title: Characterization of skin ulceration syndrome associated microRNAs in sea cucumber Apostichopus japonicus by deep sequencing.
abstract: MicroRNAs (miRNAs) constitute a family of small RNA species which have been demonstrated to be one of key effectors in mediating host-pathogen interaction. In this study, two haemocytes miRNA libraries were constructed with deep sequenced by illumina Hiseq2000 from healthy (L1) and skin ulceration syndrome Apostichopus japonicus (L2). The high throughput solexa sequencing resulted in 9,579,038 and 7,742,558 clean data from L1 and L2, respectively. Sequences analysis revealed that 40 conserved miRNAs were found in both libraries, in which let-7 and mir-125 were speculated to be clustered together and expressed accordingly. Eighty-six miRNA candidates were also identified by reference genome search and stem-loop structure prediction. Importantly, mir-31 and mir-2008 displayed signiﬁcant differential expression between the two libraries according to FPKM model, which might be considered as promising targets for elucidating the intrinsic mechanism of skin ulceration syndrome outbreak in the species.
authors.affiliation: School of Marine Science, Ningbo University, Ningbo, Zhejiang Province, PR China. chli@yic.ac.cn
authors.forename: Chenghua
authors.initials: C
authors.lastname: Li
authors.forename: Weida
authors.initials: W
authors.lastname: Feng
authors.forename: Lihua
authors.initials: L
authors.lastname: Qiu
authors.forename: Changge
authors.initials: C
authors.lastname: Xia
authors.forename: Xiurong
authors.initials: X
authors.lastname: Su
authors.forename: Chunhua
authors.initials: C
authors.lastname: Jin
authors.forename: Tingting
authors.initials: T
authors.lastname: Zhou
authors.forename: Yuan
authors.initials: Y
authors.lastname: Zeng
authors.forename: Taiwu
authors.initials: T
authors.lastname: Li
mesh_terms: D000818:Animals; D001483:Base Sequence; D020869:Gene Expression Profiling; D015723:Gene Library; D059014:High-Throughput Nucleotide Sequencing; D035683:MicroRNAs / Q000737:chemistry / Q000235:genetics*; D009690:Nucleic Acid Conformation; D012867:Skin / Q000473:pathology; D047528:Stichopus / Q000235:genetics*
chemical_list: D035683:MicroRNAs