期刊文献+

人免疫缺陷病毒Ⅰ型基因序列分析中的质量控制研究 被引量:4

Study on quality control in analysis of HIV-1 gene sequences
原文传递
导出
摘要 目的 研究DNA序列分析中各种影响因素的作用,建立排除污染、进行序列质量控制的方法。方法 通过对 950份HIV 1样品DNA基因序列结果的分析,查找序列读取及序列分析中存在的各种影响因素,对各种可能导致污染的原因进行分析和解释。结果 在使用各种软件进行序列分析时,两样本之间的基因距离为 0;两样本所测区段的核苷酸或氨基酸序列完全一致或相差甚微;样本与实验室内所构建的克隆株之间的基因距离过近,同源性达到 99%以上;两个独立传播的群体之间个别样本的互混等指标均提示存在污染的可能。结论 构建基因进化树和将样本的核苷酸序列翻译成蛋白质的氨基酸序列后构建共享序列,是一种很好的发现序列质量问题、进行序列质量控制的方法。 Objective To study various factors influencing DNA sequencing and sequence analysis, and explore the method of avoiding contamination and obtaining sequence quality assurance Methods Through sequencing 950 HIV 1 samples and carefully analyzing the data, we try to identify various factors influencing DNA sequencing and sequence analysis, and to analyze the potential causes of sequence contamination Results When sequences were phylogeneticlly analyzed by software, some results, for example, the gene distance between two samples was 0, the amino acid sequences or nucleotide sequences of two samples were identical, the gene distance between a sample and the developed clone in the same laboratory was too close, or some sequences from unrelated people were in confusion in phylogenetic tree, might suggest the possibility providing some clues to find sequence contamination of sequence contamination Conclusions Phylogenetic analysis of nucleotide sequences will provide some clues to find sequence contamination.
出处 《中华检验医学杂志》 CAS CSCD 北大核心 2005年第3期322-324,共3页 Chinese Journal of Laboratory Medicine
基金 国家杰出青年资金项目 ( 39925030 ) 国家"十五"科技攻关项目(2001BA705B02)
关键词 人免疫缺陷病毒 基因序列分析 克隆株 HIV-1 质量控制 样本 DNA序列分析 氨基酸序列 基因进化 核苷酸序列 DNA,Viral HIV long-term survivors Sequence analysis Quality control
  • 相关文献

参考文献8

  • 1赵全壁,潘品良,温宁,邵一鸣.DNA循环测序中的影响因素和图例分析[J].中华实验和临床病毒学杂志,2001,15(3):283-286. 被引量:5
  • 2关琪,魏民,黄海龙,邢辉,洪坤学,马鹏飞,梁浩,司雪峰,黑发欣,张卓然,邵一鸣.中国HIV-1B/C重组病毒的gag-pol区基因序列特征分析[J].中华医学杂志,2004,84(5):387-391. 被引量:29
  • 3魏民,关琪,梁浩,陈健平,陈钊,冯毅,洪坤学,邢辉,邵一鸣.人类免疫缺陷病毒1型感染基因诊断方法的建立[J].中华检验医学杂志,2003,26(12):772-776. 被引量:14
  • 4Graf M, Shao Y, Zhao Q, et al. Cloning and characterization of a virtually full-length HIV type 1 genome from a subtype B′-Thai strain representing the most prevalent B-clade isolate in China. AIDS Res Hum Retroviruses, 1998,14:285-288.
  • 5邵一鸣,戴玉琳,邢辉,潘品良,冯毅.HIV-1和HIV-2混合感染的发现[J].中华实验和临床病毒学杂志,1999,13(4):383-385. 被引量:9
  • 6Bodelle P, Vallari A, Coffey R, et al. Identification and genomic sequence of an HIV type 1 group N isolate from Cameroon. AIDS Res Hum Retroviruses, 2004, 20:902-908.
  • 7Hamano T, Sawanpanyalert P, Yanai H, et al. Determination of HIV type 1 CRF01_AE gag p17 and env-V3 consensus sequences for HIV/AIDS vaccine design. AIDS Res Hum Retroviruses, 2004, 20:337-340.
  • 8HIV Databases. Los Alamos National Laboratory, USA. http://hiv-web.lanl.gov.

二级参考文献8

共引文献51

同被引文献10

  • 1王兰兰.自身抗体检测的应用与质量保障原则[J].中华检验医学杂志,2005,28(10):987-990. 被引量:43
  • 2.全国艾滋病检测技术规范[S].[S].中国疾病预防控制中心,2004..
  • 3Graf M, Shao Y, Zhao Q, et al. Cloning and characterization of a virtually full-length HIV type 1 genome from a subtype B'-Thai strain representing the most prevalent B-clade isolate in China[J].AIDS Res Hum Retroviruses,1998,14(3):285-288.
  • 4Simmonds P,Balfe P,Peutherer JF,et al.Human Immunodeficiency virus-infected individuals contain provirus in small numbers of peripheral mononuclear cells and at low copy number.J Virol,1990,64:864-872.
  • 5Jung A,Maier R,Vartanian JP,et al.Multiply infected spleen cells in HIV patients.Nature,2002,418:144.
  • 6Killeen AA.Molecular analysis of congenital adrenal hyperplasia in a newborn screening program.Mol Diag,2001,6:189-191.
  • 7Brambilla D,Jennings,Aldrovandi,et al.Multicenter evaluation of use of dried blood and plasma spot specimens in quantitative assays for human immunodeficiency virus RNA:measurement,precision,and RNA stability.J Clin Microbiol,2003,41:1888-1893.
  • 8王斌,鲁晓晴,路永波,李怡,罗兵,邵济钧.干血斑滤纸片中人免疫缺陷病毒1型前病毒基因的检测[J].中华实验和临床病毒学杂志,1998,12(3):281-284. 被引量:8
  • 9周怀谷,平原,徐庆文,胡伟.PCR扩增体系的体积减少对DNA分析的影响[J].法医学杂志,2002,18(3):155-159. 被引量:8
  • 10李兵,彭劲甫,王召钦,唐蔚,单金岚,周伯平.不同用量BigDye在HBV测序检测中的效果分析[J].实用医技杂志,2004,11(05A):538-539. 被引量:1

引证文献4

二级引证文献7

相关作者

内容加载中请稍等...

相关机构

内容加载中请稍等...

相关主题

内容加载中请稍等...

浏览历史

内容加载中请稍等...
;
使用帮助 返回顶部