Chloroplast genome of one brown seaweed, Saccharina japonica (Laminariales, Phaeophyta): Its structural features and phylogenetic analyses with other photosynthetic plastids
文献类型：期刊论文
| 作者 | Wang, Xiuliang; Shao, Zhanru; Fu, Wandong; Yao, Jianting; Hu, Qiuping; Duan, Delin |
| 刊名 | MARINE GENOMICS
 |
| 出版日期 | 2013-06-01 |
| 卷号 | 10页码:1-9 |
| 关键词 | Photosynthetic heterokont Saccharina japonica Chloroplast Phylogenomic Molecular phylogenetics |
| ISSN号 | 1874-7787 |
| 通讯作者 | Duan, DL |
| 中文摘要 | The chloroplast genome sequence of one brown seaweed, Saccharina japonica, was fully determined. It is characterized by 130,584 base pairs (bp) with a large and a small single-copy region (LSC and SSC), separated by two copies of inverted repeats (IR1 and IR2). The inverted repeat is 5015 bp long, and the sizes of SSC and LSC are 43,174 bp and 77,378 bp, respectively. The chloroplast genome of S. japonica consists of 139 protein-coding genes, 29 tRNA genes, and 3 ribosomal RNA genes. One intron was found in one tRNA-Leu gene in the chloroplast genome of S. japonica. Four types of overlapping genes were identified, ycf24 overlapped with ycf16 by 4 nucleotides (nt), ftrB overlapped with ycf12 by 6 nt, rpl4 and rpl23 overlapped by 8 nt, finally, psbC overlapped with psbD by 53 tit With two sets of concatenated plastid protein data, 40-protein dataset and 26-protein dataset, the chloroplast phylogenetic relationship among S. japonica and the other photosynthetic species was evaluated. We found that the chloroplast genomes of haptophyte, cryptophyte and heterokont were not resolved into one cluster by the 40-protein dataset with amino acid composition bias, although it was recovered with strong support by the 26-protein dataset. (C) 2012 Elsevier B.V. All rights reserved. |
| 英文摘要 | The chloroplast genome sequence of one brown seaweed, Saccharina japonica, was fully determined. It is characterized by 130,584 base pairs (bp) with a large and a small single-copy region (LSC and SSC), separated by two copies of inverted repeats (IR1 and IR2). The inverted repeat is 5015 bp long, and the sizes of SSC and LSC are 43,174 bp and 77,378 bp, respectively. The chloroplast genome of S. japonica consists of 139 protein-coding genes, 29 tRNA genes, and 3 ribosomal RNA genes. One intron was found in one tRNA-Leu gene in the chloroplast genome of S. japonica. Four types of overlapping genes were identified, ycf24 overlapped with ycf16 by 4 nucleotides (nt), ftrB overlapped with ycf12 by 6 nt, rpl4 and rpl23 overlapped by 8 nt, finally, psbC overlapped with psbD by 53 tit With two sets of concatenated plastid protein data, 40-protein dataset and 26-protein dataset, the chloroplast phylogenetic relationship among S. japonica and the other photosynthetic species was evaluated. We found that the chloroplast genomes of haptophyte, cryptophyte and heterokont were not resolved into one cluster by the 40-protein dataset with amino acid composition bias, although it was recovered with strong support by the 26-protein dataset. (C) 2012 Elsevier B.V. All rights reserved. |
| WOS标题词 | Science & Technology ; Life Sciences & Biomedicine |
| 学科主题 | Genetics & Heredity ; Marine & Freshwater Biology |
| 类目[WOS] | Genetics & Heredity ; Marine & Freshwater Biology |
| 研究领域[WOS] | Genetics & Heredity ; Marine & Freshwater Biology |
| 关键词[WOS] | MAXIMUM-LIKELIHOOD ; CHLOROPHYLL-C ; NUCLEOTIDE-SEQUENCE ; CRYPTOPHYTE ALGA ; DNA ; INSIGHTS ; GENES ; TREE ; DINOFLAGELLATE ; EVOLUTION |
| 收录类别 | SCI |
| 原文出处 | 10.1016/j.margen.2012.12.002 |
| 语种 | 英语 |
| WOS记录号 | WOS:000320080800001 |
| 公开日期 | 2014-07-17 |
| 源URL | [http://ir.qdio.ac.cn/handle/337002/16543]  |
| 专题 | 海洋研究所_实验海洋生物学重点实验室 |
| 作者单位 | Chinese Acad Sci, Inst Oceanol, Key Lab Expt Marine Biol, Qingdao 266071, Peoples R China |
| 推荐引用方式 GB/T 7714 | Wang, Xiuliang,Shao, Zhanru,Fu, Wandong,et al. Chloroplast genome of one brown seaweed, Saccharina japonica (Laminariales, Phaeophyta): Its structural features and phylogenetic analyses with other photosynthetic plastids[J]. MARINE GENOMICS,2013,10:1-9. |
| APA | Wang, Xiuliang,Shao, Zhanru,Fu, Wandong,Yao, Jianting,Hu, Qiuping,&Duan, Delin.(2013).Chloroplast genome of one brown seaweed, Saccharina japonica (Laminariales, Phaeophyta): Its structural features and phylogenetic analyses with other photosynthetic plastids.MARINE GENOMICS,10,1-9. |
| MLA | Wang, Xiuliang,et al."Chloroplast genome of one brown seaweed, Saccharina japonica (Laminariales, Phaeophyta): Its structural features and phylogenetic analyses with other photosynthetic plastids".MARINE GENOMICS 10(2013):1-9. |
入库方式： OAI收割
来源：海洋研究所
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