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

Publication ,  Journal Article
International Stem Cell Initiative; Amps, K; Andrews, PW; Anyfantis, G; Armstrong, L; Avery, S; Baharvand, H; Baker, J; Baker, D; Munoz, MB ...
Published in: Nature biotechnology
November 2011

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 appeared sporadically. No common variants related to culture were observed on chromosomes 1, 12 and 17, but a minimal amplicon in chromosome 20q11.21, including three genes expressed in human ES cells, ID1, BCL2L1 and HM13, occurred in >20% of the lines. Of these genes, BCL2L1 is a strong candidate for driving culture adaptation of ES cells.

Duke Scholars

Published In

Nature biotechnology

DOI

EISSN

1546-1696

ISSN

1087-0156

Publication Date

November 2011

Volume

29

Issue

12

Start / End Page

1132 / 1144

Related Subject Headings

  • bcl-X Protein
  • Selection, Genetic
  • RNA-Binding Proteins
  • Polymorphism, Single Nucleotide
  • Inhibitor of Differentiation Protein 1
  • Induced Pluripotent Stem Cells
  • Humans
  • Growth
  • Genotype
  • Genetic Variation
 

Citation

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International Stem Cell Initiative, Amps, K., Andrews, P. W., Anyfantis, G., Armstrong, L., Avery, S., … Zhou, Q. (2011). Screening ethnically diverse human embryonic stem cells identifies a chromosome 20 minimal amplicon conferring growth advantage. Nature Biotechnology, 29(12), 1132–1144. https://doi.org/10.1038/nbt.2051
International Stem Cell Initiative, Katherine Amps, Peter W. Andrews, George Anyfantis, Lyle Armstrong, Stuart Avery, Hossein Baharvand, et al. “Screening ethnically diverse human embryonic stem cells identifies a chromosome 20 minimal amplicon conferring growth advantage.Nature Biotechnology 29, no. 12 (November 2011): 1132–44. https://doi.org/10.1038/nbt.2051.
International Stem Cell Initiative, Amps K, Andrews PW, Anyfantis G, Armstrong L, Avery S, et al. Screening ethnically diverse human embryonic stem cells identifies a chromosome 20 minimal amplicon conferring growth advantage. Nature biotechnology. 2011 Nov;29(12):1132–44.
International Stem Cell Initiative, et al. “Screening ethnically diverse human embryonic stem cells identifies a chromosome 20 minimal amplicon conferring growth advantage.Nature Biotechnology, vol. 29, no. 12, Nov. 2011, pp. 1132–44. Epmc, doi:10.1038/nbt.2051.
International Stem Cell Initiative, Amps K, Andrews PW, Anyfantis G, Armstrong L, Avery S, Baharvand H, Baker J, Baker D, Munoz MB, Beil S, Benvenisty N, Ben-Yosef D, Biancotti J-C, Bosman A, Brena RM, Brison D, Caisander G, Camarasa MV, Chen J, Chiao E, Choi YM, Choo ABH, Collins D, Colman A, Crook JM, Daley GQ, Dalton A, De Sousa PA, Denning C, Downie J, Dvorak P, Montgomery KD, Feki A, Ford A, Fox V, Fraga AM, Frumkin T, Ge L, Gokhale PJ, Golan-Lev T, Gourabi H, Gropp M, Lu G, Hampl A, Harron K, Healy L, Herath W, Holm F, Hovatta O, Hyllner J, Inamdar MS, Irwanto AK, Ishii T, Jaconi M, Jin Y, Kimber S, Kiselev S, Knowles BB, Kopper O, Kukharenko V, Kuliev A, Lagarkova MA, Laird PW, Lako M, Laslett AL, Lavon N, Lee DR, Lee JE, Li C, Lim LS, Ludwig TE, Ma Y, Maltby E, Mateizel I, Mayshar Y, Mileikovsky M, Minger SL, Miyazaki T, Moon SY, Moore H, Mummery C, Nagy A, Nakatsuji N, Narwani K, Oh SKW, Oh SK, Olson C, Otonkoski T, Pan F, Park I-H, Pells S, Pera MF, Pereira LV, Qi O, Raj GS, Reubinoff B, Robins A, Robson P, Rossant J, Salekdeh GH, Schulz TC, Sermon K, Sheik Mohamed J, Shen H, Sherrer E, Sidhu K, Sivarajah S, Skottman H, Spits C, Stacey GN, Strehl R, Strelchenko N, Suemori H, Sun B, Suuronen R, Takahashi K, Tuuri T, Venu P, Verlinsky Y, Ward-van Oostwaard D, Weisenberger DJ, Wu Y, Yamanaka S, Young L, Zhou Q. Screening ethnically diverse human embryonic stem cells identifies a chromosome 20 minimal amplicon conferring growth advantage. Nature biotechnology. 2011 Nov;29(12):1132–1144.

Published In

Nature biotechnology

DOI

EISSN

1546-1696

ISSN

1087-0156

Publication Date

November 2011

Volume

29

Issue

12

Start / End Page

1132 / 1144

Related Subject Headings

  • bcl-X Protein
  • Selection, Genetic
  • RNA-Binding Proteins
  • Polymorphism, Single Nucleotide
  • Inhibitor of Differentiation Protein 1
  • Induced Pluripotent Stem Cells
  • Humans
  • Growth
  • Genotype
  • Genetic Variation