鳙体型差异个体转录组与miRNA的联合分析  

Integrated analysis of transcriptome and miRNA expression in Hypophthamichthys nobilis individuals with different body shapes

作　　者：邓玉婕 朱文彬[2] 傅建军[2] 罗明坤 王兰梅[2] 梁政远 董在杰 DENG Yujie;ZHU Wenbin;FU Jianjun;LUO Mingkun;WANG Lanmei;LIANG Zhengyuan;DONG Zaijie(Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources,Ministry of Education,Shanghai Ocean University,Shanghai 201306,China;Key Laboratory of Freshwater Fisheries and Germplasm Resource Utilization,Ministry of Agriculture and Rural Affairs,Freshwater Fisheries Research Center,Chinese Academy of Fishery Sciences,Wuxi 214081;Wuxi Raysun Fishery Sceince and Technology Co.,Ltd.,Wuxi 214000)

机构地区：[1]上海海洋大学,水产种质资源发掘与利用教育部重点实验室,上海201306 [2]中国水产科学研究院淡水渔业研究中心,农业农村部淡水渔业与种质资源利用重点实验室,江苏无锡214081 [3]无锡瑞顺水产养殖科技有限公司,江苏无锡214000

出　　处：《水产学报》2025年第1期51-63,共13页Journal of Fisheries of China

基　　金：国家大宗淡水鱼产业技术体系专项(CARS-45);中国水产科学研究院淡水渔业研究中心基本科研业务费专项(2023JBFZ02,2023JBFM07)。

摘　　要：【目的】探究影响鳙体型差异的分子机制。【方法】本实验以正常鳙个体(CK组)和缩骨鳙个体(PG组)为研究对象,进行转录组和miRNA测序分析。【结果】共获得25327个Unigenes和8325个miRNA,鉴定到930个差异表达基因(DEGs)和146个差异表达miRNA(DEMs),包括473个上调和457个下调基因,44个上调和102个下调miRNA。对DEGs和DEMs的靶基因联合分析,获得了140个重复基因,功能富集到细胞周期(ko04110)、DNA复制(ko03030)、黏着斑(ko04510)和ECM受体相互作用(ko04512)等信号通路。其中,鉴定到如exo1、mcm4、ccna2、smc2和ccna2等16个参与骨骼形成发育的基因,推测可能与鳙的体型差异形成有关。此外,通过mRNA-miRNA网络互作分析,挖掘到如apob、tgfbr2a和col2a1b等基因,miR-34a-5p、miR-252a和miR-6547-5p等miRNAs;分析上述基因可能在调控和维持鳙的体型中发挥作用。实时荧光定量PCR(qPCR)实验发现,表达差异趋势与RNA-Seq和sRNA-Seq数据结果一致。【结论】研究发现的DEGs、DEMs和富集到的代谢通路可能与鳙的缩骨体型差异存在关联,实验结果可为后续深入揭示鳙影响体型差异的分子机制提供基础数据。To explore the molecular mechanisms affecting the body shape differences in Hypophthamichthys nobilis,morphological different H.nobilis individuals with normal body shape(CK group)and with shortened body(PG group)were collected for transcriptome and miRNA sequencing analysis in this study.The results showed that a total of 25327 unigenes and 8325 miRNAs were obtained.930 differentially expressed genes(DEGs)and 146 differentially expressed miRNAs(DEMs)were identified,including 473 up-regulated genes and 457 down-regulated genes,as well as including 44 up-regulated miRNAs and 102 down-regulated miRNAs,respectively.By comparing the DEGs and target genes of DEMs,140 overlapped genes were obtained,which were mostly enriched in cell cycle(ko04110),DNA replication(ko03030),adhesion plaques(ko04510),and ECM receptor interaction(ko04512)signaling pathways.Additionally,16 overlapped DEGs were identified to be involved in bone formation and development,such as exo1,mcm4,ccna2,smc2 and ccna2,which were hypothesized to be associated with H.nobilis body shape differences.In addition,through mRNA-miRNA interaction network analysis,DEGs including apob,tgfbr2a and col2a1b as well as DEMs including miR-34a-5p,miR-252a and miR-6547-5p were detected as core members in the network;these DEGs and DEMs may play important roles in regulating and maintaining the morphologically in H.nobilis.Validation experiments using qPCR revealed that the trends of relative expression differences between CK with PG groups were consistent with the RNA-Seq and sRNA-Seq data.These DEGs,DEMs,and enriched metabolic pathways identified in this study may be associated with H.nobilis body shape difference.This study may provide basic data for further exploration of the molecular mechanisms affecting body shape differences in H.nobilis.

关 键 词：鳙 体型 骨骼发育 差异表达基因 差异表达miRNA 

分 类 号：Q786[生物学—分子生物学] S961.6[农业科学—水产养殖]