Global transcriptional profiles of beating clusters derived from human induced pluripotent stem cells and embryonic stem cells are highly similar

BMC Developmental Biology

Volumn 10, Issue , 2010, Pages

  Gupta, Manoj K ^a   Illich, Damir J ^a   Gaarz, Andrea ^b   Matzkies, Matthias ^a   Nguemo, Filomain ^a   Pfannkuche, Kurt ^a   Liang, Huamin ^a,c   Classen, Sabine ^b   Reppel, Michael ^a,d   Schultze, Joachim L ^b   Hescheler, Jürgen ^a   Ari, Tomo ^a  

^a UNIVERSITY OF COLOGNE   (Germany)

^b UNIVERSITY OF BONN   (Germany)

^c HUAZHONG UNIVERSITY OF SCIENCE AND TECHNOLOGY   (China)

^d UNIVERSITY OF LÜBECK   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

IPS;

ARTICLE; CALCIUM SIGNALING; CELL DIFFERENTIATION; CYTOLOGY; DNA MICROARRAY; EMBRYONIC STEM CELL; GENE EXPRESSION PROFILING; GENETIC TRANSCRIPTION; HEART MUSCLE CELL; HUMAN; MALE; METABOLISM; PLURIPOTENT STEM CELL; PREPUCE; SIGNAL TRANSDUCTION;

CALCIUM SIGNALING; CELL DIFFERENTIATION; EMBRYONIC STEM CELLS; FORESKIN; GENE EXPRESSION PROFILING; HUMANS; INDUCED PLURIPOTENT STEM CELLS; MALE; MYOCYTES, CARDIAC; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; SIGNAL TRANSDUCTION; TRANSCRIPTION, GENETIC;

EID: 77956499352     PISSN: None     EISSN: 1471213X     Source Type: Journal    
DOI: 10.1186/1471-213X-10-98     Document Type: Article

References (59)

1. Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors. K Takahashi S Yamanaka, Cell 2006 126 4 663 676 10.1016/j.cell.2006.07.024 16904174 (Pubitemid 44233629)
2. Direct reprogramming of genetically unmodified fibroblasts into pluripotent stem cells. A Meissner M Wernig R Jaenisch, Nat Biotechnol 2007 25 10 1177 1181 10.1038/nbt1335 17724450 (Pubitemid 47538112)
3. Generation of germline-competent induced pluripotent stem cells. K Okita T Ichisaka S Yamanaka, Nature 2007 448 7151 313 317 10.1038/nature05934 17554338 (Pubitemid 47080336)
4. Generation of mouse induced pluripotent stem cells without viral vectors. K Okita M Nakagawa H Hyenjong T Ichisaka S Yamanaka, Science 2008 322 5903 949 953 10.1126/science.1164270 18845712
5. In vitro reprogramming of fibroblasts into a pluripotent ES-cell-like state. M Wernig A Meissner R Foreman T Brambrink M Ku K Hochedlinger BE Bernstein R Jaenisch, Nature 2007 448 7151 318 324 10.1038/nature05944 17554336 (Pubitemid 47080337)
6. Induced pluripotent stem cell lines derived from human somatic cells. J Yu MA Vodyanik K Smuga-Otto J Antosiewicz-Bourget JL Frane S Tian J Nie GA Jonsdottir V Ruotti R Stewart,, et al. Science 2007 318 5858 1917 1920 10.1126/science.1151526 18029452
7. Reprogrammed mouse fibroblasts differentiate into cells of the cardiovascular and hematopoietic lineages. K Schenke-Layland KE Rhodes E Angelis Y Butylkova S Heydarkhan-Hagvall C Gekas R Zhang JI Goldhaber HK Mikkola K Plath,, et al. Stem Cells 2008 26 6 1537 1546 10.1634/stemcells.2008-0033 18450826
8. Characterization of dendritic cells and macrophages generated by directed differentiation from mouse induced pluripotent stem cells. S Sonja M Haruta Y Matsunaga S Fukushima T Ikeda K Takahashi S Yamanaka Y Nishimura, Stem Cells 2009 27 5 1021 1031 10.1002/stem.33 19415766
9. Generation of insulin-secreting islet-like clusters from human skin fibroblasts. K Tateishi J He O Taranova G Liang AC D'Alessio Y Zhang, J Biol Chem 2008 283 46 31601 31607 10.1074/jbc.M806597200 18782754
10. Adipogenic differentiation of human induced pluripotent stem cells: comparison with that of human embryonic stem cells. D Taura M Noguchi M Sone K Hosoda E Mori Y Okada K Takahashi K Homma N Oyamada M Inuzuka,, et al. FEBS Lett 2009 583 6 1029 1033 10.1016/j.febslet.2009.02.031 19250937
11. A comparison of murine smooth muscle cells generated from embryonic versus induced pluripotent stem cells. CQ Xie H Huang S Wei LS Song J Zhang RP Ritchie L Chen M Zhang YE Chen, Stem Cells Dev 2009 18 5 741 748 10.1089/scd.2008.0179 18795840
12. Highly efficient differentiation of human ES cells and iPS cells into mature pancreatic insulin-producing cells. D Zhang W Jiang M Liu X Sui X Yin S Chen Y Shi H Deng, Cell Res 2009 19 4 429 438 10.1038/cr.2009.28 19255591
13. Human embryonic stem cells can differentiate into myocytes with structural and functional properties of cardiomyocytes. I Kehat D Kenyagin-Karsenti M Snir H Segev M Amit A Gepstein E Livne O Binah J Itskovitz-Eldor L Gepstein, J Clin Invest 2001 108 3 407 414 11489934 (Pubitemid 32730787)
14. Human embryonic stem cells develop into multiple types of cardiac myocytes: action potential characterization. JQ He Y Ma Y Lee JA Thomson TJ Kamp, Circ Res 2003 93 1 32 39 10.1161/01.RES.0000080317.92718.99 12791707 (Pubitemid 36859038)
15. Differentiation of human embryonic stem cells to cardiomyocytes: role of coculture with visceral endoderm-like cells. C Mummery D Ward-van Oostwaard P Doevendans R Spijker S van den Brink R Hassink M van der Heyden T Opthof M Pera AB de la Riviere,, et al. Circulation 2003 107 21 2733 2740 10.1161/01.CIR. 0000068356.38592.68 12742992 (Pubitemid 36667249)
16. Functional characterization of cardiomyocytes derived from murine induced pluripotent stem cells in vitro. A Kuzmenkin H Liang G Xu K Pfannkuche H Eichhorn A Fatima H Luo T Saric M Wernig R Jaenisch,, et al. Faseb J 2009 19703934
17. Generation of functional murine cardiac myocytes from induced pluripotent stem cells. C Mauritz K Schwanke M Reppel S Neef K Katsirntaki LS Maier F Nguemo S Menke M Haustein J Hescheler,, et al. Circulation 2008 118 5 507 517 10.1161/CIRCULATIONAHA.108.778795 18625890
18. Directed and systematic differentiation of cardiovascular cells from mouse induced pluripotent stem cells. G Narazaki H Uosaki M Teranishi K Okita B Kim S Matsuoka S Yamanaka JK Yamashita, Circulation 2008 118 5 498 506 10.1161/CIRCULATIONAHA.108.769562 18625891
19. Cardiac myocytes derived from murine reprogrammed fibroblasts: intact hormonal regulation, cardiac ion channel expression and development of contractility. K Pfannkuche H Liang T Hannes J Xi A Fatima F Nguemo M Matzkies M Wernig R Jaenisch F Pillekamp,, et al. Cell Physiol Biochem 2009 24 12 73 86 10.1159/000227815 19590195
20. In vitro pharmacologic testing using human induced pluripotent stem cell-derived cardiomyocytes. T Tanaka S Tohyama M Murata F Nomura T Kaneko H Chen F Hattori T Egashira T Seki Y Ohno,, et al. Biochem Biophys Res Commun 2009 385 4 497 502 10.1016/j.bbrc.2009.05.073 19464263
21. The effects of cardioactive drugs on cardiomyocytes derived from human induced pluripotent stem cells. N Yokoo S Baba S Kaichi A Niwa T Mima H Doi S Yamanaka T Nakahata T Heike, Biochem Biophys Res Commun 2009 387 3 482 488 10.1016/j.bbrc.2009.07.052 19615974
22. Functional cardiomyocytes derived from human induced pluripotent stem cells. J Zhang GF Wilson AG Soerens CH Koonce J Yu SP Palecek JA Thomson TJ Kamp, Circ Res 2009 104 4 30 41 10.1161/CIRCRESAHA.108.192237 19213953
23. Generation and characterization of functional cardiomyocytes using induced pluripotent stem cells derived from human fibroblasts. H Gai EL Leung PD Costantino JR Aguila DM Nguyen LM Fink DC Ward Y Ma, Cell Biol Int 2009 33 11 1184 1193 10.1016/j.cellbi.2009.08.008 19729070
24. Cardiomyocyte differentiation of human induced pluripotent stem cells. L Zwi O Caspi G Arbel I Huber A Gepstein IH Park L Gepstein, Circulation 2009 120 15 1513 1523 10.1161/CIRCULATIONAHA.109.868885 19786631
25. Generation of induced pluripotent stem cells from human cord blood. A Haase R Olmer K Schwanke S Wunderlich S Merkert C Hess R Zweigerdt I Gruh J Meyer S Wagner,, et al. Cell Stem Cell 2009 5 4 434 441 10.1016/j.stem.2009.08. 021 19796623
26. Molecular characterization and functional properties of cardiomyocytes derived from human inducible pluripotent stem cells. I Germanguz O Sedan N Zeevi-Levin R Shtreichman E Barak A Ziskind S Eliyahu G Meiry M Amit J Itskovitz-Eldor,, et al. J Cell Mol Med 2009 20041972
27. Generation of human induced pluripotent stem cells from dermal fibroblasts. WE Lowry L Richter R Yachechko AD Pyle J Tchieu R Sridharan AT Clark K Plath, Proc Natl Acad Sci USA 2008 105 8 2883 2888 10.1073/pnas. 0711983105 18287077 (Pubitemid 351723638)
28. Directly reprogrammed fibroblasts show global epigenetic remodeling and widespread tissue contribution. N Maherali R Sridharan W Xie J Utikal S Eminli K Arnold M Stadtfeld R Yachechko J Tchieu R Jaenisch,, et al. Cell Stem Cell 2007 1 1 55 70 10.1016/j.stem.2007.05.014 18371336
29. Induced pluripotent stem cells and embryonic stem cells are distinguished by gene expression signatures. MH Chin MJ Mason W Xie S Volinia M Singer C Peterson G Ambartsumyan O Aimiuwu L Richter J Zhang,, et al. Cell Stem Cell 2009 5 1 111 123 10.1016/j.stem.2009.06.008 19570518
30. Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts. A Doi IH Park B Wen P Murakami MJ Aryee R Irizarry B Herb C Ladd- Acosta J Rho S Loewer,, et al. Nat Genet 2009 41 12 1350 1353 10.1038/ng.471 19881528
31. Transcriptional signature and memory retention of human-induced pluripotent stem cells. MC Marchetto GW Yeo O Kainohana M Marsala FH Gage AR Muotri, PLoS One 2009 4 9 7076 10.1371/journal.pone.0007076 19763270
32. Molecular signature of cardiomyocyte clusters derived from human embryonic stem cells. J Synnergren K Akesson K Dahlenborg H Vidarsson C Ameen D Steel A Lindahl B Olsson P Sartipy, Stem Cells 2008 26 7 1831 1840 10.1634/stemcells.2007-1033 18436862
33. Transcriptional and functional profiling of human embryonic stem cell-derived cardiomyocytes. F Cao RA Wagner KD Wilson X Xie JD Fu M Drukker A Lee RA Li SS Gambhir IL Weissman,, et al. PLoS ONE 2008 3 10 3474 10.1371/journal.pone.0003474 18941512
34. Global expression profile of highly enriched cardiomyocytes derived from human embryonic stem cells. XQ Xu SY Soo W Sun R Zweigerdt, Stem Cells 2009 27 9 2163 2174 10.1002/stem.166 19658189
35. Lentiviral vectors and protocols for creation of stable hESC lines for fluorescent tracking and drug resistance selection of cardiomyocytes. H Kita-Matsuo M Barcova N Prigozhina N Salomonis K Wei JG Jacot B Nelson S Spiering R Haverslag C Kim,, et al. PLoS One 2009 4 4 5046 10.1371/journal.pone. 0005046 19352491
36. Genome-wide transcriptional profiling of human embryonic stem cells differentiating to cardiomyocytes. A Beqqali J Kloots D Ward-van Oostwaard C Mummery R Passier, Stem Cells 2006 24 8 1956 1967 10.1634/stemcells.2006-0054 16675594 (Pubitemid 44474172)
37. Distinct cardiogenic preferences of two human embryonic stem cell (hESC) lines are imprinted in their proteomes in the pluripotent state. JC Moore J Fu YC Chan D Lin H Tran HF Tse RA Li, Biochem Biophys Res Commun 2008 372 4 553 558 10.1016/j.bbrc.2008.05.076 18503758
38. Marked differences in differentiation propensity among human embryonic stem cell lines. K Osafune L Caron M Borowiak RJ Martinez CS Fitz-Gerald Y Sato CA Cowan KR Chien DA Melton, Nat Biotechnol 2008 26 3 313 315 10.1038/nbt1383 18278034 (Pubitemid 351355125)
39. Characterization of human embryonic stem cell lines by the International Stem Cell Initiative. O Adewumi B Aflatoonian L Ahrlund-Richter M Amit PW Andrews G Beighton PA Bello N Benvenisty LS Berry S Bevan,, et al. Nat Biotechnol 2007 25 7 803 816 10.1038/nbt1318 17572666 (Pubitemid 47052190)
40. A transcriptional roadmap to the induction of pluripotency in somatic cells. Y Wang N Mah A Prigione K Wolfrum MA Andrade-Navarro J Adjaye, Stem Cell Rev 2010 6 2 282 296 10.1007/s12015-010-9137-2 20336394
41. Oct4 targets regulatory nodes to modulate stem cell function. PA Campbell C Perez-Iratxeta MA Andrade-Navarro MA Rudnicki, PLoS One 2007 2 6 553 10.1371/journal.pone.0000553 17579724 (Pubitemid 351194006)
42. Dissecting Oct3/4-regulated gene networks in embryonic stem cells by expression profiling. R Matoba H Niwa S Masui S Ohtsuka MG Carter AA Sharov MS Ko, PLoS One 2006 1 26 10.1371/journal.pone.0000026 17183653
43. Identification of Pou5f1, Sox2, and Nanog downstream target genes with statistical confidence by applying a novel algorithm to time course microarray and genome-wide chromatin immunoprecipitation data. AA Sharov S Masui LV Sharova Y Piao K Aiba R Matoba L Xin H Niwa MS Ko, BMC Genomics 2008 9 269 10.1186/1471-2164-9-269 18522731 (Pubitemid 351837404)
44. Epigenetic memory in induced pluripotent stem cells. K Kim A Doi B Wen K Ng R Zhao P Cahan J Kim MJ Aryee H Ji, Nature 2010
45. Cell type of origin influences the molecular and functional properties of mouse induced pluripotent stem cells. JM Polo S Liu ME Figueroa W Kulalert S Eminli KY Tan E Apostolou M Stadtfeld Y Li, Nature Biotechnology 2010 20644536
46. Reporter-Based Isolation of Induced Pluripotent Stem Cell-and Embryonic Stem Cell-Derived Cardiac Progenitors Reveals Limited Gene Expression Variance. LW van Laake L Qian P Cheng Y Huang EC Hsiao B Conklin D Srivastava, Circ Res 2010 20558827
47. Generation of human induced pluripotent stem cells by direct delivery of reprogramming proteins. D Kim CH Kim JI Moon YG Chung MY Chang BS Han S Ko E Yang KY Cha R Lanza,, et al. Cell Stem Cell 2009 4 6 472 476 10.1016/j.stem.2009.05.005 19481515
48. Generation of induced pluripotent stem cells using recombinant proteins. H Zhou S Wu JY Joo S Zhu DW Han T Lin S Trauger G Bien S Yao Y Zhu,, et al. Cell Stem Cell 2009 4 5 381 384 10.1016/j.stem.2009.04.005 19398399
49. Ectopic expression of Oct- 4 blocks progenitor-cell differentiation and causes dysplasia in epithelial tissues. K Hochedlinger Y Yamada C Beard R Jaenisch, Cell 2005 121 3 465 477 10.1016/j.cell.2005.02.018 15882627 (Pubitemid 40692305)
50. Chemically defined medium supporting cardiomyocyte differentiation of human embryonic stem cells. XQ Xu R Graichen SY Soo T Balakrishnan SN Rahmat S Sieh SC Tham C Freund J Moore C Mummery,, et al. Differentiation 2008 76 9 958 970 18557764
51. Beta-adrenergic and muscarinic modulation of human embryonic stem cell-derived cardiomyocytes. M Reppel C Boettinger J Hescheler, Cell Physiol Biochem 2004 14 46 187 196 10.1159/000080326 15319521 (Pubitemid 39179186)
52. MEA-Tools: an open source toolbox for the analysis of multi-electrode data with MATLAB. U Egert T Knott C Schwarz M Nawrot A Brandt S Rotter M Diesmann, J Neurosci Methods 2002 117 1 33 42 10.1016/S0165-0270(02)00045-6 12084562 (Pubitemid 34663897)
53. Functional characteristics of ES cell-derived cardiac precursor cells identified by tissue-specific expression of the green fluorescent protein. E Kolossov BK Fleischmann Q Liu W Bloch S Viatchenko-Karpinski O Manzke GJ Ji H Bohlen K Addicks J Hescheler, J Cell Biol 1998 143 7 2045 2056 10.1083/jcb.143.7.2045 9864374 (Pubitemid 29022623)
54. Force measurements of human embryonic stem cell-derived cardiomyocytes in an in vitro transplantation model. F Pillekamp M Reppel O Rubenchyk K Pfannkuche M Matzkies W Bloch N Sreeram K Brockmeier J Hescheler, Stem Cells 2007 25 1 174 180 10.1634/stemcells.2006-0094 16973834 (Pubitemid 46052988)
55. Mayday-a microarray data analysis workbench. J Dietzsch N Gehlenborg K Nieselt, Bioinformatics 2006 22 8 1010 1012 10.1093/bioinformatics/btl070 16500939
56. DAVID: Database for Annotation, Visualization, and Integrated Discovery. G Dennis Jr BT Sherman DA Hosack J Yang W Gao HC Lane RA Lempicki, Genome Biol 2003 4 5 3 10.1186/gb-2003-4-5-p3 12734009
57. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. W Huang da BT Sherman RA Lempicki, Nat Protoc 2009 4 1 44 57 10.1038/nprot.2008.211 19131956
58. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. M Ashburner CA Ball JA Blake D Botstein H Butler JM Cherry AP Davis K Dolinski SS Dwight JT Eppig,, et al. Nat Genet 2000 25 1 25 29 10.1038/75556 10802651
59. KEGG: kyoto encyclopedia of genes and genomes. M Kanehisa S Goto, Nucleic Acids Res 2000 28 1 27 30 10.1093/nar/28.1.27 10592173 (Pubitemid 30047706)