山东栒子全长转录组测序数据组装及功能注释  

Full-length Transcriptome Sequencing Assembly and Functional Annotation of Cotoneaster schantungensis

作　　者：步俊彦 倪瑞强 臧德奎[1] Bu Junyan;Ni Ruiqiang;Zang Dekui(College of Forestry,Shandong Agricultural University,Taian,271000)

机构地区：[1]山东农业大学林学院

出　　处：《分子植物育种》2020年第1期92-99,共8页Molecular Plant Breeding

基　　金：山东省科技创新项目(LYCX01-2018-03);国家自然科学基金(31870688)共同资助

摘　　要：山东栒子是中国山东省的特有种,现已处于极度濒危状态。目前,山东栒子的分子生物学研究较少,基因数据库资源极度缺乏,急需探究其生物学遗传信息,以加快对山东栒子的保护遗传学工作。本研究以山东栒子叶片、花、成熟果实为实验材料,利用PacBio Sequel测序平台对其转录组进行全长转录组测序。共得到高质量去冗余的转录本53932个,作为最终转录本序列。预测到的CDS区共52490个;对其SSR位点进行分析,对测序得到Unigenes进行单核苷酸至六核苷酸重复的SSR位点搜索,共搜索到26796个SSR位点。对非冗余转录本利用BLAST软件与NR、Swissprot、GO、COG、KOG、KEGG 6个数据库进行比对,一共成功注释了53319个Unigenes,其中与NR数据库进行比对中注释为苹果的的相关基因数量最多,其次是白梨和桃;在GO数据库中有33305条山东栒子Unigenes被注释分类,由生物学过程、细胞成分和分子功能三部分组成;在与COG数据库比对中,共有23910条比对到了同源序列,且一共被分为25类;在与KEGG数据库的一系列比对中,可将Unigenes映射到126条代谢通路中。本研究在高通量全长转录组水平对山东栒子进行了系统研究,这为进一步开展山东栒子的分子标记开发和挖掘优良基因提供了科学依据,从而推动山东栒子的保护与利用。Cotoneaster schantungensis is endemic to Shandong Province,and it is now in an extremely endangered state.At present,there are few molecular biology studies in Cotoneaster schantungensis,and the genetic database resources are extremely scarce.It is urgent to explore its biological genetic information,to speed up the work of conservation genetics on Cotoneaster schantungensis.Using leaves,flowers and mature fruits of Cotoneaster schantungensis as experimental materials,the full-length transcriptome was sequenced by Pacbio Sequel sequencing platform.A high-quality transcript was subjected to de-redundancy analysis,and a total of 53932 transcripts were obtained as the final transcript sequence.A total of 52490 CDS regions were predicted;the SSR locus was analyzed,and for single-nucleotide to hexanucleotide repeat SSR sites in the Unigenes was searched,in which 26796 SSR loci were found.Using the BLAST software,the obtained non-redundant transcript sequences were successfully annotated with N R,Swissprot,GO,COG,KOG,KEGG databases for comparisons.53319 Unigenes in sum were annotated.Among them,the number of related genes annotated with Malus demostica in the NR database was the highest,followed by Pyrus bretschneideri and Prunus persica.There are 33305 Cotoneaster schantungensis Unigenes in the GO database was annotated and classified into biological processes,cellular components and molecular functions;In comparison with the COG database,a total of 23910 pairs of homologous sequences were contrasted and divided into 25 categories.As the KEGG database shown,Unigenes can be mapped to 126 metabolic pathways.This research intensively studied the Cotoneaster schantungensis at the high-throughput full-length transcriptome level,which laid the foundation for the further development of molecular markers and the mining of excellent genes in this species,thereby promoting the protection and utilization of Cotoneaster schantungensis.

关 键 词：山东栒子(Cotoneaster schantungensis) 全长转录组 功能注释 SSR位点 

分 类 号：S686[农业科学—观赏园艺]