黄连基因组勘测与分析  

Genome survey sequencing and analyzing of Coptis chinensis based on next-generation sequencing

作　　者：孙全[1] 何晓红[1] 牟军[1] 蔡应繁[1,2] 

机构地区：[1]重庆邮电大学生物信息学院,重庆400065 [2]河南大学生命科学学院,棉花生物学国家重点实验室,河南省植物逆境生物学重点实验室,开封475004

出　　处：《四川大学学报（自然科学版）》2014年第6期1330-1334,共5页Journal of Sichuan University(Natural Science Edition)

基　　金：国家自然科学基金(31071461);重庆市自然科学基金(cstc2012jjA80037);重庆市教委自然科学基金(KJ130502)

摘　　要：本研究基于下一代测序技术,对黄连基因组进行了勘测,构建了两个插入片段大小分别为200bp和500bp的文库,进行了深度约30X的测序。通过测序获得了54Gb的原始数据,过滤后得到44.8G数据。通过SOAP de nove软件组装后初步获得了contig和Scaffold序列,进一步分析结果显示其基因组大小为1,116Mb左右,大约具有1.1%的杂合度,说明要完成该物种的全基因测序可能在使用鸟枪法的同时,还应该联合BAC文库测序等多种方法.对这些数据进行了初步的组装,获得了130,381条scaffold序列.This research investigates the genome of Coptis chinensis which based on the next generation sequencing technology. Two libraries with insert fragment sequences about 200bp and 500bp were con- structed and the sequenced depth about 30x. About 44.8Gb reads were obtained, after filtering the low quality of 54Gb raw data. The data were used for further analysis, and The result data shows the Coptis chinensis genome size is nearly 1, 116Mb and the heterozygosity of it is about 1.1%. It suggest that not only the shotgun method but other methods such as combining BAC library sequencing should be used to completing the whole genome sequence of Coptis chinensis. This research assembled these data prelimi- nary and got 130381 scaffold sequences which could offer a foundation and a guidance for the further whole genome sequencing.

关 键 词：黄连 基因组 测序 分析 

分 类 号：Q349[生物学—遗传学]