Repertoire of bovine miRNA and miRNA-like small regulatory RNAs expressed upon viral infection

Glazov, Evgeny A., Kongsuwan, Kritaya, Assavalapsakul, Wanchai, Horwood, Paul F., Mitter, Neena and Mahony, Timothy J. (2009) Repertoire of bovine miRNA and miRNA-like small regulatory RNAs expressed upon viral infection. PLoS One, 4 7: e6349-1-e6349-6. doi:10.1371/journal.pone.0006349


Author Glazov, Evgeny A.
Kongsuwan, Kritaya
Assavalapsakul, Wanchai
Horwood, Paul F.
Mitter, Neena
Mahony, Timothy J.
Title Repertoire of bovine miRNA and miRNA-like small regulatory RNAs expressed upon viral infection
Journal name PLoS One   Check publisher's open access policy
ISSN 1932-6203
Publication date 2009-07
Sub-type Article (original research)
DOI 10.1371/journal.pone.0006349
Open Access Status DOI
Volume 4
Issue 7
Start page e6349-1
End page e6349-6
Total pages 6
Editor Lennart Randau
Place of publication San Francisco, CA, United States
Publisher Public Library of Science
Collection year 2010
Language eng
Subject C1
970111 Expanding Knowledge in the Medical and Health Sciences
970106 Expanding Knowledge in the Biological Sciences
970107 Expanding Knowledge in the Agricultural and Veterinary Sciences
920109 Infectious Diseases
0601 Biochemistry and Cell Biology
Abstract MicroRNA (miRNA) and other types of small regulatory RNAs play a crucial role in the regulation of gene expression in eukaryotes. Several distinct classes of small regulatory RNAs have been discovered in recent years. To extend the repertoire of small RNAs characterized in mammals and to examine relationship between host miRNA expression and viral infection we used Illumina's ultrahigh throughput sequencing approach. We sequenced three small RNA libraries prepared from cell line derived from the adult bovine kidney under normal conditions and upon infection of the cell line with Bovine herpesvirus 1. We used a bioinformatics approach to distinguish authentic mature miRNA sequences from other classes of small RNAs and short RNA fragments represented in the sequencing data. Using this approach we detected 219 out of 356 known bovine miRNAs and 115 respective miRNA* sequences. In addition we identified five new bovine orthologs of known mammalian miRNAs and discovered 268 new cow miRNAs many of which are not identifiable in other mammalian genomes and thus might be specific to the ruminant lineage. In addition we found seven new bovine mirtron candidates. We also discovered 10 small nucleolar RNA (snoRNA) loci that give rise to small RNA with possible miRNA-like function. Results presented in this study extend our knowledge of the biology and evolution of small regulatory RNAs in mammals and illuminate mechanisms of small RNA biogenesis and function. New miRNA sequences and the original sequencing data have been submitted to miRNA repository (miRBase) and NCBI GEO archive respectively. We envisage that these resources will facilitate functional annotation of the bovine genome and promote further functional and comparative genomics studies of small regulatory RNA in mammals.
Keyword Bovine
Viral
Infection
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ

 
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Created: Sun, 17 Jan 2010, 00:01:04 EST