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Genome-Wide Identification of Long Intergenic Noncoding RNA Genes and Their Potential Association with Domestication in Pigs
Thousands of long intergenic noncoding RNAs (lincRNAs) have been identified in the human and mouse genomes, some of which play important roles in fundamental biological processes. The pig is an important domesticated animal, however, pig lincRNAs remain poorly characterized and it is unknown if they...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2014
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4079208/ https://www.ncbi.nlm.nih.gov/pubmed/24891613 http://dx.doi.org/10.1093/gbe/evu113 |
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author | Zhou, Zhong-Yin Li, Ai-Min Adeola, Adeniyi C. Liu, Yan-Hu Irwin, David M. Xie, Hai-Bing Zhang, Ya-Ping |
author_facet | Zhou, Zhong-Yin Li, Ai-Min Adeola, Adeniyi C. Liu, Yan-Hu Irwin, David M. Xie, Hai-Bing Zhang, Ya-Ping |
author_sort | Zhou, Zhong-Yin |
collection | PubMed |
description | Thousands of long intergenic noncoding RNAs (lincRNAs) have been identified in the human and mouse genomes, some of which play important roles in fundamental biological processes. The pig is an important domesticated animal, however, pig lincRNAs remain poorly characterized and it is unknown if they were involved in the domestication of the pig. Here, we used available RNA-seq resources derived from 93 samples and expressed sequence tag data sets, and identified 6,621 lincRNA transcripts from 4,515 gene loci. Among the identified lincRNAs, some lincRNA genes exhibit synteny and sequence conservation, including linc-sscg2561, whose gene neighbor Dnmt3a is associated with emotional behaviors. Both linc-sscg2561 and Dnmt3a show differential expression in the frontal cortex between domesticated pigs and wild boars, suggesting a possible role in pig domestication. This study provides the first comprehensive genome-wide analysis of pig lincRNAs. |
format | Online Article Text |
id | pubmed-4079208 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-40792082014-07-02 Genome-Wide Identification of Long Intergenic Noncoding RNA Genes and Their Potential Association with Domestication in Pigs Zhou, Zhong-Yin Li, Ai-Min Adeola, Adeniyi C. Liu, Yan-Hu Irwin, David M. Xie, Hai-Bing Zhang, Ya-Ping Genome Biol Evol Letter Thousands of long intergenic noncoding RNAs (lincRNAs) have been identified in the human and mouse genomes, some of which play important roles in fundamental biological processes. The pig is an important domesticated animal, however, pig lincRNAs remain poorly characterized and it is unknown if they were involved in the domestication of the pig. Here, we used available RNA-seq resources derived from 93 samples and expressed sequence tag data sets, and identified 6,621 lincRNA transcripts from 4,515 gene loci. Among the identified lincRNAs, some lincRNA genes exhibit synteny and sequence conservation, including linc-sscg2561, whose gene neighbor Dnmt3a is associated with emotional behaviors. Both linc-sscg2561 and Dnmt3a show differential expression in the frontal cortex between domesticated pigs and wild boars, suggesting a possible role in pig domestication. This study provides the first comprehensive genome-wide analysis of pig lincRNAs. Oxford University Press 2014-06-02 /pmc/articles/PMC4079208/ /pubmed/24891613 http://dx.doi.org/10.1093/gbe/evu113 Text en © Crown copyright 2014. |
spellingShingle | Letter Zhou, Zhong-Yin Li, Ai-Min Adeola, Adeniyi C. Liu, Yan-Hu Irwin, David M. Xie, Hai-Bing Zhang, Ya-Ping Genome-Wide Identification of Long Intergenic Noncoding RNA Genes and Their Potential Association with Domestication in Pigs |
title | Genome-Wide Identification of Long Intergenic Noncoding RNA Genes and Their Potential Association with Domestication in Pigs |
title_full | Genome-Wide Identification of Long Intergenic Noncoding RNA Genes and Their Potential Association with Domestication in Pigs |
title_fullStr | Genome-Wide Identification of Long Intergenic Noncoding RNA Genes and Their Potential Association with Domestication in Pigs |
title_full_unstemmed | Genome-Wide Identification of Long Intergenic Noncoding RNA Genes and Their Potential Association with Domestication in Pigs |
title_short | Genome-Wide Identification of Long Intergenic Noncoding RNA Genes and Their Potential Association with Domestication in Pigs |
title_sort | genome-wide identification of long intergenic noncoding rna genes and their potential association with domestication in pigs |
topic | Letter |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4079208/ https://www.ncbi.nlm.nih.gov/pubmed/24891613 http://dx.doi.org/10.1093/gbe/evu113 |
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