SNP analysis of the ovarian transcriptome of Columba livia with different egg production numbers
In order to explore the genes and genetic markers related to egg production in Columba livia,STAR was used to compare high-quality transcriptome sequences of ovarian tissue transcriptome data from high and low egg production Columba livia with the ref-erence genome,after removing duplicate sequences,single nucleotide polymorphism(SNP)screening was performed using GATK.Af-ter controlling SNP quality using VCFtools,principal component analysis,evolutionary tree construction,and Fst calculation were performed.KEGG enrichment analysis was used to identify the gene where the SNP was located.The results showed that the high-yielding egg group had a total of 298 957 SNPs,the low yielding egg group had a total of 296 137 SNPs,and the high-yielding and low-yielding egg groups had a total of 254 118 SNPs.The KEGG analysis results showed that the SNP gene was significantly enriched in the progesterone regulated signaling pathways of oocyte maturation,meiosis,and metabolism;102 specific SNPs were distributed on 14 annotation genes(LOC110357454,KDM5A,PIGS,BNC2,GBF1,SLAIN2,FGD4,DIAPH2,KIF3B,NFIB,EPG5,OSTF1,EMB,and ST3GAL3)in the high and low egg production groups,and the enriched signaling pathways may be closely related to their egg production ability.
Columba livia(Columba livia)ovarian transcriptomeSNPegg production numbers
NETL
NSTL
万方数据
