Journal article

Screening ethnically diverse human embryonic stem cells identifies a chromosome 20 minimal amplicon conferring growth advantage

Katherine Amps, Peter W Andrews, George Anyfantis, Lyle Armstrong, Stuart Avery, Hossein Baharvand, Julie Baker, Duncan Baker, Maria B Munoz, Stephen Beil, Nissim Benvenisty, Dalit Ben-Yosef, Juan-Carlos Biancotti, Alexis Bosman, Romulo Martin Brena, Daniel Brison, Gunilla Caisander, Maria V Camarasa, Jieming Chen, Eric Chiao Show all

Nature Biotechnology | NATURE PUBLISHING GROUP | Published : 2011

Abstract

The International Stem Cell Initiative analyzed 125 human embryonic stem (ES) cell lines and 11 induced pluripotent stem (iPS) cell lines, from 38 laboratories worldwide, for genetic changes occurring during culture. Most lines were analyzed at an early and late passage. Single-nucleotide polymorphism (SNP) analysis revealed that they included representatives of most major ethnic groups. Most lines remained karyotypically normal, but there was a progressive tendency to acquire changes on prolonged culture, commonly affecting chromosomes 1, 12, 17 and 20. DNA methylation patterns changed haphazardly with no link to time in culture. Structural variants, determined from the SNP arrays, also app..

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Grants

Awarded by Ministry of Science and Technology of China


Awarded by Swiss National Science Foundation


Awarded by Netherlands Proteomics Consortium


Awarded by Academy of Finland


Awarded by National Health and Medical Research Council (NHMRC)


Awarded by Tampere University Hospital


Awarded by Biotechnology and Biological Sciences Research Council


Awarded by British Heart Foundation


Awarded by Medical Research Council


Awarded by NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES


Awarded by Grants-in-Aid for Scientific Research


Funding Acknowledgements

The International Stem Cell Initiative is funded by The International Stem Cell Forum. The authors would like to acknowledge the following: Medical Research Council, UK (P. W. A., H. M.); Mohammad Pakzad & Adeleh Taei, Royan Institute (H. B., G. H. S.); California Institute for Regenerative Medicine (CIRM) (E. C., P. W. L.); Institute of Medical Biology, A<SUP>star</SUP>STAR, Singapore (J.M.C.); Ministry of Education, Youth and Sports of the Czech Republic (P. D., A. H.); Stem Cell Research Center of the 21st Century Frontier Research Program, Ministry of Education, Science & Technology, Republic of Korea (SC-1140) (D. R. L., S.K.O.); Ministry of Science and Technology of China (863 program 2006AA02A102) (L. G.); Swedish Research Council, Cellartis (O.H.); Department of Biotechnology, Government of India, UK-India Education and Research Initiative and the Jawaharlal Nehru Centre for Advanced Scientific Research, Bangalore, India (M. I.); Program for Promotion of Fundamental Studies in Health Sciences of the National Institute of Biomedical Innovation, Leading Project of the Ministry of Education, Culture, Sports, Science and Technology (MEXT), Funding Program for World-Leading Innovative R&D on Science and Technology (FIRST Program) of the Japan Society for the Promotion of Science (JSPS), Grants in-Aid for Scientific Research of JSPS and MEXT (T. I., S.Y., K. T.); Swiss National Science Foundation (grant no. 4046-114410) (M.J.); Shanghai Science and Technology Developmental Foundation (06DJ14001), Chinese Ministry of Science and Technology (2007CB948004) (Y.J.); funding from the North West Science Fund, UK (S. K.); One North East Regional Developmental Agency, Medical Research Council, UK, Newcastle University (M. L.); research funding from the Australian Stem Cell Centre (A. L. L.); The Netherlands Proteomics Consortium grant T4-3 (C. M.); Stem Cell Network, Canada (A.N.); National BioResource Project, MEXT, Japan (N.N.); Singapore Stem Cell Consortium (SSCC) & the Agency for Science Technology and Research (A<SUP>star</SUP>STAR) (S. K. W.O., P. R.) and the Genome Institute of Singapore Core Genotyping Lab (P. R.); Academy of Finland, Sigrid Juselius Foundation (T.O.); Conselho Nacional de Desenvolvimento Cientifico e Tecnologico/Departamento de Ciencia e Tecnologia do Ministerio da Saude (CNPq/MS/DECIT), and Fundacao de Amparo a Pesquisa do Estado de Sao Paulo (FAPESP) (L. V. P.); supported by the kind donation of Judy and Sidney Swartz (B. R.); financial support from the Faculty of Medicine, University of New South Wales (UNSW) and the National Health and Medical Research Council (NHMRC) Program Grant no. 568969 (Perminder Sachdev), South Eastern Sydney and Illawarra Area Health Service (SEIAHS) for making hES cell line Endeavour-2 available for this study, and H. Chung and J. Kim for their help in preparing the samples (K. S.); Academy of Finland (grant 218050), the Competitive Research Funding of the Tampere University Hospital (grant 9F217) (H. Skottman).