ITP OpenIR  > 1978-2010年知识产出
The Genomes of Oryza sativa: A history of duplications
Yu, J; Wang, J; Lin, W; Li, SG; Li, H; Zhou, J; Ni, PX; Dong, W; Hu, SN; Zeng, CQ; Zhang, JG; Zhang, Y; Li, RQ; Xu, ZY; Li, ST; Li, XR; Zheng, HK; Cong, LJ; Lin, L; Yin, JN; Geng, JN; Li, GY; Shi, JP; Liu, J; Lv, H; Li, J; Deng, YJ; Ran, LH; Shi, XL; Wang, XY; Wu, QF; Li, CF; Ren, XY; Wang, JQ; Wang, XL; Li, DW; Liu, DY; Zhang, XW; Ji, ZD; Zhao, WM; Sun, YQ; Zhang, ZP; Bao, JY; Han, YJ; Dong, LL; Ji, J; Chen, P; Wu, SM; Liu, JS; Xiao, Y; Bu, DB; Tan, JL; Yang, L; Ye, C; Zhang, JF; Xu, JY; Zhou, Y; Yu, YP; Zhang, B; Zhuang, SL; Wei, HB; Liu, B; Lei, M; Yu, H; Li, YZ; Xu, H; Wei, SL; He, XM; Fang, LJ; Zhang, ZJ; Zhang, YZ; Huang, XG; Su, ZX; Tong, W; Li, JH; Tong, ZZ; Li, SL; Ye, J; Wang, LS; Fang, L; Lei, TT; Chen, C; Chen, H; Xu, Z; Li, HH; Huang, HY; Zhang, F; Xu, HY; Li, N; Zhao, CF; Dong, LJ; Huang, YQ; Li, L; Xi, Y; Qi, QH; Li, WJ; Hu, W; Zhang, YL; Tian, XJ; Jiao, YZ; Liang, XH; Jin, JA; Gao, L; Zheng, WM; Hao, BL; Liu, SQ; Wang, W; Yuan, LP; Cao, ML; McDermott, J; Samudrala, R; Wong, GKS; Yang, HM; Yu, J , Chinese Acad Sci, Beijing Genom Inst, Beijing Proteom Inst, Beijing Inst Genom, Beijing, Peoples R China.
2005
发表期刊PLOS BIOLOGY
ISSN1544-9173
卷号3期号:2页码:266-281
摘要We report improved whole-genome shotgun sequences for the genomes of indica and japonica rice, both with multimegabase contiguity, or almost 1,000-fold improvement over the drafts of 2002. Tested against a nonredundant collection of 19,079 full-length cDNAs, 97.7% of the genes are aligned, without fragmentation, to the mapped superscaffolds of one or the other genome. We introduce a gene identification procedure for plants that does not rely on similarity to known genes to remove erroneous predictions resulting from transposable elements. Using the available EST data to adjust for residual errors in the predictions, the estimated gene count is at least 38,000 - 40,000. Only 2% - 3% of the genes are unique to any one subspecies, comparable to the amount of sequence that might still be missing. Despite this lack of variation in gene content, there is enormous variation in the intergenic regions. At least a quarter of the two sequences could not be aligned, and where they could be aligned, single nucleotide polymorphism ( SNP) rates varied from as little as 3.0 SNP/kb in the coding regions to 27.6 SNP/kb in the transposable elements. A more inclusive new approach for analyzing duplication history is introduced here. It reveals an ancient whole-genome duplication, a recent segmental duplication on Chromosomes 11 and 12, and massive ongoing individual gene duplications. We find 18 distinct pairs of duplicated segments that cover 65.7% of the genome; 17 of these pairs date back to a common time before the divergence of the grasses. More important, ongoing individual gene duplications provide a never-ending source of raw material for gene genesis and are major contributors to the differences between members of the grass family.
部门归属Chinese Acad Sci, Beijing Genom Inst, Beijing Proteom Inst, Beijing Inst Genom, Beijing, Peoples R China; Zhejiang Univ, James D Watson Inst Genome Sci, Hangzhou Genom Inst, Key Lab Genom Bioinformat Zhehiang Prov, Hangzhou 310027, Peoples R China; Peking Univ, Coll Life Sci, Beijing 100871, Peoples R China; Chinese Acad Sci, Inst Theoret Phys, Beijing 100080, Peoples R China; Beijing N Computat Ctr, Beijing, Peoples R China; Chinese Acad Sci, Bioinformat Lab, Comp Technol Inst, Beijing, Peoples R China; Beijing Normal Univ, Coll MAth Sci, Dept Stat & Financial Math, Beijing, Peoples R China; Chinese Acad Sci, Kunming Inst Zool, Kunming, Peoples R China; Natl Hybrid Rice R&D Ctr, Changsha, Peoples R China; Univ Washington, Dept Microbiol, Computat Genom Grp, Seattle, WA 98195 USA; Univ Washington, UW Genome Ctr, Dept Med, Seattle, WA 98195 USA
关键词Rice Genome Arabidopsis-thaliana Sequence-analysis Protein Networks Draft Sequence Plant Genomes Genes Evolution Dna Annotation
学科领域Physics
URL查看原文
收录类别SCI
WOS记录号WOS:000227404100011
引用统计
被引频次:521[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.itp.ac.cn/handle/311006/13892
专题1978-2010年知识产出
通讯作者Yu, J , Chinese Acad Sci, Beijing Genom Inst, Beijing Proteom Inst, Beijing Inst Genom, Beijing, Peoples R China.
推荐引用方式
GB/T 7714
Yu, J,Wang, J,Lin, W,et al. The Genomes of Oryza sativa: A history of duplications[J]. PLOS BIOLOGY,2005,3(2):266-281.
APA Yu, J.,Wang, J.,Lin, W.,Li, SG.,Li, H.,...&Yu, J , Chinese Acad Sci, Beijing Genom Inst, Beijing Proteom Inst, Beijing Inst Genom, Beijing, Peoples R China..(2005).The Genomes of Oryza sativa: A history of duplications.PLOS BIOLOGY,3(2),266-281.
MLA Yu, J,et al."The Genomes of Oryza sativa: A history of duplications".PLOS BIOLOGY 3.2(2005):266-281.
条目包含的文件
文件名称/大小 文献类型 版本类型 开放类型 使用许可
A History of Duplica(761KB) 开放获取使用许可请求全文
个性服务
推荐该条目
保存到收藏夹
查看访问统计
导出为Endnote文件
谷歌学术
谷歌学术中相似的文章
[Yu, J]的文章
[Wang, J]的文章
[Lin, W]的文章
百度学术
百度学术中相似的文章
[Yu, J]的文章
[Wang, J]的文章
[Lin, W]的文章
必应学术
必应学术中相似的文章
[Yu, J]的文章
[Wang, J]的文章
[Lin, W]的文章
相关权益政策
暂无数据
收藏/分享
所有评论 (0)
暂无评论
 

除非特别说明,本系统中所有内容都受版权保护,并保留所有权利。