Specific Capture and Whole-Genome Sequencing of Viruses from Clinical Samples

被引：168

作者：

Depledge, Daniel P. ^{[1
]}

Palser, Anne L. ^{[2
]}

Watson, Simon J. ^{[2
]}

Lai, Imogen Yi-Chun ^{[1
,2
]}

Gray, Eleanor R. ^{[1
]}

Grant, Paul ^{[3
]}

Kanda, Ravinder K. ^{[1
]}

Leproust, Emily ^{[4
]}

Kellam, Paul ^{[1
,2
]}

Breuer, Judith ^{[1
]}

机构：

[1] UCL, Div Infect & Immun, London, England

[2] Wellcome Trust Sanger Inst, Hinxton, Cambs, England

[3] Univ Coll London Hosp NHS Trust, Dept Virol, London, England

[4] Agilent Technol, Santa Rosa, CA USA

来源：

PLOS ONE | 2011年 / 6卷 / 11期

基金：

英国惠康基金; 英国医学研究理事会;

关键词：

VARICELLA-ZOSTER-VIRUS; EPSTEIN-BARR-VIRUS; COMPLETE DNA-SEQUENCES; VACCINE; IDENTIFICATION; CARCINOMA; GENOTYPES; RECOMBINATION; AMPLIFICATION; VARIABILITY;

D O I：

10.1371/journal.pone.0027805

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Whole genome sequencing of viruses directly from clinical samples is integral for understanding the genetics of host-virus interactions. Here, we report the use of sample sparing target enrichment (by hybridisation) for viral nucleic acid separation and deep-sequencing of herpesvirus genomes directly from a range of clinical samples including saliva, blood, virus vesicles, cerebrospinal fluid, and tumour cell lines. We demonstrate the effectiveness of the method by deep-sequencing 13 highly cell-associated human herpesvirus genomes and generating full length genome alignments at high read depth. Moreover, we show the specificity of the method enables the study of viral population structures and their diversity within a range of clinical samples types.

引用

页数：7

共 35 条

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