| Item type |
学術雑誌論文 / Journal Article(1) |
| 公開日 |
2013-05-07 |
| タイトル |
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タイトル |
A high quality draft consensus sequence of the genome of a heterozygous grapevine variety |
| タイトル |
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タイトル |
A high quality draft consensus sequence of the genome of a heterozygous grapevine variety |
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言語 |
en |
| 言語 |
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言語 |
eng |
| 資源タイプ |
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資源タイプ識別子 |
http://purl.org/coar/resource_type/c_6501 |
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資源タイプ |
journal article |
| 著者 |
VELASCO , Riccardo
ZHARKIKH, Andrey
TROGGIO, Michela
FAWCETT, Jeffrey A
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| 著者別名 |
FAWCETT, Jeffrey A
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| 抄録 |
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内容記述タイプ |
Abstract |
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内容記述 |
Background. Worldwide, grapes and their derived products have a large market. The cultivated grape species Vitis vinifera has potential to become a model for fruit trees genetics. Like many plant species, it is highly heterozygous, which is an additional challenge to modern whole genome shotgun sequencing. In this paper a high quality draft genome sequence of a cultivated clone of V. vinifera Pinot Noir is presented. Principal Findings. We estimate the genome size of V. vinifera to be 504.6 Mb. Genomic sequences corresponding to 477.1 Mb were assembled in 2,093 metacontigs and 435.1 Mb were anchored to the 19 linkage groups (LGs). The number of predicted genes is 29,585, of which 96.1% were assigned to LGs. This assembly of the grape genome provides candidate genes implicated in traits relevant to grapevine cultivation, such as those influencing wine quality, via secondary metabolites, and those connected with the extreme susceptibility of grape to pathogens. Single nucleotide polymorphism (SNP) distribution was consistent with a diffuse haplotype structure across the genome. Of around 2,000,000 SNPs, 1,751,176 were mapped to chromosomes and one or more of them were identified in 86.7% of anchored genes. The relative age of grape duplicated genes was estimated and this made possible to reveal a relatively recent Vitisspecific large scale duplication event concerning at least 10 chromosomes (duplication not reported before). Conclusions. Sanger shotgun sequencing and highly efficient sequencing by synthesis (SBS), together with dedicated assembly programs, resolved a complex heterozygous genome. A consensus sequence of the genome and a set of mapped marker loci were generated. Homologous chromosomes of Pinot Noir differ by 11.2% of their DNA (hemizygous DNA plus chromosomal gaps). SNP markers are offered as a tool with the potential of introducing a new era in the molecular breeding of grape. |
| 書誌情報 |
PLoS ONE
en : PLoS ONE
巻 2,
号 12,
p. Article numbere1326,
発行日 2007-12-19
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| 出版者 |
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出版者 |
Public Library of Science |
| ISSN |
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収録物識別子タイプ |
ISSN |
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収録物識別子 |
19326203 |
| PubMed番号 |
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関連タイプ |
isIdenticalTo |
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識別子タイプ |
PMID |
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関連識別子 |
18094749 |
| DOI |
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関連タイプ |
isIdenticalTo |
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識別子タイプ |
DOI |
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関連識別子 |
https://doi.org/10.1002/cm.970180103 |
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関連名称 |
10.1371/journal.pone.0001326 |
| 権利 |
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権利情報 |
© 2007 Velasco et al. |
| 関連サイト |
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識別子タイプ |
URI |
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関連識別子 |
http://www.plos.org/about/open-access/license/ |
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関連名称 |
Copyright |
| フォーマット |
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内容記述タイプ |
Other |
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内容記述 |
application/pdf |
| 著者版フラグ |
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出版タイプ |
VoR |
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出版タイプResource |
http://purl.org/coar/version/c_970fb48d4fbd8a85 |
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