气候变化领域集成服务门户(CCPortal): A collection of 10,096 indica rice full-length cDNAs reveals highly expressed sequence divergence between Oryza sativa indica and japonica subspecies

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DOI	10.1007/s11103-007-9174-7
	A collection of 10,096 indica rice full-length cDNAs reveals highly expressed sequence divergence between Oryza sativa indica and japonica subspecies
	Liu, Xiaohui; Lu, Tingting; Yu, Shuliang; Li, Ying; Huang, Yuchen; Huang, Tao; Zhang, Lei; Zhu, Jingjie; Zhao, Qiang; Fan, Danlin; Mu, Jie; Shangguan, Yingying; Feng, Qi; Guan, Jianping; Ying, Kai; Zhang, Yu; Lin, Zhixin; Sun, Zongxiu; Qian, Qian; Lu, Yuping; Han, Bin
发表日期	2007
ISSN	0167-4412
卷号	65 期号:4
英文摘要	Relatively few indica rice full-length cDNAs were available to aid in the annotation of rice genes. The data presented here described the sequencing and analysis of 10,096 full-length cDNAs from Oryza sativa subspecies indica Guangluai 4. Of them, 9,029 matched rice genomic sequences in publicly-available databases, and 1,200 were identified as new rice genes. Comparison with the knowledge-based Oryza Molecular Biological Encyclopedia japonica cDNA collection indicated that 3,316 (41.6%) of the 7,965 indica-japonica cDNA pairs showed no distinct variations at protein level (2,117 indica-japonica cDNA pairs showed fully identical and 1,199 indica-japonica cDNA pairs showed no frame shift). Moreover, 3,645 (45.8%) of the indica-japonica pairs showed substantial differences at the protein level due to single nucleotide polymorphisms (SNPs), insertions or deletions, and sequence-segment variations between indica and japonica subspecies. Further experimental verifications using PCR screening and quantitative reverse transcriptional PCR revealed unique transcripts for indica subspecies. Comparative analysis also showed that most of rice genes were evolved under purifying selection. These variations might distinguish the phenotypic changes of the two cultivated rice subspecies indica and japonica. Analysis of these cDNAs extends known rice genes and identifies new ones in rice.
关键词	comparative analysis full-length cDNA Indica and japonica rice Oryza sativa transcriptome
学科领域	Biochemistry & Molecular Biology; Plant Sciences
语种	英语
WOS研究方向	Biochemistry & Molecular Biology ; Plant Sciences
来源期刊	PLANT MOLECULAR BIOLOGY
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/111503
推荐引用方式 GB/T 7714	Liu, Xiaohui,Lu, Tingting,Yu, Shuliang,et al. A collection of 10,096 indica rice full-length cDNAs reveals highly expressed sequence divergence between Oryza sativa indica and japonica subspecies[J]. 中国科学院西北生态环境资源研究院,2007,65(4).
APA	Liu, Xiaohui.,Lu, Tingting.,Yu, Shuliang.,Li, Ying.,Huang, Yuchen.,...&Han, Bin.(2007).A collection of 10,096 indica rice full-length cDNAs reveals highly expressed sequence divergence between Oryza sativa indica and japonica subspecies.PLANT MOLECULAR BIOLOGY,65(4).
MLA	Liu, Xiaohui,et al."A collection of 10,096 indica rice full-length cDNAs reveals highly expressed sequence divergence between Oryza sativa indica and japonica subspecies".PLANT MOLECULAR BIOLOGY 65.4(2007).