Identification of microRNAs of the herpesvirus family Journal Article


Authors: Pfeffer, S.; Sewer, A.; Lagos-Quintana, M.; Sheridan, R.; Sander, C.; Grässer, F. A.; van Dyk, L. F.; Kiong Ho, C.; Shuman, S.; Chien, M.; Russo, J. J.; Ju, J.; Randall, G.; Lindenbach, B. D.; Rice, C. M.; Simon, V.; Ho, D. D.; Zavolan, M.; Tuschl, T.
Article Title: Identification of microRNAs of the herpesvirus family
Abstract: Epstein-Barr virus (EBV or HHV4), a member of the human herpesvirus (HHV) family, has recently been shown to encode microRNAs (miRNAs). In contrast to most eukaryotic miRNAs, these viral miRNAs do not have close homologs in other viral genomes or in the genome of the human host. To identify other miRNA genes in pathogenic viruses, we combined a new miRNA gene prediction method with small-RNA cloning from several virus-infected cell types. We cloned ten miRNAs in the Kaposi sarcoma-associated virus (KSHV or HHV8), nine miRNAs in the mouse gammaherpesvirus 68 (MHV68) and nine miRNAs in the human cytomegalovirus (HCMV or HHV5). These miRNA genes are expressed individually or in clusters from either polymerase (pol) II or pol III promoters, and share no substantial sequence homology with one another or with the known human miRNAs. Generally, we predicted miRNAs in several large DNA viruses, and we could neither predict nor experimentally identify miRNAs in the genomes of small RNA viruses or retroviruses.
Keywords: controlled study; gene cluster; promoter region; nonhuman; microrna; gene expression; prediction; cell type; molecular cloning; virus rna; dna viruses; eukaryota; rna viruses; gene identification; nucleotide sequence; herpes virus; herpesviridae; virus genome; rna polymerase ii; human herpesvirus 8; retrovirus; human herpesvirus 4; human cytomegalovirus; dna directed rna polymerase iii; familia; mouse gammaherpesvirus 68; rhadinovirus; human herpesvirus 5
Journal Title: Nature Methods
Volume: 2
Issue: 4
ISSN: 1548-7091
Publisher: Nature Publishing Group  
Date Published: 2005-04-01
Start Page: 269
End Page: 276
Language: English
DOI: 10.1038/nmeth746
PROVIDER: scopus
PUBMED: 15782219
DOI/URL:
Notes: --- - "Cited By (since 1996): 492" - "Export Date: 24 October 2012" - "Molecular Sequence Numbers: GENBANK: AC146907, L22579, NC_000942, NC_001345, NC_001348, NC_001401, NC_001405, NC_001454, NC_001498, NC_001538, NC_001547, NC_001608, NC_001664, NC_001716, NC_001731, NC_001798, NC_001802, NC_001806, NC_001826, NC_002031, NC_002058, NC_002067, NC_002549, NC_003409, NC_003977, NC_004001, NC_004102, U94848" - "Source: Scopus"
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MSK Authors
  1. Chong-Kiong Ho
    33 Ho
  2. Chris Sander
    204 Sander