Literature DB >> 19892720

Genome 10K: a proposal to obtain whole-genome sequence for 10,000 vertebrate species.

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Abstract

The human genome project has been recently complemented by whole-genome assessment sequence of 32 mammals and 24 nonmammalian vertebrate species suitable for comparative genomic analyses. Here we anticipate a precipitous drop in costs and increase in sequencing efficiency, with concomitant development of improved annotation technology and, therefore, propose to create a collection of tissue and DNA specimens for 10,000 vertebrate species specifically designated for whole-genome sequencing in the very near future. For this purpose, we, the Genome 10K Community of Scientists (G10KCOS), will assemble and allocate a biospecimen collection of some 16,203 representative vertebrate species spanning evolutionary diversity across living mammals, birds, nonavian reptiles, amphibians, and fishes (ca. 60,000 living species). In this proposal, we present precise counts for these 16,203 individual species with specimens presently tagged and stipulated for DNA sequencing by the G10KCOS. DNA sequencing has ushered in a new era of investigation in the biological sciences, allowing us to embark for the first time on a truly comprehensive study of vertebrate evolution, the results of which will touch nearly every aspect of vertebrate biological enquiry.

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Year:  2009        PMID: 19892720      PMCID: PMC2877544          DOI: 10.1093/jhered/esp086

Source DB:  PubMed          Journal:  J Hered        ISSN: 0022-1503            Impact factor:   2.645


  61 in total

1.  Convergent adaptive radiations in Madagascan and Asian ranid frogs reveal covariation between larval and adult traits.

Authors:  F Bossuyt; M C Milinkovitch
Journal:  Proc Natl Acad Sci U S A       Date:  2000-06-06       Impact factor: 11.205

Review 2.  Genomics and conservation genetics.

Authors:  Michael H Kohn; William J Murphy; Elaine A Ostrander; Robert K Wayne
Journal:  Trends Ecol Evol       Date:  2006-09-05       Impact factor: 17.712

3.  Palaeontology: modern look for ancient lamprey.

Authors:  Philippe Janvier
Journal:  Nature       Date:  2006-10-26       Impact factor: 49.962

Review 4.  The locus of evolution: evo devo and the genetics of adaptation.

Authors:  Hopi E Hoekstra; Jerry A Coyne
Journal:  Evolution       Date:  2007-05       Impact factor: 3.694

Review 5.  Multilocus phylogeography and phylogenetics using sequence-based markers.

Authors:  Patrícia H Brito; Scott V Edwards
Journal:  Genetica       Date:  2008-07-24       Impact factor: 1.082

6.  The amphioxus genome illuminates vertebrate origins and cephalochordate biology.

Authors:  Linda Z Holland; Ricard Albalat; Kaoru Azumi; Elia Benito-Gutiérrez; Matthew J Blow; Marianne Bronner-Fraser; Frederic Brunet; Thomas Butts; Simona Candiani; Larry J Dishaw; David E K Ferrier; Jordi Garcia-Fernàndez; Jeremy J Gibson-Brown; Carmela Gissi; Adam Godzik; Finn Hallböök; Dan Hirose; Kazuyoshi Hosomichi; Tetsuro Ikuta; Hidetoshi Inoko; Masanori Kasahara; Jun Kasamatsu; Takeshi Kawashima; Ayuko Kimura; Masaaki Kobayashi; Zbynek Kozmik; Kaoru Kubokawa; Vincent Laudet; Gary W Litman; Alice C McHardy; Daniel Meulemans; Masaru Nonaka; Robert P Olinski; Zeev Pancer; Len A Pennacchio; Mario Pestarino; Jonathan P Rast; Isidore Rigoutsos; Marc Robinson-Rechavi; Graeme Roch; Hidetoshi Saiga; Yasunori Sasakura; Masanobu Satake; Yutaka Satou; Michael Schubert; Nancy Sherwood; Takashi Shiina; Naohito Takatori; Javier Tello; Pavel Vopalensky; Shuichi Wada; Anlong Xu; Yuzhen Ye; Keita Yoshida; Fumiko Yoshizaki; Jr-Kai Yu; Qing Zhang; Christian M Zmasek; Pieter J de Jong; Kazutoyo Osoegawa; Nicholas H Putnam; Daniel S Rokhsar; Noriyuki Satoh; Peter W H Holland
Journal:  Genome Res       Date:  2008-06-18       Impact factor: 9.043

7.  Early evolution of the venom system in lizards and snakes.

Authors:  Bryan G Fry; Nicolas Vidal; Janette A Norman; Freek J Vonk; Holger Scheib; S F Ryan Ramjan; Sanjaya Kuruppu; Kim Fung; S Blair Hedges; Michael K Richardson; Wayne C Hodgson; Vera Ignjatovic; Robyn Summerhayes; Elazar Kochva
Journal:  Nature       Date:  2005-11-16       Impact factor: 49.962

8.  The genetic basis of adaptive melanism in pocket mice.

Authors:  Michael W Nachman; Hopi E Hoekstra; Susan L D'Agostino
Journal:  Proc Natl Acad Sci U S A       Date:  2003-04-18       Impact factor: 11.205

9.  Induced pluripotent stem cells generated without viral integration.

Authors:  Matthias Stadtfeld; Masaki Nagaya; Jochen Utikal; Gordon Weir; Konrad Hochedlinger
Journal:  Science       Date:  2008-09-25       Impact factor: 47.728

10.  Human-induced changes in the reproductive traits of Lake Constance common whitefish (Coregonus lavaretus).

Authors:  G Thomas; H Quoss; J Hartmann; R Eckmann
Journal:  J Evol Biol       Date:  2009-01       Impact factor: 2.411

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  209 in total

Review 1.  Are some chromosomes particularly good at sex? Insights from amniotes.

Authors:  Denis O'Meally; Tariq Ezaz; Arthur Georges; Stephen D Sarre; Jennifer A Marshall Graves
Journal:  Chromosome Res       Date:  2012-01       Impact factor: 5.239

Review 2.  Chromosomal evolution in Rodentia.

Authors:  S A Romanenko; P L Perelman; V A Trifonov; A S Graphodatsky
Journal:  Heredity (Edinb)       Date:  2011-11-16       Impact factor: 3.821

3.  Foreword: sex and sex chromosomes--new clues from nonmodel species.

Authors:  Tariq Ezaz; Jennifer A Marshall Graves
Journal:  Chromosome Res       Date:  2012-01       Impact factor: 5.239

4.  Sequencing three crocodilian genomes to illuminate the evolution of archosaurs and amniotes.

Authors:  John A St John; Edward L Braun; Sally R Isberg; Lee G Miles; Amanda Y Chong; Jaime Gongora; Pauline Dalzell; Christopher Moran; Bertrand Bed'hom; Arkhat Abzhanov; Shane C Burgess; Amanda M Cooksey; Todd A Castoe; Nicholas G Crawford; Llewellyn D Densmore; Jennifer C Drew; Scott V Edwards; Brant C Faircloth; Matthew K Fujita; Matthew J Greenwold; Federico G Hoffmann; Jonathan M Howard; Taisen Iguchi; Daniel E Janes; Shahid Yar Khan; Satomi Kohno; Ap Jason de Koning; Stacey L Lance; Fiona M McCarthy; John E McCormack; Mark E Merchant; Daniel G Peterson; David D Pollock; Nader Pourmand; Brian J Raney; Kyria A Roessler; Jeremy R Sanford; Roger H Sawyer; Carl J Schmidt; Eric W Triplett; Tracey D Tuberville; Miryam Venegas-Anaya; Jason T Howard; Erich D Jarvis; Louis J Guillette; Travis C Glenn; Richard E Green; David A Ray
Journal:  Genome Biol       Date:  2012-01-31       Impact factor: 13.583

5.  Cretaceous avian crops reveal dietary secrets and pose evolutionary questions.

Authors:  Alan Feduccia
Journal:  Proc Natl Acad Sci U S A       Date:  2011-09-26       Impact factor: 11.205

6.  Paired de bruijn graphs: a novel approach for incorporating mate pair information into genome assemblers.

Authors:  Paul Medvedev; Son Pham; Mark Chaisson; Glenn Tesler; Pavel Pevzner
Journal:  J Comput Biol       Date:  2011-10-14       Impact factor: 1.479

Review 7.  Genomics and the future of conservation genetics.

Authors:  Fred W Allendorf; Paul A Hohenlohe; Gordon Luikart
Journal:  Nat Rev Genet       Date:  2010-10       Impact factor: 53.242

8.  Biodiversity: A standard for species.

Authors:  Thomas M Brooks; Kristofer M Helgen
Journal:  Nature       Date:  2010-09-30       Impact factor: 49.962

9.  RAD Capture (Rapture): Flexible and Efficient Sequence-Based Genotyping.

Authors:  Omar A Ali; Sean M O'Rourke; Stephen J Amish; Mariah H Meek; Gordon Luikart; Carson Jeffres; Michael R Miller
Journal:  Genetics       Date:  2015-12-29       Impact factor: 4.562

10.  Chromosome-level assembly of the mustache toad genome using third-generation DNA sequencing and Hi-C analysis.

Authors:  Yongxin Li; Yandong Ren; Dongru Zhang; Hui Jiang; Zhongkai Wang; Xueyan Li; Dingqi Rao
Journal:  Gigascience       Date:  2019-09-01       Impact factor: 6.524

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