Whole-genome sequencing and intensive analysis of the undomesticated soybean (Glycine soja Sieb. and Zucc.) genome

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dc.contributor.authorM Y Kim-
dc.contributor.authorSung Hoon Lee-
dc.contributor.authorK Van-
dc.contributor.authorT H Kim-
dc.contributor.authorSoon Chun Jeong-
dc.contributor.authorI Y Choi-
dc.contributor.authorDae Soo Kim-
dc.contributor.authorY S Lee-
dc.contributor.authorD Park-
dc.contributor.authorJ Ma-
dc.contributor.authorW Y Kim-
dc.contributor.authorB C Kim-
dc.contributor.authorSeongjin Park-
dc.contributor.authorK A Lee-
dc.contributor.authorD H Kim-
dc.contributor.authorK H KIm-
dc.contributor.authorJ H Shin-
dc.contributor.authorY E Jang-
dc.contributor.authorK D Kim-
dc.contributor.authorW X Liu-
dc.contributor.authorT Chaisan-
dc.contributor.authorY J Kang-
dc.contributor.authorY H Lee-
dc.contributor.authorK H Kim-
dc.contributor.authorJ K Moon-
dc.contributor.authorJ Schmutz-
dc.contributor.authorS A Jackson-
dc.contributor.authorJong Hwa Park-
dc.contributor.authorS H Lee-
dc.date.accessioned2017-04-19T09:21:09Z-
dc.date.available2017-04-19T09:21:09Z-
dc.date.issued2010-
dc.identifier.issn0027-8424-
dc.identifier.uri10.1073/pnas.1009526107ko
dc.identifier.urihttps://oak.kribb.re.kr/handle/201005/9927-
dc.description.abstractThe genome of soybean (Glycine max), a commercially important crop, has recently been sequenced and is one of six crop species to have been sequenced. Here we report the genome sequence of G. soja, the undomesticated ancestor of G. max (in particular, G. soja var. IT182932). The 48.8-Gb Illumina Genome Analyzer (Illumina-GA) short DNA reads were aligned to the G. max reference genome and a consensus was determined for G. soja. This consensus sequence spanned 915.4 Mb, representing a coverage of 97.65% of the G. max published genome sequence and an average mapping depth of 43-fold. The nucleotide sequence of the G. soja genome, which contains 2.5 Mb of substituted bases and 406 kb of small insertions/deletions relative to G. max, is ∼0.31% different from that of G. max. In addition to the mapped 915.4-Mb consensus sequence, 32.4 Mb of large deletions and 8.3 Mb of novel sequence contigs in the G. soja genome were also detected. Nucleotide variants of G. soja versus G. max confirmed by Roche Genome Sequencer FLX sequencing showed a 99.99% concordance in single-nucleotide polymorphism and a 98.82% agreement in insertion/deletion calls on Illumina-GA reads. Data presented in this study suggest that the G. soja/G. max complex may be at least 0.27 million y old, appearing before the relatively recent event of domestication (6, 000∼9, 000 y ago). This suggests that soybean domestication is complicated and that more in-depth study of population genetics is needed. In any case, genome comparison of domesticated and undomesticated forms of soybean can facilitate its improvement.-
dc.publisherNatl Acad Sciences-
dc.titleWhole-genome sequencing and intensive analysis of the undomesticated soybean (Glycine soja Sieb. and Zucc.) genome-
dc.title.alternativeWhole-genome sequencing and intensive analysis of the undomesticated soybean (Glycine soja Sieb. and Zucc.) genome-
dc.typeArticle-
dc.citation.titleProceedings of National Academy of Sciences of United States of America-
dc.citation.number51-
dc.citation.endPage22037-
dc.citation.startPage22032-
dc.citation.volume107-
dc.contributor.affiliatedAuthorSung Hoon Lee-
dc.contributor.affiliatedAuthorSoon Chun Jeong-
dc.contributor.affiliatedAuthorDae Soo Kim-
dc.contributor.affiliatedAuthorSeongjin Park-
dc.contributor.affiliatedAuthorJong Hwa Park-
dc.contributor.alternativeName김문영-
dc.contributor.alternativeName이성훈-
dc.contributor.alternativeName반규정-
dc.contributor.alternativeName김태형-
dc.contributor.alternativeName정순천-
dc.contributor.alternativeName최익영-
dc.contributor.alternativeName김대수-
dc.contributor.alternativeName이용석-
dc.contributor.alternativeName박대의-
dc.contributor.alternativeNameMa-
dc.contributor.alternativeName김우연-
dc.contributor.alternativeName김병철-
dc.contributor.alternativeName박성진-
dc.contributor.alternativeName이경아-
dc.contributor.alternativeName김동현-
dc.contributor.alternativeName김길현-
dc.contributor.alternativeName신진희-
dc.contributor.alternativeName장영은-
dc.contributor.alternativeName김경도-
dc.contributor.alternativeNameLiu-
dc.contributor.alternativeNameChaisan-
dc.contributor.alternativeName강양재-
dc.contributor.alternativeName이영호-
dc.contributor.alternativeName김국형-
dc.contributor.alternativeName문정경-
dc.contributor.alternativeNameSchmutz-
dc.contributor.alternativeNameJackson-
dc.contributor.alternativeName박종화-
dc.contributor.alternativeName이석하-
dc.identifier.bibliographicCitationProceedings of National Academy of Sciences of United States of America, vol. 107, no. 51, pp. 22032-22037-
dc.identifier.doi10.1073/pnas.1009526107-
dc.subject.keywordGenome duplication-
dc.subject.keywordMassively parallel sequencing-
dc.subject.keywordSequence variation-
dc.subject.keywordWild soybean divergence-
dc.subject.localGenome duplication-
dc.subject.localMassively parallel sequencing-
dc.subject.localmassively parallel sequencing-
dc.subject.localSequence variation-
dc.subject.localWild soybean divergence-
dc.description.journalClassY-
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