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Rapid and Recent Evolution of LTR Retrotransposons Drives Rice Genome Evolution During the Speciation of AA-Genome Oryza Species

文献类型：期刊论文

作者Zhang, Qun-Jie1,2,3; Gao, Li-Zhi1
刊名G3-GENES GENOMES GENETICS
出版日期2017-06-01
卷号7页码:1875-1885
关键词Ltr Retrotransposons Oryza Aa-genome Rice Speciation Comparative Genomics
DOI10.1534/g3.116.037572
文献子类Article
英文摘要The dynamics of long terminal repeat (LTR) retrotransposons and their contribution to genome evolution during plant speciation have remained largely unanswered. Here, we perform a genome-wide comparison of all eight Oryza AA-genome species, and identify 3911 intact LTR retrotransposons classified into 790 families. The top 44 most abundant LTR retrotransposon families show patterns of rapid and distinct diversification since the species split over the last similar to 4.8 MY (million years). Phylogenetic and read depth analyses of 11 representative retrotransposon families further provide a comprehensive evolutionary landscape of these changes. Compared with Ty1-copia, independent bursts of Ty3-gypsy retrotransposon expansions have occurred with the three largest showing signatures of lineage-specific evolution. The estimated insertion times of 2213 complete retrotransposons from the top 23 most abundant families reveal divergent life histories marked by speedy accumulation, decline, and extinction that differed radically between species. We hypothesize that this rapid evolution of LTR retrotransposons not only divergently shaped the architecture of rice genomes but also contributed to the process of speciation and diversification of rice.
WOS关键词EUKARYOTIC TRANSPOSABLE ELEMENTS ; UNIFIED CLASSIFICATION-SYSTEM ; GENUS ORYZA ; DNA LOSS ; PHYLOGENETIC-RELATIONSHIPS ; REPETITIVE SEQUENCES ; FLOWERING PLANTS ; REPBASE UPDATE ; NUCLEAR GENES ; CD-HIT
WOS研究方向Genetics & Heredity
语种英语
WOS记录号WOS:000403075000024
资助机构Project of Innovation Team of Yunnan Province ; Top Talents Program of Yunnan Province(20080A009) ; Hundred Oversea Talents Program of Yunnan Province ; Natural Science Foundation of Yunnan Province(2010CC011) ; Hundred Talents Program of the Chinese Academy of Sciences
源URL[http://ir.kib.ac.cn/handle/151853/51361]  
专题昆明植物研究所_中国西南野生生物种质资源库
作者单位1.Chinese Acad Sci, Kunming Inst Bot, Plant Germplasm & Genom Ctr, Kunming 650204, Peoples R China
2.Univ Chinese Acad Sci, Beijing 100039, Peoples R China
3.Guangdong Acad Agr Sci, Agrobiol Gene Res Ctr, Guangzhou 510640, Guangdong, Peoples R China
推荐引用方式
GB/T 7714		 Zhang, Qun-Jie,Gao, Li-Zhi. Rapid and Recent Evolution of LTR Retrotransposons Drives Rice Genome Evolution During the Speciation of AA-Genome Oryza Species[J]. G3-GENES GENOMES GENETICS,2017,7:1875-1885.
APA Zhang, Qun-Jie,&Gao, Li-Zhi.(2017).Rapid and Recent Evolution of LTR Retrotransposons Drives Rice Genome Evolution During the Speciation of AA-Genome Oryza Species.G3-GENES GENOMES GENETICS,7,1875-1885.
MLA Zhang, Qun-Jie,et al."Rapid and Recent Evolution of LTR Retrotransposons Drives Rice Genome Evolution During the Speciation of AA-Genome Oryza Species".G3-GENES GENOMES GENETICS 7(2017):1875-1885.

入库方式： OAI收割

来源：昆明植物研究所

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