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

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 rel...

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Autores principales:	Evgeny A Glazov, Kritaya Kongsuwan, Wanchai Assavalapsakul, Paul F Horwood, Neena Mitter, Timothy J Mahony
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2009
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/05f78b34dc974b7382a08d3e5c020bdf
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spelling	oai:doaj.org-article:05f78b34dc974b7382a08d3e5c020bdf2021-11-25T06:21:25ZRepertoire of bovine miRNA and miRNA-like small regulatory RNAs expressed upon viral infection.1932-620310.1371/journal.pone.0006349https://doaj.org/article/05f78b34dc974b7382a08d3e5c020bdf2009-07-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/19633723/?tool=EBIhttps://doaj.org/toc/1932-6203MicroRNA (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.Evgeny A GlazovKritaya KongsuwanWanchai AssavalapsakulPaul F HorwoodNeena MitterTimothy J MahonyPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 4, Iss 7, p e6349 (2009)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Evgeny A Glazov Kritaya Kongsuwan Wanchai Assavalapsakul Paul F Horwood Neena Mitter Timothy J Mahony Repertoire of bovine miRNA and miRNA-like small regulatory RNAs expressed upon viral infection.
description	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.
format	article
author	Evgeny A Glazov Kritaya Kongsuwan Wanchai Assavalapsakul Paul F Horwood Neena Mitter Timothy J Mahony
author_facet	Evgeny A Glazov Kritaya Kongsuwan Wanchai Assavalapsakul Paul F Horwood Neena Mitter Timothy J Mahony
author_sort	Evgeny A Glazov
title	Repertoire of bovine miRNA and miRNA-like small regulatory RNAs expressed upon viral infection.
title_short	Repertoire of bovine miRNA and miRNA-like small regulatory RNAs expressed upon viral infection.
title_full	Repertoire of bovine miRNA and miRNA-like small regulatory RNAs expressed upon viral infection.
title_fullStr	Repertoire of bovine miRNA and miRNA-like small regulatory RNAs expressed upon viral infection.
title_full_unstemmed	Repertoire of bovine miRNA and miRNA-like small regulatory RNAs expressed upon viral infection.
title_sort	repertoire of bovine mirna and mirna-like small regulatory rnas expressed upon viral infection.
publisher	Public Library of Science (PLoS)
publishDate	2009
url	https://doaj.org/article/05f78b34dc974b7382a08d3e5c020bdf
work_keys_str_mv	AT evgenyaglazov repertoireofbovinemirnaandmirnalikesmallregulatoryrnasexpresseduponviralinfection AT kritayakongsuwan repertoireofbovinemirnaandmirnalikesmallregulatoryrnasexpresseduponviralinfection AT wanchaiassavalapsakul repertoireofbovinemirnaandmirnalikesmallregulatoryrnasexpresseduponviralinfection AT paulfhorwood repertoireofbovinemirnaandmirnalikesmallregulatoryrnasexpresseduponviralinfection AT neenamitter repertoireofbovinemirnaandmirnalikesmallregulatoryrnasexpresseduponviralinfection AT timothyjmahony repertoireofbovinemirnaandmirnalikesmallregulatoryrnasexpresseduponviralinfection
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Repertoire of bovine miRNA and miRNA-like small regulatory RNAs expressed upon viral infection.

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