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Evolutionary Transients in the Rice Transcriptome

ISSN号：1672-0229
期刊名称：《基因组蛋白质组与生物信息学报：英文版》
时间：0
分类：Q786[生物学—分子生物学] S511[农业科学—作物学]
作者机构：[1]Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100029, China, [2]Beijing Genomics Institute at Shenzhen, Shenzhen 518083, China, [3]Department of Biochemistry and Molecular Biology, University of Southern Denmark, DK-5230, Odense M, Denmark, [4]Theoretical Life Research Center, Fudan University, Shanghai 200433, China, [5]Computational Genomics Group, Department of Microbiology, University of Washington, Seattle, WA 98195, USA, [6]Computational Biology and Bioinformatics, Pacific Northwest National Laboratory, Richland, WA 99352, USA, [7]Department of Biological Sciences and Department of Medicine, University of Alberta, Edmonton AB, T6G 2E9, Canada
相关基金：supported by Chinese Academy of Sciences （Grants No. GJHZ0701-6 and KSCX2-YWN-023）; National Natural Science Foundation of China （Grants No. 30725008 90403130 90608010 30221004 90612019 and 30392130）; the “973” Program （Grants No. 2006CB910400 2007CB815701 2007CB815703 and 2007CB815705）; the “863” Program （Grants No. 2006AA02Z334 2006AA10A121 and 2006AA02Z177）; Beijing Municipal Science and Technology Commission （Grant No. D07030200740000）; Danish Platform for Integrative Biology Danish Natural Science Research Council Danish Research Council the Solexa Project （Grant No. 272-07-0196）; National Science Foundation of USA （Grant No. DBI 0217241）

作者： Jun Wang[1,2,3], Jianguo Zhang[4], Ruiqiang Li[2,3], Hongkun Zheng[2,3], Jun Li[2], Yong Zhang[2], Heng Li[2], Peixiang Ni[2], Songgang Li[2], Shengting Li[2], Jingqiang Wang[1], Dongyuan Liu[1], Jason McDermott[5,6], Ram Samudrala[5], Siqi Liu[1,2], Jian Wang[1,2], Huanming Yang[1,2], Jun Yu[1], Gane Ka-Shu Wong[1,2,7]

关键词：水稻基因, 转录组, 进化, 瞬变, 基因复制, 双子叶植物, 核心基因, 测试案例, evolutionary transients, rice, gene duplication

中文摘要：

在由基因复制的进化的正规版本，当其它是自由的演变时，一个拷贝被使未改变。进化试验的这个过程能坚持百万年。因为它那么突然与完成大多数染色体的多数的核心基因的一生相比被过，染色体和对我们将叫作进化 transients 的可归因的 transcriptome mayin principlebe 的实质的部分，这里参考去了或正在经历这个过程的过程和基因。用作为一个测试用例设置的米饭基因，我们主张这现象向解释为什么比 Arabidopsis 基因有那么多米饭基因，并且过量米饭基因为什么最显示出低类似到 eudicots 走得很远。

英文摘要：

In the canonical version of evolution by gene duplication, one copy is kept unaltered while the other is free to evolve. This process of evolutionary experimentation can persist for millions of years. Since it is so short lived in comparison to the lifetime of the core genes that make up the majority of most genomes, a substantial fraction of the genome and the transcriptome may—in principle—be attributable to what we will refer to as ＂evolutionary transients＂, referring here to both the process and the genes that have gone or are undergoing this process. Using the rice gene set as a test case, we argue that this phenomenon goes a long way towards explaining why there are so many more rice genes than Arabidopsis genes, and why most excess rice genes show low similarity to eudicots.

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