气候变化领域集成服务门户(CCPortal): Analysis of collinear regions of Oryza AA and CC genomes

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DOI	10.1016/S1673-8527(08)60159-9
	Analysis of collinear regions of Oryza AA and CC genomes
	Feng, Qi; Huang, Tao; Zhao, Qiang; Zhu, Jingjie; Lin, Zhixin; Han, Bin
发表日期	2009
ISSN	1673-8527
EISSN	1873-5533
卷号	36 期号:11
英文摘要	Comparative analyses of genome structure and sequence of closely related species have yielded insights into the evolution and function of plant genomes. A total of 103,844 BAC end sequences delegated similar to 73.8 Mb of O. officinalis that belongs to the CC genome type of the rice genus Oryza were obtained and compared with the genome sequences of rice cultivar, O. sativa ssp. japonica cv. Nipponbare. We found that more than 45% of O. officinalis genome consists of repeat sequences, which is higher than that of Nipponbare cultivar. To further investigate the evolutionary divergence of AA and CC genomes, two BAC-contigs of O. officinalis were compared with the collinear genomic regions of Nipponbare. Of 57 genes predicted in the AA genome orthologous regions, 39 had orthologs in the regions of the CC genome. Alignment of the orthologous regions indicated that the CC genome has undergone expansion in both genic and intergenic regions through primarily retroelement insertion. Particularly, the density of RNA transposable elements was 17.95% and 1.78% in O. officinalis and O. sativa, respectively. This explains why the orthologous region is about 100 kb longer in the CC genome in comparison to the AA genome.
关键词	Oryza sativa Oryza officinalis retroelement orthologous
学科领域	Biochemistry & Molecular Biology; Genetics & Heredity
语种	英语
WOS研究方向	Biochemistry & Molecular Biology ; Genetics & Heredity
来源期刊	JOURNAL OF GENETICS AND GENOMICS
来源机构	中国科学院西北生态环境资源研究院
文献类型	期刊论文
条目标识符	http://gcip.llas.ac.cn/handle/2XKMVOVA/111558
作者单位	Chinese Acad Sci, Shanghai Inst Biol Sci, Natl Ctr Gene Res, Shanghai 200233, Peoples R China
推荐引用方式 GB/T 7714	Feng, Qi,Huang, Tao,Zhao, Qiang,et al. Analysis of collinear regions of Oryza AA and CC genomes[J]. 中国科学院西北生态环境资源研究院,2009,36(11).
APA	Feng, Qi,Huang, Tao,Zhao, Qiang,Zhu, Jingjie,Lin, Zhixin,&Han, Bin.(2009).Analysis of collinear regions of Oryza AA and CC genomes.JOURNAL OF GENETICS AND GENOMICS,36(11).
MLA	Feng, Qi,et al."Analysis of collinear regions of Oryza AA and CC genomes".JOURNAL OF GENETICS AND GENOMICS 36.11(2009).