千金子叶绿体基因组的结构及特征分析  

Structure and Characterization Analysis of Chloroplast Genome of Leptochloa chinensis

作　　者：田祥瑞 徐梦彬 王飞 叶凌凤 TIAN Xiang-rui;XU Meng-bin;WANG Fei;YE Ling-feng(Institete of Mordern Agriculture,Jiangsu Provincial Agricultural Reclamation and Development Corporation,Nanjing 210031)

机构地区：[1]江苏省农垦农业发展股份有限公司现代农业研究院,江苏南京210031

出　　处：《杂草学报》2022年第2期6-14,共9页Journal of Weed Science

基　　金：江苏省重点研发计划(编号:BE2019396);江苏省“双创博士”及南京市留学人员科技创新计划。

摘　　要：千金子是稻田一年生禾本科恶性杂草,已成为威胁水稻生产的优势种群。采用Illumina HiSeq测序及生物信息分析方法对千金子叶绿体全基因组序列进行测定、组装、注释和解析。结果表明,千金子叶绿体基因组全长为135656 bp,GC含量为38.26%,呈现典型的禾本科植物叶绿体基因组的4段闭合环状结构;其中,大单拷贝区80843 bp,小单拷贝区12768 bp,反向重复区42045 bp;通过功能富集,共获得注释基因131个,包括84个蛋白编码基因、39个tRNA基因和8个rRNA基因;另外,还检测到49条简单重复序列(SSR)和46条长度大于20 bp的重复序列。利用IQTREE软件,基于叶绿体基因组以粳稻为外群构建了25种禾本科杂草的系统进化树,显示出千金子与真穗草属、虎尾草属和狗牙根属杂草具有相对较近的亲缘关系,而3种稗属杂草则与水稻的亲缘关系更近。本研究结果可为千金子的精准识别和分子进化解析提供理论借鉴。Leptochloa chinensis(L.)Nees is an annual gramineousmalignant weed in rice field,which has become a dominant weed population threatening rice production.In this study,Illumina HiSeq sequencing and bioinformatics analysis methods were used to determine,assemble,annotate and analyze the whole chloroplast genome sequence of L.chinensis.The results indicated that the full length of L.chinensis chloroplast genome was 135656 bp and the content of GC was 38.26%,showing a typical four segment closed ring structure of chloroplast genome of gramineous plants;among them,the large single copy region was 80843 bp,the small single copy region was 12768 bp,and the inverted repeat region was 42045 bp;through functional enrichment,131 annotated genes were obtained,including 84 protein encoding genes,39 tRNA genes and 8 rRNA genes;in addition,49 simple sequence repeats(SSRs)and 46 repeats longer than 20 bp were detected.Using IQTREE software,the phylogenetic tree of 25 weeds was constructed based on chloroplast genomes and japonica rice as outgroup;it showed that there were relatively close relationships among L.chinensis,Eustachys,Chloris and Cynodon,while 3 Echinochloa weeds were more closely related to rice.This study provides a theoretical reference for the accurate identification and molecular evolution analysis of L.chinensis.

关 键 词：千金子 叶绿体基因组 结构特征 功能基因注释 SSR 系统发育进化树 

分 类 号：S451[农业科学—植物保护]