title: Comprehensive identification and profiling of host miRNAs in response to Singapore grouper iridovirus (SGIV) infection in grouper (Epinephelus coioides).
abstract: microRNAs (miRNAs) are an evolutionarily conserved class of non-coding RNA molecules that participate in various biological processes. Employment of high-throughput screening strategies greatly prompts the investigation and profiling of miRNAs in diverse species. In recent years, grouper (Epinephelus spp.) aquaculture was severely affected by iridoviral diseases. However, knowledge regarding the host immune responses to viral infection, especially the miRNA-mediated immune regulatory roles, is rather limited. In this study, by employing Solexa deep sequencing approach, we identified 116 grouper miRNAs from grouper spleen-derived cells (GS). As expected, these miRNAs shared high sequence similarity with miRNAs identified in zebrafish (Danio rerio), pufferfish (Fugu rubripes), and other higher vertebrates. In the process of Singapore grouper iridovirus (SGIV) infection, 45 and 43 miRNAs with altered expression (>1.5-fold) were identified by miRNA microarray assays in grouper spleen tissues and GS cells, respectively. Furthermore, target prediction revealed 189 putative targets of these grouper miRNAs.
authors.affiliation: Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China; University of Chinese Academy of Sciences, Beijing 100049, China.
authors.forename: Chuanyu
authors.initials: C
authors.lastname: Guo
authors.affiliation: Department of Medicine, University of Alabama at Birmingham, 901 19th Street South, Birmingham, AL 35294, USA.
authors.forename: Huachun
authors.initials: H
authors.lastname: Cui
authors.affiliation: Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China; University of Chinese Academy of Sciences, Beijing 100049, China.
authors.forename: Songwei
authors.initials: S
authors.lastname: Ni
authors.affiliation: Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China. Electronic address: yanyang@scsio.ac.cn.
authors.forename: Yang
authors.initials: Y
authors.lastname: Yan
authors.affiliation: Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China. Electronic address: qinqw@scsio.ac.cn.
authors.forename: Qiwei
authors.initials: Q
authors.lastname: Qin
mesh_terms: D000818:Animals; D002478:Cells, Cultured; D004266:DNA Virus Infections / Q000235:genetics / Q000276:immunology / Q000378:metabolism / Q000662:veterinary*; D005393:Fish Diseases / Q000235:genetics / Q000276:immunology / Q000378:metabolism*; D063990:Gene Ontology; D053263:Gene Regulatory Networks; D059014:High-Throughput Nucleotide Sequencing; D017994:Iridovirus / Q000276:immunology; D035683:MicroRNAs / Q000235:genetics / Q000378:metabolism*; D010473:Perciformes / Q000276:immunology / Q000378:metabolism* / Q000821:virology; D010802:Phylogeny; D017423:Sequence Analysis, RNA; D059467:Transcriptome
chemical_list: D035683:MicroRNAs
keywords: Deep sequencing; Functional annotation; Grouper; SGIV; miRNA microarray; microRNAs