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Whole genomic DNA sequencing and comparative genomic analysis of Arthrospira platensis: high genome plasticity and genetic diversity
Xu, Teng1; Qin, Song2; Hu, Yongwu1,3; Song, Zhijian1; Ying, Jianchao1; Li, Peizhen1; Dong, Wei3; Zhao, Fangqing2; Yang, Huanming3,4; Bao, Qiyu1,3
2016-08-01
发表期刊DNA RESEARCH
卷号23期号:4页码:325-338
文章类型Article
摘要Arthrospira platensis is a multi-cellular and filamentous non-N2-fixing cyanobacterium that is capable of performing oxygenic photosynthesis. In this study, we determined the nearly complete genome sequence of A. platensis YZ. A. platensis YZ genome is a single, circular chromosome of 6.62Mb in size. Phylogenetic and comparative genomic analyses revealed that A. platensis YZ was more closely related to A. platensis NIES-39 than Arthrospira sp. PCC 8005 and A. platensis C1. Broad gene gains were identified between A. platensis YZ and three other Arthrospira speices, some of which have been previously demonstrated that can be laterally transferred among different species, such as restriction-modification systems-coding genes. Moreover, unprecedented extensive chromosomal rearrangements among different strains were observed. The chromosomal rearrangements, particularly the chromosomal inversions, were analysed and estimated to be closely related to palindromes that involved long inverted repeat sequences and the extensively distributed type IIR restriction enzyme in the Arthrospira genome. In addition, species from genus Arthrospira unanimously contained the highest rate of repetitive sequence compared with the other species of order Oscillatoriales, suggested that sequence duplication significantly contributed to Arthrospira genome phylogeny. These results provided in-depth views into the genomic phylogeny and structural variation of A. platensis, as well as provide a valuable resource for functional genomics studies.
关键词Evolution Lateral Gene Transfer Comparative Genomics Chromosomal Rearrangement
DOI10.1093/dnares/dsw023
收录类别SCI
语种英语
WOS记录号WOS:000384768700003
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文献类型期刊论文
版本出版稿
条目标识符http://ir.qdio.ac.cn/handle/337002/135848
专题实验海洋生物学重点实验室
作者单位1.Wenzhou Med Univ, Inst Biomed Informat, Sch Lab Med & Life Sci, Wenzhou 325035, Peoples R China
2.Chinese Acad Sci, Inst Oceanol, Qingdao 266071, Peoples R China
3.BGI Shenzhen, Shenzhen 518083, Peoples R China
4.Zhejiang Univ, James D Watson Inst Genome Sci, Hangzhou 310058, Zhejiang, Peoples R China
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Xu, Teng,Qin, Song,Hu, Yongwu,et al. Whole genomic DNA sequencing and comparative genomic analysis of Arthrospira platensis: high genome plasticity and genetic diversity[J]. DNA RESEARCH,2016,23(4):325-338.
APA Xu, Teng.,Qin, Song.,Hu, Yongwu.,Song, Zhijian.,Ying, Jianchao.,...&Bao, Qiyu.(2016).Whole genomic DNA sequencing and comparative genomic analysis of Arthrospira platensis: high genome plasticity and genetic diversity.DNA RESEARCH,23(4),325-338.
MLA Xu, Teng,et al."Whole genomic DNA sequencing and comparative genomic analysis of Arthrospira platensis: high genome plasticity and genetic diversity".DNA RESEARCH 23.4(2016):325-338.
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