title: MicroRNAome of porcine pre- and postnatal development.
abstract: The domestic pig is of enormous agricultural significance and valuable models for many human diseases. Information concerning the pig microRNAome (miRNAome) has been long overdue and elucidation of this information will permit an atlas of microRNA (miRNA) regulation functions and networks to be constructed. Here we performed a comprehensive search for porcine miRNAs on ten small RNA sequencing libraries prepared from a mixture of tissues obtained during the entire pig lifetime, from the fetal period through adulthood. The sequencing results were analyzed using mammalian miRNAs, the precursor hairpins (pre-miRNAs) and the first release of the high-coverage porcine genome assembly (Sscrofa9, April 2009) and the available expressed sequence tag (EST) sequences. Our results extend the repertoire of pig miRNAome to 867 pre-miRNAs (623 with genomic coordinates) encoding for 1,004 miRNAs, of which 777 are unique. We preformed real-time quantitative PCR (q-PCR) experiments for selected 30 miRNAs in 47 tissue-specific samples and found agreement between the sequencing and q-PCR data. This broad survey provides detailed information about multiple variants of mature sequences, precursors, chromosomal organization, development-specific expression, and conservation patterns. Our data mining produced a broad view of the pig miRNAome, consisting of miRNAs and isomiRs and a wealth of information of pig miRNA characteristics. These results are prelude to the advancement in pig biology as well the use of pigs as model organism for human biological and biomedical studies.
authors.affiliation: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University, Ya'an, Sichuan, China.
authors.forename: Mingzhou
authors.initials: M
authors.lastname: Li
authors.forename: Youlin
authors.initials: Y
authors.lastname: Xia
authors.forename: Yiren
authors.initials: Y
authors.lastname: Gu
authors.forename: Kai
authors.initials: K
authors.lastname: Zhang
authors.forename: Qiulei
authors.initials: Q
authors.lastname: Lang
authors.forename: Lei
authors.initials: L
authors.lastname: Chen
authors.forename: Jiuqiang
authors.initials: J
authors.lastname: Guan
authors.forename: Zonggang
authors.initials: Z
authors.lastname: Luo
authors.forename: Haosi
authors.initials: H
authors.lastname: Chen
authors.forename: Yang
authors.initials: Y
authors.lastname: Li
authors.forename: Qinghai
authors.initials: Q
authors.lastname: Li
authors.forename: Xiang
authors.initials: X
authors.lastname: Li
authors.forename: An-an
authors.initials: AA
authors.lastname: Jiang
authors.forename: Surong
authors.initials: S
authors.lastname: Shuai
authors.forename: Jinyong
authors.initials: J
authors.lastname: Wang
authors.forename: Qi
authors.initials: Q
authors.lastname: Zhu
authors.forename: Xiaochuan
authors.initials: X
authors.lastname: Zhou
authors.forename: Xiaolian
authors.initials: X
authors.lastname: Gao
authors.forename: Xuewei
authors.initials: X
authors.lastname: Li
mesh_terms: D000818:Animals; D002875:Chromosomes / Q000235:genetics; D020224:Expressed Sequence Tags; D018507:Gene Expression Regulation, Developmental / Q000235:genetics / Q000502:physiology; D035683:MicroRNAs / Q000235:genetics*; D016133:Polymerase Chain Reaction; D013552:Swine
chemical_list: D035683:MicroRNAs