摘要
本研究基于RNA-Seq技术对云南榧树扦插苗叶片的转录组进行测序并对生物信息学进行相关分析。研究结果表明,经组装分析获得164 808个长度大于200 bp的transcript,进一步处理得到123 085个Unigene,进一步将获得的Unigene与SWISS-PROT、TREMBL、CDD、PFAM、NR和KOG数据库进行同源比对,共有11 911个Unigene被注释上25种KOG分类。对Unigene进行了KEGG注释,其中有278基因共注释上157个KO,261个基因共注释上111个通路。进一步对GO功能分类进行预测,被注释上GO分类的有21 786个Unigene。从164 808个transcript中查找到1 260个SSR位点,并合成100对引物进行PCR和毛细管电泳验证,最终筛选出10对多态性较好的引物。研究结果可为榧树属植物基因的挖掘和后期SSR分子生物学研究提供科学依据。
This research established a reference transcriptome sequencing and bioinformatics analysis of cutting seedling's leaf from Torreya yunnanensis by RNA-Seq technology.The results showed that 164 808 transcripts longer than 200 bp were generated from the Torreya yunnanensis transcriptome.By further processing of transcript,123 085 Unigenes were obtained,in which 123 085 Unigenes were aligned to the sequences of public databases,including SWISS-PROT,TREMBL,CDD,PFAM,NR and the KOG database,and 11 911 Unigenes were assigned at 25KOGclassifications.Unigenewas annotatedwithKEGG,inwhich 278 geneswere annotatedwith 157 KOs and 261 genes with 111 pathways..We further predicted the classification of GO functions,and 21 786 GO Unigene categories were annotated.1 260 SSR loci were identified from 164 808 transcripts and 100 pairs of primers were synthesized for PCR and capillary electrophoresis.Finally,10 pairs of primers with good polymorphism were selected.This study could provide scientific evidence for the research of gene extraction and SSR molecular biology of Torreya.
作者
张金丽
李靖
周炳江
赵友杰
胥辉
马长乐
Zhang Jinli;Li Jing;Zhou Bingjiang;Zhao Youjie;Xu Hui;Ma Changle(College of Landscape Architecture,Southwest Forestry University,Kunming,650224)
出处
《分子植物育种》
CAS
CSCD
北大核心
2019年第4期1147-1153,共7页
Molecular Plant Breeding
基金
国家自然科学基金(31360037)资助
