The Genome 10K Project: A Way Forward

Klaus-Peter Koepfli, Benedict Paten, Agostinho Antunes, Katherine Belov, Carlos Bustamante, Todd Castoe, Hiram Clawson, Andrew Crawford, Mark Diekhans, Dan Distel, Richard Durbin, Dent Earl, Matthew Fujita, Tony Gamble, Arthur GEORGES, Neil Gemmell, Thomas Gilbert, Jennifer Marshall Graves, Richard Green, Glenn Hickey & 25 others Erich Jarvis, Warren Johnson, Aleksey Komissarov, Ian Korf, Robert Kuhn, Denis Larkin, Harris Lewin, Jose Lopez, Jian Ma, Tomas Marques-Bonet, Webb Miller, Robert Murphy, Pavel Pevzner, Beth Shapiro, Cynthia Steiner, Gaik Tamazian, Byrappa Venkatesh, Jun Wang, Robert Wayne, Edward Wiley, Huanming Yang, Guojie Zhang, David Haussler, Oliver Ryder, Stephen O’Brien

    Research output: Contribution to journalArticle

    115 Citations (Scopus)

    Abstract

    The Genome 10K Project was established in 2009 by a consortium of biologists and genome scientists determined to facilitate the sequencing and analysis of the complete genomes of 10,000 vertebrate species. Since then the number of selected and initiated species has risen from ~26 to 277 sequenced or ongoing with funding, an approximately tenfold increase in five years. Here we summarize the advances and commitments that have occurred by mid-2014 and outline the achievements and present challenges of reaching the 10,000-species goal. We summarize the status of known vertebrate genome projects, recommend standards for pronouncing a genome as sequenced or completed, and provide our present and future vision of the landscape of Genome 10K. The endeavor is ambitious, bold, expensive, and uncertain, but together the Genome 10K Consortium of Scientists and the worldwide genomics community are moving toward their goal of delivering to the coming generation the gift of genome empowerment for many vertebrate species.
    Original languageEnglish
    Pages (from-to)57-111
    Number of pages55
    JournalAnnual Review of Animal Biosciences
    Volume3
    Issue number1
    DOIs
    Publication statusPublished - 2015

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    Koepfli, K-P., Paten, B., Antunes, A., Belov, K., Bustamante, C., Castoe, T., ... O’Brien, S. (2015). The Genome 10K Project: A Way Forward. Annual Review of Animal Biosciences, 3(1), 57-111. https://doi.org/10.1146/annurev-animal-090414-014900
    Koepfli, Klaus-Peter ; Paten, Benedict ; Antunes, Agostinho ; Belov, Katherine ; Bustamante, Carlos ; Castoe, Todd ; Clawson, Hiram ; Crawford, Andrew ; Diekhans, Mark ; Distel, Dan ; Durbin, Richard ; Earl, Dent ; Fujita, Matthew ; Gamble, Tony ; GEORGES, Arthur ; Gemmell, Neil ; Gilbert, Thomas ; Marshall Graves, Jennifer ; Green, Richard ; Hickey, Glenn ; Jarvis, Erich ; Johnson, Warren ; Komissarov, Aleksey ; Korf, Ian ; Kuhn, Robert ; Larkin, Denis ; Lewin, Harris ; Lopez, Jose ; Ma, Jian ; Marques-Bonet, Tomas ; Miller, Webb ; Murphy, Robert ; Pevzner, Pavel ; Shapiro, Beth ; Steiner, Cynthia ; Tamazian, Gaik ; Venkatesh, Byrappa ; Wang, Jun ; Wayne, Robert ; Wiley, Edward ; Yang, Huanming ; Zhang, Guojie ; Haussler, David ; Ryder, Oliver ; O’Brien, Stephen. / The Genome 10K Project: A Way Forward. In: Annual Review of Animal Biosciences. 2015 ; Vol. 3, No. 1. pp. 57-111.
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    abstract = "The Genome 10K Project was established in 2009 by a consortium of biologists and genome scientists determined to facilitate the sequencing and analysis of the complete genomes of 10,000 vertebrate species. Since then the number of selected and initiated species has risen from ~26 to 277 sequenced or ongoing with funding, an approximately tenfold increase in five years. Here we summarize the advances and commitments that have occurred by mid-2014 and outline the achievements and present challenges of reaching the 10,000-species goal. We summarize the status of known vertebrate genome projects, recommend standards for pronouncing a genome as sequenced or completed, and provide our present and future vision of the landscape of Genome 10K. The endeavor is ambitious, bold, expensive, and uncertain, but together the Genome 10K Consortium of Scientists and the worldwide genomics community are moving toward their goal of delivering to the coming generation the gift of genome empowerment for many vertebrate species.",
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    Koepfli, K-P, Paten, B, Antunes, A, Belov, K, Bustamante, C, Castoe, T, Clawson, H, Crawford, A, Diekhans, M, Distel, D, Durbin, R, Earl, D, Fujita, M, Gamble, T, GEORGES, A, Gemmell, N, Gilbert, T, Marshall Graves, J, Green, R, Hickey, G, Jarvis, E, Johnson, W, Komissarov, A, Korf, I, Kuhn, R, Larkin, D, Lewin, H, Lopez, J, Ma, J, Marques-Bonet, T, Miller, W, Murphy, R, Pevzner, P, Shapiro, B, Steiner, C, Tamazian, G, Venkatesh, B, Wang, J, Wayne, R, Wiley, E, Yang, H, Zhang, G, Haussler, D, Ryder, O & O’Brien, S 2015, 'The Genome 10K Project: A Way Forward', Annual Review of Animal Biosciences, vol. 3, no. 1, pp. 57-111. https://doi.org/10.1146/annurev-animal-090414-014900

    The Genome 10K Project: A Way Forward. / Koepfli, Klaus-Peter; Paten, Benedict; Antunes, Agostinho; Belov, Katherine; Bustamante, Carlos; Castoe, Todd; Clawson, Hiram; Crawford, Andrew; Diekhans, Mark; Distel, Dan; Durbin, Richard; Earl, Dent; Fujita, Matthew; Gamble, Tony; GEORGES, Arthur; Gemmell, Neil; Gilbert, Thomas; Marshall Graves, Jennifer; Green, Richard; Hickey, Glenn; Jarvis, Erich; Johnson, Warren; Komissarov, Aleksey; Korf, Ian; Kuhn, Robert; Larkin, Denis; Lewin, Harris; Lopez, Jose; Ma, Jian; Marques-Bonet, Tomas; Miller, Webb; Murphy, Robert; Pevzner, Pavel; Shapiro, Beth; Steiner, Cynthia; Tamazian, Gaik; Venkatesh, Byrappa; Wang, Jun; Wayne, Robert; Wiley, Edward; Yang, Huanming; Zhang, Guojie; Haussler, David; Ryder, Oliver; O’Brien, Stephen.

    In: Annual Review of Animal Biosciences, Vol. 3, No. 1, 2015, p. 57-111.

    Research output: Contribution to journalArticle

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    AU - Green, Richard

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    AU - Tamazian, Gaik

    AU - Venkatesh, Byrappa

    AU - Wang, Jun

    AU - Wayne, Robert

    AU - Wiley, Edward

    AU - Yang, Huanming

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    KW - amphibian

    KW - reptile

    KW - bird

    KW - fish

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    Koepfli K-P, Paten B, Antunes A, Belov K, Bustamante C, Castoe T et al. The Genome 10K Project: A Way Forward. Annual Review of Animal Biosciences. 2015;3(1):57-111. https://doi.org/10.1146/annurev-animal-090414-014900