title: Genome-wide identification of long intergenic noncoding RNA genes and their potential association with domestication in pigs.
abstract: 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.
authors.affiliation: Department of Molecular and Cell Biology, School of Life Sciences, University of Science and Technology of China, Hefei, ChinaState Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.
authors.forename: Zhong-Yin
authors.initials: ZY
authors.lastname: Zhou
authors.affiliation: School of Computer Science and Engineering, Xi'an University of Technology, Xi'an, China.
authors.forename: Ai-Min
authors.initials: AM
authors.lastname: Li
authors.affiliation: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, ChinaKunming College of Life Science, University of Chinese Academy of Sciences, Kunming, China.
authors.forename: Adeniyi C
authors.initials: AC
authors.lastname: Adeola
authors.affiliation: Laboratory for Conservation and Utilization of Bio-resources, Yunnan University, Kunming, China.
authors.forename: Yan-Hu
authors.initials: YH
authors.lastname: Liu
authors.affiliation: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, ChinaDepartment of Laboratory Medicine and Pathobiology, University of Toronto, Ontario, CanadaBanting and Best Diabetes Centre, University of Toronto, Ontario, Canada.
authors.forename: David M
authors.initials: DM
authors.lastname: Irwin
authors.affiliation: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China zhangyp@mail.kiz.ac.cn xiehb@mail.kiz.ac.cn.
authors.forename: Hai-Bing
authors.initials: HB
authors.lastname: Xie
authors.affiliation: Department of Molecular and Cell Biology, School of Life Sciences, University of Science and Technology of China, Hefei, ChinaState Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, ChinaLaboratory for Conservation and Utilization of Bio-resources, Yunnan University, Kunming, China zhangyp@mail.kiz.ac.cn xiehb@mail.kiz.ac.cn.
authors.forename: Ya-Ping
authors.initials: YP
authors.lastname: Zhang
mesh_terms: D000818:Animals; D000829:Animals, Domestic / Q000235:genetics*; D001483:Base Sequence; D020869:Gene Expression Profiling; D016678:Genome; D006801:Humans; D051379:Mice; D008969:Molecular Sequence Data; D062085:RNA, Long Noncoding / Q000235:genetics*; D016415:Sequence Alignment; D034421:Sus scrofa / Q000235:genetics*
chemical_list: D062085:RNA, Long Noncoding
keywords: domestication; lincRNA; pig