Comparative Analysis Of The Whole Transcriptome Of Muscle Tissue In Fast-and Slow-Growing Families Of Takifugu Rubripes

Takifugu rubripes is the main cultured economic fish in China,with delicious meat and rich nutrition.In recent years,there are phenomena such as degradation of germplasm resources,slow growth rate and poor disease resistance of T.rubripes,which seriously limit the development of T.rubripes industry,so breeding high quality fry is of great significance to solve these problems.In this study,the whole sibling family of 12-month-old T.rubripes with fast growth rate and slow growth rate was used to understand the genes,non-coding RNAs and their regulatory network that affect the muscle growth of T.rubripes,and the whole transcriptome sequencing technology was used to analyze the muscle tissue of T.rubripes,to explore the key related genes and non-coding RNAs regulating the muscle growth,and to construct the coexpression regulatory network for The results were used to identify key genes and non-coding RNAs regulating muscle growth and to construct a co-expression regulatory network for the breeding of high quality fry.A total of 24,050 m RNAs and 6,591 non-coding RNAs were identified from the slowgrowing and fast-growing lineages of T.rubripes oriental herring(P1 and P2)by whole transcriptome sequencing,and the non-coding RNAs included 4,126 lncRNAs,791 cicrRNAs and 1,674 miRNAs.818 differentially expressed genes and 143 differentially expressed noncoding RNAs were screened and obtained.818 differentially expressed genes,of which 199 were up-regulated and 619 were down-regulated in P1;differentially expressed non-coding RNAs included 50 differentially expressed lncRNAs,of which 13 were up-regulated and 37 were down-regulated;37 differentially expressed cicrRNAs,of which 11 were up-regulated and 26 were down-regulated;56 differentially expressed miRNAs,of which 29 were up-regulated expression and 27 were down-regulated expression.In the GO enrichment analysis,DEGs,the target genes of DElncRNA and DEmiRNA and the source genes of DEcicrRNA were mainly enriched to biological processes such as cellular processes,biological regulation,and stress response;molecular components such as cellular components,cell membrane components,and organelles;catalytic activity,molecular sensor activity,transport activity,and signal transduction activity and other molecular functions.In the KEGG enrichment analysis,the signaling pathways such as ECM-receptor interaction,Wnt signaling pathway and Hippo signaling pathway were mainly enriched,and nine growth and immune-related genes GADD45 g,myosin10,My HC,STAT1,STAT2,IRF1,IRF9,raptor,BMPR2;key regulatory lncRNAs: MSTRG.21406.6,MSTRG.23209.3,MSTRG.20359.1,MSTRG.19746.28;key regulatory miRNAs: miR-205,miR-431,miR-206.Co-expression analysis identified two important genes(MACF1,Selp);six cicrRNAs(NC＿042300.1:5935379|5950488、NC＿042303.1:3834549|3837580、NC＿042292.1:5803789|5804296、NC＿042302.1:6284682|6286920、NC＿042287.1:4661139|4662828、NC＿042301.1:10989731|11007550);seven miRNAs(miR-271,miR-375,miR-396,miR-471,miR-475 miR-511,miR-622).In this study,we deeply explored the genes and non-coding RNAs affecting the growth of muscle tissues of T.rubripes,constructed the co-expression network and identified key genes to provide reference for the subsequent breeding of high quality varieties.