Transcriptome-wide identification and characterization of the Procambarus clarkii microRNAs potentially related to immunity against Spiroplasma eriocheiris infection
Transcriptome-wide identification and characterization of the Procambarus clarkii microRNAs potentially related to immunity against Spiroplasma eriocheiris infection
复制标题
克氏原螯虾 microRNA 的全转录组鉴定和表征，可能与针对 Eriocheiris 螺原体感染的免疫相关。
DOI：
10.1016/j.fsi.2013.05.013
复制
发表时间：
2013-08-01
影响因子：
4.7
通讯作者：
Wang, Wen
中科院分区：
文献类型：
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作者：
Ou, Jiangtao;Li, Yue;Wang, Wen
我们使用Illumina/Solexa深度测序技术对从正常和感染条件下的克氏原螯虾血细胞制备的两个小RNA文库进行测序。高通量测序方法产生约12，801，827和8，410，455个原始读段，分别对应于正常和感染血细胞样品的10，949，754和6，648，161个高质量可映射读段。生物信息学分析确定了195个独特的miRNA，包括30个在甲壳类动物中保守的，48个对小龙虾来说是新的，但存在于其他节肢动物中（PN型），117个是全新的（PC型）。33种miRNAs在两种血细胞样品之间显示出显著的差异表达（p < 0.0001）。其中，15个（45.5%）显着上调，18个（54.5%）显着下调后，挑战与螺原体eriocheiris。综合比较基因组学和文献组学分析，在鉴定的33个显著的miRNAs中，19个在感染克氏原螯虾和中华绒螯蟹中是保守的且与免疫相关。24个在克氏原螯虾和囊对虾对绒螯蟹的免疫应答中是保守的和免疫相关的。绒螯蟹或白色斑点综合征病毒（WSSV）感染。目的基因的功能注释揭示了小龙虾miRNAs调控的多种生物学过程和信号转导途径。其中，pcl-miR-34、pcl-miR-7、PN-pcl-let-7、pcl-miR-1和pcl-miR-2b在脊椎动物和无脊椎动物中高度保守，并且在相似的途径中发挥作用。据我们所知，这是第一个全面鉴定克氏原杆菌miRNAs和分析暴露于S.在正常和感染条件下，许多miRNAs受到不同程度的调控。我们的研究结果将有助于开发新的控制策略，有效的免疫保护对S。甲壳类动物的绒螯蟹感染。(C)2013爱思唯尔有限公司保留所有权利。
We used the Illumina/Solexa deep sequencing technology to sequence two small RNA libraries prepared from hemocytes of Procambarus clarkii under normal and infection conditions. The high-throughput sequencing approach resulted in approximately 12,801,827 and 8,410,455 raw reads corresponding to 10,949,754 and 6,648,161 high-quality mappable reads for the normal and infected hemocyte samples, respectively. Bioinformatic analyses identified 195 unique miRNAs, including 30 that are conserved in crustaceans, 48 that are novel to crayfish but are present in other arthropods (PN-type), and 117 that are completely new (PC-type). Thirty-three miRNAs displayed significant differential expressions between the two hemocyte samples (p < 0.0001). Of these, 15 (45.5%) were significantly up-regulated and 18 (54.5%) were significantly down-regulated upon challenge with Spiroplasma eriocheiris. Integrating comparative genomic and bibliomic analysis, of the 33 significant miRNAs identified, 19 were conserved and immune-related in P. clarkii and Eriocheir sinensis infected with S. eriocheiris infection; 24 were conserved and immune-related in P. clarkii and Marsupenaeus japonicus immune response to S. eriocheiris or white spot syndrome virus (WSSV) infection. Function annotation of target genes revealed a broad range of biological processes and signal transduction pathways that regulated by crayfish miRNAs. Thereinto, pcl-miR-34, pcl-miR-7, PN-pcl-let-7, pcl-miR-1, and pcl-miR-2b are highly conserved in vertebrates and invertebrates and function in the similar pathways. To our knowledge, this is the first report of comprehensive identification of P. clarkii miRNAs and of expression analysis of P. clarkii miRNAs after exposure to S. eriocheiris in crayfish, and many miRNAs were differentially regulated under normal and infection conditions. Our results should help develop new control strategies for efficient immune protection against S. eriocheiris infections in crustaceans. (C) 2013 Elsevier Ltd. All rights reserved.