Transcriptomics

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High-resolution profiling and analysis of viral and host small RNAs during human cytomegalovirus infection


ABSTRACT: Small RNA deep sequencing analysis was conducted on primary human fibroblasts infected with human cytomegalovirus (HCMV). HCMV-encoded miRNAs accumulated to ~20% of the total smRNA population at late stages of infection, and our analysis led to improvements in viral miRNA annotations and identification of novel HCMV miRNAs. Through crosslinking and immunoprecipitation of Argonaute-bound RNAs from infected cells, followed by high-throughput sequencing (Ago CLIP-seq), we obtained direct evidence for incorporation of all HCMV miRNAs into the endogenous host silencing machinery. Additionally, significant upregulation was observed during infection for a host miRNA cluster containing miR-96, miR-182 and miR-183. We also identified novel non-miRNA forms of virus-derived smRNAs, revealing greater complexity within the smRNA population during HCMV infection. High-throughput profiling of smRNAs, Ago1-, and Ago2-associated miRNAs from HCMV-infected fibroblast cells. Wild-type HCMV Towne (Genbank FJ616285.1) was used for these studies.

ORGANISM(S): Homo sapiens  

SUBMITTER: Gene Yeo  G W Yeo    

PROVIDER: E-GEOD-33584 | ArrayExpress | 2011-11-10

SECONDARY ACCESSION(S): GSE33584SRP009246PRJNA148583

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications

High-resolution profiling and analysis of viral and host small RNAs during human cytomegalovirus infection.

Stark Thomas J TJ   Arnold Justin D JD   Spector Deborah H DH   Yeo Gene W GW  

Journal of virology 20111019 1


Human cytomegalovirus (HCMV) contributes its own set of microRNAs (miRNAs) during lytic infection of cells, likely fine-tuning conditions important for viral replication. To enhance our understanding of this component of the HCMV-host transcriptome, we have conducted deep-sequencing analysis of small RNAs (smRNA-seq) from infected human fibroblast cells. We found that HCMV-encoded miRNAs accumulate to ∼20% of the total smRNA population at late stages of infection, and our analysis led to improve  ...[more]

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