番鸭下丘脑组织的RNA-Seq特征分析

为筛选番鸭下丘脑组织中的基因组信息，本研究以NCBI数据库中已标注的绿头鸭基因组（登录号：BGI_duck_1.0）为参照，利用RNA-Seq技术对番鸭下丘脑组织基因表达水平，以及可变剪切事件、SNPs及InDel进行筛选。结果显示，共鉴定出14 619个基因表达（FPKM ≥ 1），占筛选出总基因数的72.7%。共有5 034个基因发生了7 528次可变剪切，其中外显子跳跃占92.76%，第一个外显子可变剪切和内含子滞留所占比例最小，共占总数的0.027%。通过RNA-Seq技术，本研究还筛选到646 423个SNP位点和77 712个InDel位点。对SNPs和InDel所在的基因进行功能注释发现，这些基因主要参与分子功能、生物过程和细胞组成过程。通过KEGG通路分析发现，出现SNPs和InDel所在基因主要富集在内分泌调节和神经行为调节的相关通路上，表明下丘脑既可参与内分泌调节，又参与动物的神经行为调节。本研究筛选出的数据不仅丰富了番鸭的遗传信息，而且也建立了番鸭相关基因的SNPs和InDel的数据库，这为番鸭的遗传育种工作及相关功能基因的具体定位提供了可靠依据，同时也为以后番鸭行为的研究提供了一定的参考价值。

Characteristics Analysis of Hypothalamus of Muscovy Ducks by RNA-Seq

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.