypertension and microvascular remodelling. Cardiovasc Res 2008, 78(2):274-285. 10.1093/cvr/cvn022, 18250145.
5. Umemura T, Soga J, Hidaka T, Takemoto H, Nakamura S, Jitsuiki D, Nishioka K, Goto C, Teragawa H, Yoshizumi M, et al. Aging and hypertension are independent risk factors for reduced number of circulating endothelial progenitor cells. Am J Hypertens 2008, 21(11):1203-1209. 10.1038/ajh.2008.278, 18787520.
6. Briguori C, Testa U, Riccioni R, Colombo A, Petrucci E, Condorelli G, Mariani G, D'Andrea D, De Micco F, Rivera NV, et al. Correlations between progression of coronary artery disease and circulating endothelial progenitor cells. Faseb J 2010, 24(6):1981-1988. 10.1096/fj.09-138198, 20056714.
7. Peichev M, Naiyer AJ, Pereira D, Zhu Z, Lane WJ, Williams M, Oz MC, Hicklin DJ, Witte L, Moore MA, et al. Expression of VEGFR-2 and AC133 by circulating human CD34(+) cells identifies a population of functional endothelial precursors. Blood 2000, 95(3):952-958.
8. Hsieh JY, Fu YS, Chang SJ, Tsuang YH, Wang HW. Functional module analysis reveals differential osteogenic and stemness potentials in human mesenchymal stem cells from bone marrow and Wharton's jelly of umbilical cord. Stem Cells Dev 2010, 19(12):1895-1910. 10.1089/scd.2009.0485, 20367285.
9. Wang TY, Chang SJ, Chang MD, Wang HW. Unique biological properties and application potentials of CD34+ CD38- stem cells from various sources. Taiwan J Obstet Gynecol 2009, 48(4):356-369. 10.1016/S1028-4559(09)60324-7, 20045756.
10. Ingram DA, Mead LE, Tanaka H, Meade V, Fenoglio A, Mortell K, Pollok K, Ferkowicz MJ, Gilley D, Yoder MC. Identification of a novel hierarchy of endothelial progenitor cells using human peripheral and umbilical cord blood. Blood 2004, 104(9):2752-2760. 10.1182/blood-2004-04-1396, 15226175.
11. Au P, Daheron LM, Duda DG, Cohen KS, Tyrrell JA, Lanning RM, Fukumura D, Scadden DT, Jain RK. Differential in vivo potential of endothelial progenitor cells from human umbilical cord blood and adult peripheral blood to form functional long-lasting vessels. Blood 2008, 111(3):1302-1305. 2214740, 17993613.
12. Melero-Martin JM, Khan ZA, Picard A, Wu X, Paruchuri S, Bischoff J. In vivo vasculogenic potential of human blood-derived endothelial progenitor cells. Blood 2007, 109(11):4761-4768. 10.1182/blood-2006-12-062471, 17327403.
13. Mendonca MS, Chin-Sinex H, Dhaemers R, Mead LE, Yoder MC, Ingram DA. Differential mechanisms of x-ray-induced cell death in human endothelial progenitor cells isolated from cord blood and adults. Radiat Res 2011, 176(2):208-216. 10.1667/RR2427.1, 21663393.
14. Wang S, Olson EN. AngiomiRs-key regulators of angiogenesis. Curr Opin Genet Dev 2009, 19(3):205-211. 10.1016/j.gde.2009.04.002, 2696563, 19446450.
15. Qin B, Yang H, Xiao B. Role of microRNAs in endothelial inflammation and senescence. Mol Biol Rep 2011, 39(4):4509-18.
16. Kuehbacher A, Urbich C, Dimmeler S. Targeting microRNA expression to regulate angiogenesis. Trends Pharmacol Sci 2008, 29(1):12-15. 10.1016/j.tips.2007.10.014, 18068232.
17. Qi C, Zhu YT, Hu L, Zhu YJ. Identification of Fat4 as a candidate tumor suppressor gene in breast cancers. Int J Cancer 2009, 124(4):793-798. 10.1002/ijc.23775, 2667156, 19048595.
18. Wu YH, Hu TF, Chen YC, Tsai YN, Tsai YH, Cheng CC, Wang HW. The manipulation of miRNA-gene regulatory networks by KSHV induces endothelial cell motility. Blood 2011, 118(10):2896-2905. 10.1182/blood-2011-01-330589, 21715310.
19. Lee DY, Deng Z, Wang CH, Yang BB. MicroRNA-378 promotes cell survival, tumor growth, and angiogenesis by targeting SuFu and Fus-1 expression. Proc Natl Acad Sci U S A 2007, 104(51):20350-20355. 10.1073/pnas.0706901104, 2154434, 18077375.
20. Wurdinger T, Tannous BA, Saydam O, Skog J, Grau S, Soutschek J, Weissleder R, Breakefield XO, Krichevsky AM. miR-296 regulates growth factor receptor overexpression in angiogenic endothelial cells. Cancer Cell 2008, 14(5):382-393. 10.1016/j.ccr.2008.10.005, 2597164, 18977327.
21. Anand S, Majeti BK, Acevedo LM, Murphy EA, Mukthavaram R, Scheppke L, Huang M, Shields DJ, Lindquist JN, Lapinski PE, et al. MicroRNA-132-mediated loss of p120RasGAP activates the endothelium to facilitate pathological angiogenesis. Nat Med 2010, 16(8):909-914. 10.1038/nm.2186, 3094020, 20676106.
22. Huang PH, Chen YH, Chen YL, Wu TC, Chen JW, Lin SJ. Vascular endothelial function and circulating endothelial progenitor cells in patients with cardiac syndrome X. Heart 2007, 93(9):1064-1070. 10.1136/hrt.2006.107763, 1954999, 17488770.
23. Chen YH, Lin SJ, Lin FY, Wu TC, Tsao CR, Huang PH, Liu PL, Chen YL, Chen JW. High glucose impairs early and late endothelial progenitor cells by modifying nitric oxide-related but not oxidative stress-mediated mechanisms. Diabetes 2007, 56(6):1559-1568. 10.2337/db06-1103, 17389326.
24. Wang HW, Trotter MW, Lagos D, Bourboulia D, Henderson S, Makinen T, Elliman S, Flanagan AM, Alitalo K, Boshoff C. Kaposi sarcoma herpesvirus-induced cellular reprogramming contributes to the lymphatic endothelial gene expression in Kaposi sarcoma. Nat Genet 2004, 36(7):687-693. 10.1038/ng1384, 15220918.
25. Smyth GK. Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol 2004, 3(1):Article3.
26. Storey JD, Tibshirani R. Statistical significance for genomewide studies. Proc Natl Acad Sci U S A 2003, 100(16):9440-9445. Epub 2003 Jul 9425, 10.1073/pnas.1530509100, 170937, 12883005.
27. Yang TP, Chang TY, Lin CH, Hsu MT, Wang HW. ArrayFusion: a web application for multi-dimensional analysis of CGH, SNP and microarray data. Bioinformatics 2006, 22(21):2697-2698. 10.1093/bioinformatics/btl457, 16935928.
28. Mortazavi A, Williams BA, McCue K, Schaeffer L, Wold B. Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat Methods 2008, 5(7):621-628. 10.1038/nmeth.1226, 18516045.
29. Hsu JB, Chiu CM, Hsu SD, Huang WY, Chien CH, Lee TY, Huang HD. miRTar: an integrated system for identifying miRNA-target interactions in human. BMC Bioinformatics 2011, 12:300. 10.1186/1471-2105-12-300, 3162936, 21791068.
30. Pepini T, Gorbunova EE, Gavrilovskaya IN, Mackow JE, Mackow ER. Andes virus regulation of cellular microRNAs contributes to hantavirus-induced endothelial cell permeability. J Virol 2010, 84(22):11929-11936. 10.1128/JVI.01658-10, 2977893, 20844033.
31. Zampetaki A, Kiechl S, Drozdov I, Willeit P, Mayr U, Prokopi M, Mayr A, Weger S, Oberhollenzer F, Bonora E, et al. Plasma microRNA profiling reveals loss of endothelial miR-126 and other microRNAs in type 2 diabetes. Circ Res 2010, 107(6):810-817. 10.1161/CIRCRESAHA.110.226357, 20651284.
32. Caporali A, Meloni M, Vollenkle C, Bonci D, Sala-Newby GB, Addis R, Spinetti G, Losa S, Masson R, Baker AH, et al. Deregulation of microRNA-503 contributes to diabetes mellitus-induced impairment of endothelial function and reparative angiogenesis after limb ischemia. Circulation 2011, 123(3):282-291. 10.1161/CIRCULATIONAHA.110.952325, 21220732.
33. Huang TS, Hsieh JY, Wu YH, Jen CH, Tsuang YH, Chiou SH, Partanen J, Anderson H, Jaatinen T, Yu YH, et al. Functional network reconstruction reveals somatic stemness genetic maps and dedifferentiation-like transcriptome reprogramming induced by GATA2. Stem Cells 2008, 26(5):1186-1201. 10.1634/stemcells.2007-0821, 18308945.
34. Fiedler J, Jazbutyte V, Kirchmaier BC, Gupta SK, Lorenzen J, Hartmann D, Galuppo P, Kneitz S, Pena JT, Sohn-Lee C, et al. MicroRNA-24 regulates vascularity after myocardial infarction. Circulation 2011, 124(6):720-730. 10.1161/CIRCULATIONAHA.111.039008, 21788589.
35. Grundmann S, Hans FP, Kinniry S, Heinke J, Helbing T, Bluhm F, Sluijter JP, Hoefer I, Pasterkamp G, Bode C, et al. MicroRNA-100 regulates neovascularization by suppression of mammalian target of rapamycin in endothelial and vascular smooth muscle cells. Circulation 2011, 123(9):999-1009. 10.1161/CIRCULATIONAHA.110.000323, 21339483.
36. Fang JH, Zhou HC, Zeng C, Yang J, Liu Y, Huang X, Zhang JP, Guan XY, Zhuang SM. MicroRNA-29b suppresses tumor angiogenesis, invasion and metastasis by regulating MMP-2 expression. Hepatology 2011, 54(5):1729-1740. 10.1002/hep.24577, 21793034.
37. Tsai YH, Wu MF, Wu YH, Chang SJ, Lin SF, Sharp TV, Wang HW. The M type K15 protein of Kaposi's sarcoma-associated herpesvirus regulates microRNA expression via its SH2-binding motif to induce cell migration and invasion. J Virol 2009, 83(2):622-632. 10.1128/JVI.00869-08, 2612383, 18971265.
38. Real C, Caiado F, Dias S. Endothelial progenitors in vascular repair and angiogenesis: how many are needed and what to do?. Cardiovasc Hematol Disord Drug Targets 2008, 8(3):185-193. 10.2174/187152908785849071, 18781931.
39. Fuchs S, Dohle E, Kolbe M, Kirkpatrick CJ. Outgrowth endothelial cells: sources, characteristics and potential applications in tissue engineering and regenerative medicine. Adv Biochem Eng Biotechnol 2010, 123:201-217.
40. Rafii S, Lyden D. Therapeutic stem and progenitor cell transplantation for organ vascularization and regeneration. Nat Med 2003, 9(6):702-712. 10.1038/nm0603-702, 12778169.
41. Wohrle J, Birkemeyer R, Markovic S, Nguyen TV, Sinha A, Miljak T, Spiess J, Rottbauer W, Rittger H. Prospective randomised trial evaluating a paclitaxel-coated balloon in patients treated with endothelial progenitor cell capturing stents for de novo coronary artery disease. Heart 2011, 97(16):1338-1342. 10.1136/hrt.2011.226563, 21617163.
42. Zorn AM, Butler K, Gurdon JB. Anterior endomesoderm specification in Xenopus by Wnt/beta-catenin and TGF-beta signalling pathways. Dev Biol 1999, 209(2):282-297. 10.1006/dbio.1999.9257, 10328921.
43. Gherghe CM, Duan J, Gong J, Rojas M, Klauber-Demore N, Majesky M, Deb A. Wnt1 is a proangiogenic molecule, enhances human endothelial progenitor function, and increases blood flow to ischemic limbs in a HGF-dependent manner. Faseb J 2011, 25(6):1836-1843. 10.1096/fj.10-172981, 3219217, 21321190.
44. Wang Z, Gerstein M, Snyder M. RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet 2009, 10(1):57-63. 10.1038/nrg2484, 2949280, 19015660.
45. Pedrioli DM, Karpanen T, Dabouras V, Jurisic G, van de Hoek G, Shin JW, Marino D, Kalin RE, Leidel S, Cinelli P, et al. miR-31 functions as a negative regulator of lymphatic vascular lineage-specific differentiation in vitro and vascular development in vivo. Mol Cell Biol 2010, 30(14):3620-3634. 10.1128/MCB.00185-10, 2897549, 20479124.
46. Menghini R, Casagrande V, Cardellini M, Martelli E, Terrinoni A, Amati F, Vasa-Nicotera M, Ippoliti A, Novelli G, Melino G, et al. MicroRNA 217 modulates endothelial cell senescence via silent information regulator 1. Circulation 2009, 120(15):1524-1532. 10.1161/CIRCULATIONAHA.109.864629, 19786632.
47. Wang XH, Qian RZ, Zhang W, Chen SF, Jin HM, Hu RM. MicroRNA-320 expression in myocardial microvascular endothelial cells and its relationship with insulin-like growth factor-1 in type 2 diabetic rats. Clin Exp Pharmacol Physiol 2009, 36(2):181-188. 10.1111/j.1440-1681.2008.05057.x, 18986336.
48. Fang L, Deng Z, Shatseva T, Yang J, Peng C, Du WW, Yee AJ, Ang LC, He C, Shan SW, et al. MicroRNA miR-93 promotes tumor growth and angiogenesis by targeting integrin-beta8. Oncogene 2011, 30(7):806-821. 10.1038/onc.2010.465, 20956944.
49. Li D, Yang P, Xiong Q, Song X, Yang X, Liu L, Yuan W, Rui YC. MicroRNA-125a/b-5p inhibits endothelin-1 expression in vascular endothelial cells. J Hypertens 2010, 28(8):1646-1654. 10.1097/HJH.0b013e32833a4922, 20531225.
50. Fang Y, Shi C, Manduchi E, Civelek M, Davies PF. MicroRNA-10a regulation of proinflammatory phenotype in athero-susceptible endothelium in vivo and in vitro. Proc Natl Acad Sci U S A 2010, 107(30):13450-13455. 10.1073/pnas.1002120107, 2922125, 20624982.