specific capture and whole-genome sequencing of viruses from clinical samples具体从临床样本捕获和病毒的全基因组测序.pdfVIP

Specific Capture and Whole-Genome Sequencing of Viruses from Clinical Samples 1 2 2 1,2 1 Daniel P. Depledge *, Anne L. Palser , Simon J. Watson , Imogen Yi-Chun Lai , Eleanor R. Gray , Paul 3 1 4 1,2 1 Grant , Ravinder K. Kanda , Emily Leproust , Paul Kellam , Judith Breuer 1 Division of Infection and Immunity, University College London, London, United Kingdom, 2 Pathogen Genetics, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, United Kingdom, 3 Department of Virology, University College London Hospitals NHS Trust, London, United Kingdom, 4 Agilent Technologies, Santa Rosa, California, United States of America Abstract 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. Citation: Depledge DP, Palser AL, Watson SJ, Lai IY-C, Gray ER, et al. (2011) Specific Capture and Whole-Genome Sequen