BAC end sequencing of Pacific white shrimp Litopenaeus vannamei: a glimpse into the genome of Penaeid shrimp
文献类型：期刊论文
| 作者 | Zhao Cui1,2; Zhang Xiaojun1; Liu Chengzhang1; Huan Pin1 ; Li Fuhua1; Xiang Jianhai1; Huang Chao1,2
|
| 刊名 | CHINESE JOURNAL OF OCEANOLOGY AND LIMNOLOGY
 |
| 出版日期 | 2012-05-01 |
| 卷号 | 30期号:3页码:456-470 |
| 关键词 | Litopenaeus vannamei BES repetitive sequences SSR genome survey |
| ISSN号 | 0254-4059 |
| 通讯作者 | Zhang, XJ (reprint author), Chinese Acad Sci, Inst Oceanol, Key Lab Expt Marine Biol, Qingdao 266071, Peoples R China. |
| 英文摘要 | Little is known about the genome of Pacific white shrimp (Litopenaeus vannamei). To address this, we conducted BAC (bacterial artificial chromosome) end sequencing of L. vannamei. We selected and sequenced 7 812 BAC clones from the BAC library LvHE from the two ends of the inserts by Sanger sequencing. After trimming and quality filtering, 11 279 BAC end sequences (BESs) including 4 609 pairedends BESs were obtained. The total length of the BESs was 4 340 753 bp, representing 0.18% of the L. vannamei haploid genome. The lengths of the BESs ranged from 100 bp to 660 bp with an average length of 385 bp. Analysis of the BESs indicated that the L. vannamei genome is AT-rich and that the primary repeats patterns were simple sequence repeats (SSRs) and low complexity sequences. Dinucleotide and hexanucleotide repeats were the most common SSR types in the BESs. The most abundant transposable element was gypsy, which may contribute to the generation of the large genome size of L. vannamei. We successfully annotated 4 519 BESs by BLAST searching, including genes involved in immunity and sex determination. Our results provide an important resource for functional gene studies, map construction and integration, and complete genome assembly for this species. |
| 学科主题 | Limnology ; Oceanography |
| 收录类别 | SCI |
| 原文出处 | 10.1007/s00343-012-1159-y |
| 语种 | 英语 |
| WOS记录号 | WOS:000303680400013 |
| 公开日期 | 2013-09-24 |
| 源URL | [http://ir.qdio.ac.cn/handle/337002/12289]  |
| 专题 | 海洋研究所_实验海洋生物学重点实验室 |
| 作者单位 | 1.Chinese Acad Sci, Inst Oceanol, Key Lab Expt Marine Biol, Qingdao 266071, Peoples R China 2.Chinese Acad Sci, Grad Univ, Beijing 100049, Peoples R China |
| 推荐引用方式 GB/T 7714 | Zhao Cui,Zhang Xiaojun,Liu Chengzhang,et al. BAC end sequencing of Pacific white shrimp Litopenaeus vannamei: a glimpse into the genome of Penaeid shrimp[J]. CHINESE JOURNAL OF OCEANOLOGY AND LIMNOLOGY,2012,30(3):456-470. |
| APA | Zhao Cui.,Zhang Xiaojun.,Liu Chengzhang.,Huan Pin.,Li Fuhua.,...&Huang Chao.(2012).BAC end sequencing of Pacific white shrimp Litopenaeus vannamei: a glimpse into the genome of Penaeid shrimp.CHINESE JOURNAL OF OCEANOLOGY AND LIMNOLOGY,30(3),456-470. |
| MLA | Zhao Cui,et al."BAC end sequencing of Pacific white shrimp Litopenaeus vannamei: a glimpse into the genome of Penaeid shrimp".CHINESE JOURNAL OF OCEANOLOGY AND LIMNOLOGY 30.3(2012):456-470. |
入库方式： OAI收割
来源：海洋研究所
浏览0
下载0
收藏0
其他版本
除非特别说明，本系统中所有内容都受版权保护，并保留所有权利。