Prediction of new transcripts,variable splicing and SNP analysis of compound probiotics in broiler ileum based on RNA-seq
The purpose of the experiment was to analyze the prediction of new transcripts,alternative splicing events and SNPs in the ileal transcriptome of compound probiotic-fed broilers.200 1-day-old jute broilers were randomly divided into 2 groups with 5 replicates in each group and 20 in each replicate.The control group had normal drinking water,and the probiotic group's drinking water was supplemented with a 1％compound bacteria preparation.The test was divided into two stages:the early growth period(1～21 days)and the late growth period(22～42 days).At 42 days of age,a broiler slaughter test was carried out.Three samples from each of the ileum of the control group and the probiotic group were taken for transcriptome sequencing.The sequencing data were analyzed,a total of 1047 new genes,20176 new transcripts were found,and 276 new genes were classified and annotated in the GO database.Performing alternative splicing analysis on transcriptome data,exon skipping(SE)accounts for the highest proportion of alternative splicing types.The results of 1131 significant differences were screened.Spliced genes,Skipped exon(SE),Alternative 5'splice site(A5SS),Alternative 3'splice site(A3SS),Mutually exclusion exon(MXE),Retained intron(RI)event were 588,139,176,136,and 92,respectively.GO enrichment analysis was performed on the obtained differentially Spliced genes,mainly enriched in metabolic and immune GO terms.KEGG was enriched to endocytosis,MAPK signaling pathway and so on.In each sample,most of the base substitutions were conversion greater than transversion,and the percentage of converted SNPs was 73.53％～73.94％;the percentage of transversion SNPs was 26.05％～26.47％.RNA-seq sequencing analysis was performed on the ileum of broilers in the control group and the probiotic group,which provided a basis for exploring the alternative splicing events of the ileum of broilers acted by compound probiotics,and provided data support for further understanding the discovery of new transcripts and SNP sites of the ileum of broilers acted by compound probiotics.
万方数据
维普
