| 引用本文: | 田优,谭钟扬,赵相艳,牛一乐,冯海平,欧阳清检.人腺病毒B、D亚种基因组中简单重复序列分析[J].生物信息学,2013,11(1):39-43. |
| TIAN You,TAN Zhong-yang,ZHAO Xiang-yan,NIU Yi-le,FENG Hai-ping,OUYANG Qing-jian.Analyses of simple sequence repeat in genomes of Human adenoviruses B and D subspecies[J].Chinese Journal of Bioinformatics,2013,11(1):39-43. |
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| 摘要: |
| 本文以人腺病毒B亚种31条基因组序列及D亚种39条基因组序列为研究材料,利用Imperfect Microsatellite Extractor 和DNAMAN 软件对这些基因组序列中简单重复序列(SSR)的分布情况进行了系统性分析和比较。分析结果显示:人腺病毒B、D亚种基因组中简单重复序列的平均相对密度是十分接近的,但在不同类型SSR中分布情况又有所不同。 D亚种中二型SSR 明显高于B亚种,在两亚种一型SSR中(A)n、(T)n都是比较多的,而在两亚种二型SSR中的(CG/GC)n表现出了较高的偏好性。在同亚种多序列比对分析中,D亚种表现出了更高的稳定性。B、D亚种中SSR的这种特异性分布可能与它们的进化机制和致病性有关。 |
| 关键词: 人腺病毒,亚种,简单重复序列 |
| DOI：10.3969/j.issn.1672-5565.2013-01.20130107 |
| 分类号: |
| 基金项目:湖南省科技计划项目[2008CKI3070];长沙市科技计划项目[2011K1113021/11]。 |
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| Analyses of simple sequence repeat in genomes of Human adenoviruses B and D subspecies |
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TIAN You,TAN Zhong-yang,ZHAO Xiang-yan,NIU Yi-le,FENG Hai-ping,OUYANG Qing-jian
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(Hunan University,Hunan Changsha 410082,China)
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| Abstract: |
| In our study, the simple sequence repeat in 31genomes of human adenoviruses B and 39genomes of human adenoviruses D were analyzed by the software Imperfect Microsatellite Extractor and DNAMAN. The results showed that in human adenoviruses B and D subspecies the average relative density was very similar, but the distribution of different repeat motifs was markedly different. The trinucleotide repeats had higher proportion in the D subspecies. In mononucleotide repeats the (A)n and (T)n were predominant and the (CG/GC)n were more in dinucleotide repeats in Human adenoviruses B and D subspecies. In many sequence alignment analysis of same subspecies, the D subspecies showed higher stability. The specific distribution of SSR may be related to the evolution mechanism and different pathogenicity of Human adenoviruses B and D subspecies. |
| Key words: Human Adenoviruses,Subspecies,Simple Sequence Repeat |
