Bioinformatics analysis of hemocyte miRNAs of scallop Chlamys farreri against acute viral necrobiotic virus (AVNV)

文献类型： 外文期刊

第一作者： Chen, Guofu

作者： Chen, Guofu;Zhang, Chunyun;Jiang, Fengjuan;Wang, Yuanyuan;Xu, Zhong;Wang, Chongming

作者机构：

关键词： Chlamys farreri;Acute viral necrobiotic virus;miRNA;Deep sequencing;Immune response

期刊名称：FISH & SHELLFISH IMMUNOLOGY （ 影响因子：4.581； 五年影响因子：4.851 ）

ISSN： 1050-4648

年卷期： 2014 年 37 卷 1 期

页码：

收录情况： SCI

摘要： The sustainable development of the scallop Chlamys farreri industry in China is hindered by mass mortality mainly caused by a novel pathogen known as acute viral necrosis virus (AVNV). A better understanding of host-virus interactions, especially those at the molecular level, may facilitate the prevention and cure of AVNV infections. MicroRNAs (miRNAs) represent a class of small RNA molecules involved in several biological processes, including mediating host-pathogen responses. In this study, two hemocyte small RNA libraries were constructed from control (control library, CL) and AVNV-infected (infection library, IL) C. farreri for high throughput sequencing using Solexa technology. Acquired data were further used to identify conserved and novel miRNAs, screen differentially expressed miRNAs, and predict their target genes through bioinformatics analysis. Solexa sequencing produced 19,485,719 and 20,594,513 clean reads representing 2,248,814 and 1,510,256 unique small RNAs from CL and IL, respectively. A total of 57 conserved miRNAs were identified in both libraries, among which only two were unique to IL Novel miRNA prediction using the Crassostrea gigas genome as a reference revealed 11 candidate miRNAs, 10 of which were validated by RT-PCR. Differential expression (p < 0.001) between libraries was observed in 37 miRNAs, among which 30 and 7 miRNAs were up- and downregulated, respectively. Expression differences were further confirmed by qRT-PCR. A sequence homology search against available C. farreri ESTs showed that these differentially expressed miRNAs may target 177 genes involved in a broad range of biological processes including immune defense and stress response. This study is the first to characterize C farreri miRNAs and miRNA expression profiles in response to AVNV infection by deep sequencing. The results presented here will deepen our understanding of the pathogenesis of AVNV at the molecular level and provide new insights into the molecular basis of host-pathogen interactions in C. farreri. (C) 2014 Elsevier Ltd. All rights reserved.

分类号：

  • 相关文献

[1]A preliminary study of differentially expressed genes of the scallop Chlamys farreri against acute viral necrobiotic virus (AVNV). Chen, Guofu,Wang, Chenchao,Zhang, Chunyun,Wang, Yuanyuan,Xu, Zhong,Wang, Chongming. 2013

[2]Integrative RNA-and miRNA-Profile Analysis Reveals a Likely Role of BR and Auxin Signaling in Branch Angle Regulation of B. napus. Cheng, Hongtao,Hao, Mengyu,Wang, Wenxiang,Mei, Desheng,Liu, Jia,Wang, Hui,Sang, Shifei,Tang, Min,Zhou, Rijin,Chu, Wen,Fu, Li,Hu, Qiong,Wells, Rachel. 2017

[3]Repertoire of porcine MicroRNAs in adult ovary and testis by deep sequencing. Chen, Haosi,Wang, Xin,Gao, Xiaolian,Li, Mingzhou,Liu, Yingkai,Wang, Tao,Guan, Jiuqiang,Luo, Zonggang,Ma, Jideng,Mu, Zhiping,Jiang, An-an,Zhu, Li,Li, Xuewei,Chen, Lei,Wang, Jinyong,Lang, Qiulei,Zhou, Xiaochuan,Zeng, Wenxian,Li, Ning,Li, Kui.

[4]Genome-wide identification and characterization of conserved and novel microRNAs in grass carp (Ctenopharyngodon idella) by deep sequencing. Gong, Wangbao,Xie, Jun,Wang, Guangjun,Yu, Deguang,Huang, Yong,Sun, Xihong.

[5]Identification of Glycine Max MicroRNAs in response to phosphorus deficiency. Sha, Aihua,Ba, Hongping,Shan, Zhihui,Zhang, Xiaojuan,Wu, Xuejun,Qiu, Dezheng,Zhou, Xinan,Sha, Aihua,Ba, Hongping,Shan, Zhihui,Zhang, Xiaojuan,Wu, Xuejun,Zhou, Xinan,Chen, Yinhua.

[6]Molecular Identification and Analysis of Arsenite Stress-Responsive miRNAs in Rice. Liu, Qingpo,Zhang, Hengmu.

[7]A novel serine protease with clip domain from scallop Chlamys farreri. Zhu, Ling,Song, Linsheng,Zhao, Jiangmin,Li, Chenghua,Xu, Wei,Zhu, Ling,Mao, Yuze. 2008

[8]Molecular characterization and immune response expression of the QM gene from the scallop Chlamys farreri. Chen, Guofu,Zhang, Chunyun,Wang, Yue,Wang, Yuanyuan,Guo, Changlu,Wang, Chongming.

[9]Identification and Characterization of MicroRNAs in the Liver of Blunt Snout Bream (Megalobrama amblycephala) Infected by Aeromonas hydrophila. Cui, Lei,Wei, Wei,Wang, Weimin,Liu, Hong,Hu, Hongtao,Wei, Wei,Liu, Hong. 2016

[10]Loop-mediated isothermal amplification for rapid detection of Acute viral necrobiotic virus in scallop Chlamys farreii. Ren, W. C.,Wang, C. M.,Cai, Y. Y.,Ren, W. C.,Cai, Y. Y.. 2009

[11]Assortative fertilization in Chlamys farreri and Patinopecten yessoensis and its implication in scallop hybridization. Lu, Zhengming,Yang, Aiguo,Wang, Qingyin,Liu, Zhihong,Zhou, Liqing. 2006

[12]Variations in retention efficiency of bivalves to different concentrations and organic content of suspended particles. Zhang Jihong,Fang Jianguang,Liang Xingming. 2010

[13]Comparative transcriptomics reveals genes involved in metabolic and immune pathways in the digestive gland of scallop Chlamys farreri following cadmium exposure. Zhang Hui,Zhai Yuxiu,Yao Lin,Jiang Yanhua,Li Fengling,Zhang Hui,Zhai Yuxiu,Yao Lin,Jiang Yanhua,Li Fengling,Zhang Hui,Zhai Yuxiu,Yao Lin,Jiang Yanhua,Li Fengling. 2017

[14]Discovery of genes associated with cadmium accumulation from gill of scallop Chlamys farreri based on high-throughput sequencing. Zhang, Hui,Zhai, Yuxiu,Yao, Lin,Jiang, Yanhua,Li, Fengling,Zhang, Hui,Zhai, Yuxiu,Yao, Lin,Jiang, Yanhua,Li, Fengling,Zhang, Hui,Zhai, Yuxiu,Yao, Lin,Jiang, Yanhua,Li, Fengling.

[15]Carbon dioxide fixation by the seaweed Gracilaria lemaneiformis in integrated multi-trophic aquaculture with the scallop Chlamys farreri in Sanggou Bay, China. Han, Tingting,Han, Tingting,Han, Tingting,Jiang, Zengjie,Fang, Jianguang,Zhang, Jihong,Mao, Yuze,Zou, Jian,Huang, Yao,Wang, Dongzhe,Huang, Yao,Wang, Dongzhe.

[16]Primary culture of Zhikong scallop Chlamys farreri hemocytes as an in vitro model for studying host-pathogen interactions. Ji, Aichang,Li, Xueyu,Fang, Sha,Qin, Zhenkui,Zhang, Zhifeng,Bai, Changming,Wang, Chongming.

[17]The effects of Zhikong scallop (Chlamys farreri) on the microbial food web in a phosphorus-deficient mariculture system in Sanggou Bay, China. Lu, Jiachang,Lu, Jiachang,Huang, Lingfeng,Xiao, Tian,Zhang, Wuchang,Jiang, Zengjie.

[18]Size fraction of phytoplankton and the contribution of natural plankton to the carbon source of Zhikong scallop Chlamys farreri in mariculture ecosystem of the Sanggou Bay. Jiang Zengjie,Du Meirong,Fang Jinghui,Gao Yaping,Li Jiaqi,Fang Jianguang,Jiang Zengjie,Fang Jianguang,Zhao Li. 2017

[19]Emerging and endemic types of Ostreid herpesvirus 1 were detected in bivalves in China. Bai, Changming,Wang, Chongming,Xia, Junyang,Zhang, Shuai,Huang, Jie,Bai, Changming,Wang, Chongming,Huang, Jie,Sun, Hailin.

[20]Physiological and biochemical responses of Zhikong scallop, Chlamys farreri, to different thermal stressors. Jiang, Weiwei,Jiang, Weiwei,Jiang, Weiwei,Jiang, Zengjie,Du, Meirong,Mao, Yuze,Li, Jiaqi,Fang, Jinghui,Lv, Xuning,Xue, Suyan,Wang, Wei,Zhang, Jihong,Fang, Jianguang,Jiang, Zengjie,Zhang, Jihong,Fang, Jianguang,Zhang, Yuan.

作者其他论文 更多>>

微信小程序