Identification of novel SINEs from Cyprinidae and their evolutionary significance
文献类型：期刊论文
| 作者 | Han Yawei; He Shunping; Chen Yiyu |
| 刊名 | PROGRESS IN NATURAL SCIENCE
 |
| 出版日期 | 2007-03-01 |
| 卷号 | 17期号:3页码:270-279 |
| ISSN号 | 1002-0071 |
| 关键词 | short interspersed nuclear elements (SINEs) master gene model Opsar Zb-SINEs and Cyprinidae |
| 通讯作者 | He, SP, Chinese Acad Sci, Inst Hydrobiol, Wuhan 430072, Peoples R China |
| 中文摘要 | Short interspersed nuclear elements (SINEs) are widespread among eukaryotic genomes. They are repetitive DNA sequences that have been amplified by retrotransposition. In this study, a class of SINEs were isolated from the Opsariichthys bidens genome, and named Opsar. Sequence analysis confirmed that Opsar is a new class of typical SINEs derived from tRNA molecules. With the tRNA-derived region of Opsar and through BLASTN search, we further identified Zb-SINEs from the zebrafish genome, which includes two groups: Zb-SINE-A and Zb-SINE-B. The Zb-SINE-A group comprises subfamilies of -Al--A5, and the Zb-SINE-B group is a dimer of the tRNA(Ala)-derived region and shares a similar dimeric composition to Alu. Zb-SINEs are composed of three distinct regions: a 5 end tRNA-derived region, a tRNA-unrelated region and a 3 end AT-rich region. The flanking regions are AT rich. The average length of Zb-SINEs elements is about 340 6p. Zb-SINEs account for as much as 0.1% of the whole zebrafish genome. About 70% of the Zb-SINEs are on chromosomes 11, 18, and 19. These Zb-SINEs were characterized by PCR and dot hybridization. The distribution pattern of Zb-SINEs in genome strongly supports the master genes model. The tRNA-derived regions of Opsar and Zb-SINEs were compared with the tRNA(Ala) gene, and they showed 76% similarity, indicating that Opsar and Zb-SINEs originated from an inactive tRNA(Ala) sequence or a tRNA(Ala)-like sequence. In view of the evolutionary status of zebrafish in the Cyprinidae, we deduced that Zb-SINEs were a very old class of interspersed sequences. |
| 英文摘要 | Short interspersed nuclear elements (SINEs) are widespread among eukaryotic genomes. They are repetitive DNA sequences that have been amplified by retrotransposition. In this study, a class of SINEs were isolated from the Opsariichthys bidens genome, and named Opsar. Sequence analysis confirmed that Opsar is a new class of typical SINEs derived from tRNA molecules. With the tRNA-derived region of Opsar and through BLASTN search, we further identified Zb-SINEs from the zebrafish genome, which includes two groups: Zb-SINE-A and Zb-SINE-B. The Zb-SINE-A group comprises subfamilies of -Al--A5, and the Zb-SINE-B group is a dimer of the tRNA(Ala)-derived region and shares a similar dimeric composition to Alu. Zb-SINEs are composed of three distinct regions: a 5 end tRNA-derived region, a tRNA-unrelated region and a 3 end AT-rich region. The flanking regions are AT rich. The average length of Zb-SINEs elements is about 340 6p. Zb-SINEs account for as much as 0.1% of the whole zebrafish genome. About 70% of the Zb-SINEs are on chromosomes 11, 18, and 19. These Zb-SINEs were characterized by PCR and dot hybridization. The distribution pattern of Zb-SINEs in genome strongly supports the master genes model. The tRNA-derived regions of Opsar and Zb-SINEs were compared with the tRNA(Ala) gene, and they showed 76% similarity, indicating that Opsar and Zb-SINEs originated from an inactive tRNA(Ala) sequence or a tRNA(Ala)-like sequence. In view of the evolutionary status of zebrafish in the Cyprinidae, we deduced that Zb-SINEs were a very old class of interspersed sequences. |
| 学科主题 | Multidisciplinary Sciences |
| WOS标题词 | Science & Technology ; Technology |
| 类目[WOS] | Materials Science, Multidisciplinary ; Multidisciplinary Sciences |
| 研究领域[WOS] | Materials Science ; Science & Technology - Other Topics |
| 关键词[WOS] | INTERSPERSED REPETITIVE ELEMENTS ; MOUSE GENOME ; MOLECULAR SYSTEMATICS ; EUKARYOTIC GENOMES ; MESSENGER-RNA ; ALU REPEATS ; SEQUENCES ; RETROTRANSPOSITION ; FAMILY ; LINES |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS记录号 | WOS:000246193900006 |
| 公开日期 | 2010-10-13 |
| 源URL | [http://ir.ihb.ac.cn/handle/152342/8634]  |
| 专题 | 水生生物研究所_中科院水生所知识产出（2009年前）_期刊论文 |
| 作者单位 | 1.Chinese Acad Sci, Inst Hydrobiol, Wuhan 430072, Peoples R China 2.Chinese Acad Sci, Grad Sch, Beijing 100039, Peoples R China |
| 推荐引用方式 GB/T 7714 | Han Yawei,He Shunping,Chen Yiyu. Identification of novel SINEs from Cyprinidae and their evolutionary significance[J]. PROGRESS IN NATURAL SCIENCE,2007,17(3):270-279. |
| APA | Han Yawei,He Shunping,&Chen Yiyu.(2007).Identification of novel SINEs from Cyprinidae and their evolutionary significance.PROGRESS IN NATURAL SCIENCE,17(3),270-279. |
| MLA | Han Yawei,et al."Identification of novel SINEs from Cyprinidae and their evolutionary significance".PROGRESS IN NATURAL SCIENCE 17.3(2007):270-279. |
入库方式： OAI收割
来源：水生生物研究所
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