京海黄鸡卵巢转录组研究:基因结构分析与新基因发掘注释  

Study on RNA-Seq of Jinghai Yellow Chicken Ovary:Analysis of Gene Structure and Mining New Genes

作　　者：韩昆鹏[1,2] 段炼[1,2] 李婷婷[1,2] 王金玉[1,2] 张涛[1,2] 李国辉[1,2] 张跟喜[1,2] 薛倩[1,2] 

机构地区：[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

出　　处：《中国畜牧兽医》2016年第4期854-861,共8页China Animal Husbandry & Veterinary Medicine

基　　金：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

摘　　要：本试验通过对京海黄鸡卵巢组织进行转录组分析,旨在为完善京海黄鸡部分基因结构和发掘新基因提供参考。选取高、低产京海黄鸡各4只,利用转录组测序(RNA-Seq)技术对其卵巢转录组进行测序,然后对得到的测序数据进行生物信息学分析。测序数据经过质量控制后,8个样品共得到484 992 074条有效数据(Clean Reads),总计61.09Gb。筛选出1 445 264个京海黄鸡品种内SNP位点,其中位于基因区的SNP位点916 108个,位于基因间区的SNP位点552 168个。8个样品中平均新预测的可变剪接12 883个,并对7 481个基因结构进行了优化。与所选的参考基因组序列对比分析,共发掘4 431个新基因,通过与各数据库进行序列对比,1 809个新基因得到功能注释。本研究通过转录组测序技术检测了京海黄鸡卵巢组织的基因结构,为进一步完善京海黄鸡的基因结构信息及发掘潜在的新基因提供分子水平的依据。In the present study,in order to improve part of the gene structure and mine new genes,transcriptome of ovary of 4low and 4high egg production Jinghai Yellow chickens were analyzed using RNA-Seq technology.The sequencing data was analyzed by bioinformatics methods.After quality control,484 992 074 clean reads with a total of 61.09 Gb were obtained from the ovary library.1 445 264 SNPs were scanned in which 916 108 SNPs were located in gene region and552 168 were located in intergenic region.The average new alternative splicing of 8samples were12 883.7 481 genes were optimized gene structure.4 431 novel genes were mined by comparing to the chicken reference genome.1 809 novel genes were obtained by sequence alignment in different database after function annotations.The current study detected the structure of genes in ovary of Jinghai Yellow chicken using RNA-Seq technology,which improved the gene structure information of Jinghai Yellow chicken and provided basis for mining new genes at the molecular level.

关 键 词：转录组测序 京海黄鸡 基因结构 SNP 新基因 

分 类 号：Q78[生物学—分子生物学]