基于RNA-Seq技术的京海黄鸡卵巢组织转录本预测及新基因挖掘

doi:10.16431/j.cnki.1671-7236.2017.02.028

《中国畜牧兽医》 ›› 2017, Vol. 44 ›› Issue (2): 497-504.doi: 10.16431/j.cnki.1671-7236.2017.02.028

基于RNA-Seq技术的京海黄鸡卵巢组织转录本预测及新基因挖掘

董新龙^1,2, 张向前^1,2, 韩昆鹏^1,2, 凌姣姣^1,2, 张跟喜^1,2, 王金玉^1,2, 王永娟³

1. 扬州大学动物科学与技术学院, 扬州 225009;
2. 江苏省动物遗传繁育与分子设计重点实验室, 扬州 225009;
3. 江苏京海集团, 南通 226103

收稿日期:2016-08-02 出版日期:2017-02-20 发布日期:2017-02-25
通讯作者: 王金玉 E-mail:jywang@yzu.edu.cn
作者简介:董新龙(1991-), 男, 甘肃天水人, 硕士生, 研究方向:动物遗传育种与繁殖, E-mail:405005858@qq.com
基金资助:
国家肉鸡产业技术体系（nycytx-42-G1-05）；江苏高校优势学科建设工程；江苏省动物遗传繁育与分子设计重点实验室

Prediction of Novel Transcripts and Discovery of Novel Genes on RNA-Seq Analysis of Jinghai Yellow Chicken Ovary

DONG Xin-long^1,2, ZHANG Xiang-qian^1,2, HAN Kun-peng^1,2, LING Jiao-jiao^1,2, ZHANG Gen-xi^1,2, WANG Jin-yu^1,2, WANG Yong-juan³

1. College of Animal Science and Technology, Yangzhou University, Yangzhou 225009, China;
2. Key Laboratory of Animal Genetics, Breeding, Reproduction and Molecular Design of Jiangsu Province, Yangzhou 225009, China;
3. Jiangsu Jinghai Poultry Group Co., Ltd., Nantong 226103, China

Received:2016-08-02 Online:2017-02-20 Published:2017-02-25

摘要/Abstract

摘要：

鸡及许多物种的全基因组测序及相关基因图谱都已宣告完成，但由于注释方法的局限性，还存在许多遗漏的新基因及对现有基因的误差注释。RNA-Seq技术是基于第2代测序技术的转录组学研究方法，该研究利用高通量测序技术对8只（高产组4只、低产组4只）300日龄体重一致、饲养条件相同、产蛋数存在差异的京海黄鸡的卵巢组织所有RNA反转录而成的cDNA文库进行测序，通过分析RNA-Seq获得的京海黄鸡卵巢组织转录组数据，共发现4 431个新转录本，并将所有新转录本与GO、NR、Swiss-Prot、KEGG数据库进行比对和分析，发现了很多潜在的新基因并进行功能注释，为鸡基因组的进一步完善及功能基因的挖掘提供了数据基础。

关键词: 转录组测序; 京海黄鸡; 新转录本; 新基因; 功能注释

Abstract:

The whole genome sequencing and related genetic map have been declared completed in chicken and many species. Because of the limitations of annotation methods, there are many missing novel genes and annotation errors of existed genes. RNA-Seq is a method for transcriptome studies based on second generation sequencing. In this study,we had sequenced cDNA library that were transcribed from all RNAs in ovaries of eight 300 days old Jinghai Yellow chickens(unanimous weight and the same rearing conditions, but there were difference on the number eggs and evenly divided into two groups: High laying performance and low laying performance) by using high-throughput sequencing technologies. 4 431 new transcripts were found by analysing transcriptome data, and many potential novel genes were found and annotated by comparing all new transcripts with GO, NR, Swiss-Prot and KEGG databases. Our work provided basic data for the further improvement of chicken genome and mining functional genes.

Key words: RNA-Seq; Jinghai Yellow chichen; new transcript; new gene; function annotation

中图分类号:

董新龙, 张向前, 韩昆鹏, 凌姣姣, 张跟喜, 王金玉, 王永娟. 基于RNA-Seq技术的京海黄鸡卵巢组织转录本预测及新基因挖掘[J]. 《中国畜牧兽医》, 2017, 44(2): 497-504.

DONG Xin-long, ZHANG Xiang-qian, HAN Kun-peng, LING Jiao-jiao, ZHANG Gen-xi, WANG Jin-yu, WANG Yong-juan. Prediction of Novel Transcripts and Discovery of Novel Genes on RNA-Seq Analysis of Jinghai Yellow Chicken Ovary[J]. , 2017, 44(2): 497-504.

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基于RNA-Seq技术的京海黄鸡卵巢组织转录本预测及新基因挖掘

Prediction of Novel Transcripts and Discovery of Novel Genes on RNA-Seq Analysis of Jinghai Yellow Chicken Ovary

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