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题名: Inverse PCR-Based Method for Isolating Novel SINEs from Genome
作者: Han, Yawei1, 2; Chen, Liping1; Guan, Lihong2; He, Shunping2
通讯作者: Han, YW (reprint author), Zhengzhou Univ Light Ind, Coll Food & Bioengn, Zhengzhou 450002, Henan, Peoples R China.
关键词: Inverse PCR ; Short interspersed elements ; Self-ligation of DNA ; Cyprinidaes
刊名: MOLECULAR BIOTECHNOLOGY
发表日期: 2014-04-01
DOI: 10.1007/s12033-013-9708-y
卷: 56, 期:4, 页:296-304
收录类别: SCI
文章类型: Article
部门归属: [Han, Yawei; Chen, Liping] Zhengzhou Univ Light Ind, Coll Food & Bioengn, Zhengzhou 450002, Henan, Peoples R China; [Han, Yawei; Guan, Lihong; He, Shunping] Chinese Acad Sci, Inst Hydrobiol, Wuhan 430072, Hubei, Peoples R China
WOS标题词: Science & Technology ; Life Sciences & Biomedicine
资助者: National Natural Science Foundation of China [31172175]; Doctor Foundation of Zhengzhou University of Light Industry
类目[WOS]: Biochemistry & Molecular Biology ; Biotechnology & Applied Microbiology
研究领域[WOS]: Biochemistry & Molecular Biology ; Biotechnology & Applied Microbiology
摘要: Short interspersed elements (SINEs) are moderately repetitive DNA sequences in eukaryotic genomes. Although eukaryotic genomes contain numerous SINEs copy, it is very difficult and laborious to isolate and identify them by the reported methods. In this study, the inverse PCR was successfully applied to isolate SINEs from Opsariichthys bidens genome in Eastern Asian Cyprinid. A group of SINEs derived from tRNA(Ala) molecular had been identified, which were named Opsar according to Opsariichthys. SINEs characteristics were exhibited in Opsar, which contained a tRNA(Ala)-derived region at the 5' end, a tRNA-unrelated region, and AT-rich region at the 3' end. The tRNA-derived region of Opsar shared 76 % sequence similarity with tRNA(Ala) gene. This result indicated that Opsar could derive from the inactive or pseudogene of tRNA(Ala). The reliability of method was tested by obtaining C-SINE, Ct-SINE, and M-SINEs from Ctenopharyngodon idellus, Megalobrama amblycephala, and Cyprinus carpio genomes. This method is simpler than the previously reported, which successfully omitted many steps, such as preparation of probes, construction of genomic libraries, and hybridization.
英文摘要: Short interspersed elements (SINEs) are moderately repetitive DNA sequences in eukaryotic genomes. Although eukaryotic genomes contain numerous SINEs copy, it is very difficult and laborious to isolate and identify them by the reported methods. In this study, the inverse PCR was successfully applied to isolate SINEs from Opsariichthys bidens genome in Eastern Asian Cyprinid. A group of SINEs derived from tRNA(Ala) molecular had been identified, which were named Opsar according to Opsariichthys. SINEs characteristics were exhibited in Opsar, which contained a tRNA(Ala)-derived region at the 5' end, a tRNA-unrelated region, and AT-rich region at the 3' end. The tRNA-derived region of Opsar shared 76 % sequence similarity with tRNA(Ala) gene. This result indicated that Opsar could derive from the inactive or pseudogene of tRNA(Ala). The reliability of method was tested by obtaining C-SINE, Ct-SINE, and M-SINEs from Ctenopharyngodon idellus, Megalobrama amblycephala, and Cyprinus carpio genomes. This method is simpler than the previously reported, which successfully omitted many steps, such as preparation of probes, construction of genomic libraries, and hybridization.
关键词[WOS]: RNA-DERIVED SINES ; SHORT INTERSPERSED ELEMENTS ; 5S RIBOSOMAL-RNA ; EUKARYOTIC GENOMES ; VERTEBRATE GENOMES ; MAMMALIAN GENOME ; MOUSE GENOME ; SEQUENCES ; FAMILY ; DNA
语种: 英语
WOS记录号: WOS:000332972300002
ISSN号: 1073-6085
Citation statistics:
内容类型: 期刊论文
URI标识: http://ir.ihb.ac.cn/handle/342005/19997
Appears in Collections:水生生物多样性与资源保护研究中心_期刊论文

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作者单位: 1.Zhengzhou Univ Light Ind, Coll Food & Bioengn, Zhengzhou 450002, Henan, Peoples R China
2.Chinese Acad Sci, Inst Hydrobiol, Wuhan 430072, Hubei, Peoples R China
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