番鸭下丘脑组织的RNA-Seq特征分析

doi:10.16431/j.cnki.1671-7236.2018.03.006

Abstract

Abstract:

In order to screen the genomic information of the hypothalamus of Muscovy duck,the genome of mallard that has labeled in the NCBI database (accession No.:BGI_duck_1.0) was taken as a reference in this study.The gene expression, alternative splice,SNPs and InDel of Muscovy duck hypothalamus were screened and analyzed by RNA-Seq technology.The results showed that there were 14 619 genes identified that had been expressed (FPKM≥1),which accounted for 72.7% of all the screened genes.There were 5 034 genes had 7 528 variable shear,among them,exon skipping accounted for 92.76%,and the number of variable shear of first exon and intron retention was the lowest,which was 0.027%.The results of RNA-Seq technology showed that 646 423 SNPs and 77 712 InDel were screened out in the study.The functional annotations of genes which had SNPs and InDel revealed that these genes were mainly involved in molecular functions,biological processes and cell composition.The results of KEGG pathway analysis showed that those genes were mainly concentrated in the related pathway of endocrine regulation and neurobehavioral regulation,which suggested that the regulation of the hypothalamus involved not only endocrine regulation but also neurobehavioral regulation.The data which was screened in this study was not only enriched the genetic information of Muscovy duck,but also established a database of related genes SNPs and InDel of Muscovy duck.It was not only provided a reliable basis for the genetic breeding of Muscovy duck and the specific locations of related functional genes,but also provided a certain reference for the future research of Muscovy duck behavior.

Key words: transcriptome; Muscovy duck; hypothalamus; alternative splice; SNPs; InDel

CLC Number:

Q786

WANG Xuping, YANG Shenglin, LIU Chenggang, LU Man, YANG Rucai, TAN Bin, ZHOU Meidi, WANG Dana, LI Xiaomeng. Characteristics Analysis of Hypothalamus of Muscovy Ducks by RNA-Seq[J]. , 2018, 45(3): 604-611.

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Characteristics Analysis of Hypothalamus of Muscovy Ducks by RNA-Seq

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