title: The identification of microRNAs in the whitespotted bamboo shark (Chiloscyllium plagiosum) liver by Illumina sequencing.
abstract: MicroRNAs are indispensable players in the regulation of a broad range of biological processes. Here, we report the first deep sequencing of the whitespotted bamboo shark (Chiloscyllium plagiosum) liver. We mapped 91 miRNAs in the Callorhinchus milii genome that have previously been described in the Danio rerio, Fugu rubripes, Oryzias latipes, Xenopus laevis, Xenopus tropicalis, Homo sapiens, and Mus musculus. In addition, 156 new putative candidate (PC) C. plagiosum miRNAs were identified. From these 247 miRNAs, 39 miRNA clusters were identified, and the expression of these clustered miRNAs was observed to vary significantly. A total of 7 candidate miRNAs were selected for expression confirmation by stem-loop RT-PCR. This study resulted in the addition of a significant number of novel miRNA sequences to GenBank and laid the foundation for further understanding of the function of miRNAs in the regulation of C. plagiosum liver development.
authors.affiliation: Institute of Biochemistry, College of Life Sciences, Zhejiang Sci-Tech University, Hangzhou, China.
authors.forename: Jie
authors.initials: J
authors.lastname: Zhang
authors.forename: Yunlong
authors.initials: Y
authors.lastname: Liu
authors.forename: Xiaofei
authors.initials: X
authors.lastname: Zhang
authors.forename: Jingjing
authors.initials: J
authors.lastname: Pan
authors.forename: Zuoming
authors.initials: Z
authors.lastname: Nie
authors.forename: Wenping
authors.initials: W
authors.lastname: Zhang
authors.forename: Wei
authors.initials: W
authors.lastname: Yu
authors.forename: Jian
authors.initials: J
authors.lastname: Chen
authors.forename: Lili
authors.initials: L
authors.lastname: Liu
authors.forename: Jun
authors.initials: J
authors.lastname: Li
authors.forename: Yaozhou
authors.initials: Y
authors.lastname: Zhang
authors.forename: Jiangfeng
authors.initials: J
authors.lastname: Guo
authors.forename: Wutong
authors.initials: W
authors.lastname: Wu
authors.forename: Huili
authors.initials: H
authors.lastname: Zhu
authors.forename: Zhengbing
authors.initials: Z
authors.lastname: Lv
mesh_terms: D000818:Animals; D001483:Base Sequence; D059014:High-Throughput Nucleotide Sequencing; D055029:Inverted Repeat Sequences; D008099:Liver / Q000378:metabolism*; D035683:MicroRNAs / Q000235:genetics* / Q000378:metabolism; D058977:Molecular Sequence Annotation; D008969:Molecular Sequence Data; D005810:Multigene Family; D017423:Sequence Analysis, RNA; D012754:Sharks / Q000235:genetics* / Q000378:metabolism
chemical_list: D035683:MicroRNAs
keywords: Bioinformatics; C. milii; C. plagiosum; Callorhinchus milii; Chiloscyllium plagiosum; Chiloscyllium plagiosum liver; Danio rerio; Deep sequencing; Dre; Fru; Fugu rubripes; Homo sapiens; Hsa; Mmu; Mus musculus; Ola; Oryzias latipes; PC miRNAs; Stem-loop RT-PCR; Xenopus laevis; Xenopus tropicalis; Xla; Xtr; miRNAs; microRNAs; putative candidate miRNAs