闽楠转录组分析及基因功能注释

Transcriptome Analysis and Gene Functional Annotation in Phoebe bournei

采用第二代Illumina HiSeq测序技术对闽楠的木质部、韧皮部、叶片进行转录组测序,分别获得Clean Reads片段41383707条、43343922条、44191586条,经转录本拼接后得到序列总长度达120535288 bp的383331条Conting片段,进一步组装得到平均长度为542 bp的151729条Unigenes。将闽楠转录组Unigenes进行基因功能注释,与NR数据库比对发现,其与葡萄的相似序列最多(34%),与黄瓜、野草莓、大豆的同源性较低(各占3%);进行GO功能注释,可将其划分为生物过程、细胞成分、分子功能3大类共计52个分支,与eggNOG数据库比对可分为25类,通过KEGG功能注释可知转录组中涉及的基因共参与了176条代谢通路,其中核糖体和碳代谢获得的注释较多。另外通过MISA软件分析,共获得35972个SSR位点。其中,单核苷酸、二核苷酸和三核苷酸为优势重复类型,SSR位点数分别为21762(60.50%),8931(24.83%),4924(13.69%)。闽楠转录组分析及基因功能注释为深入开展闽楠遗传育种及分子生物学相关研究奠定基础。

The second generation Illumina HiSeq sequencing technology was used to sequence the xylem,phloem and leaves of Phoebe bournei,and 41383707,43343922,44191586 clean reads fragments were obtained,respectively.After transcript splicing,the total length of the sequence was 120535288 bp,including 383331 contings.The contings were further assembled to obtain 151729 Unigenes with an average length of 542 bp.The gene function of the transcriptome unigenes was annotated with the NR database.It was found to have the most similar sequence with grape(34%)and low homology with cucumber,wild strawberry and soybean(3%each).The GO function annotation showed that it can be divided into 52 branches of biological process,cell component and molecular function.Using eggNOG,it can be divided into 25 categories.The KEGG function annotation indicates that the genes involved in the transcriptome are involved.There are 176 metabolic pathways,most of the notes on ribosome and carbon metabolism are obtained.In addition,through the MISA software analysis,a total of 35972 SSR sites were obtained.Among them,single nucleotide,dinucleotide and trinucleotide were dominant repeat types,and the number of SSR sites was 21762(60.50%),8931(24.83%)and 4924(13.69%),respectively.It laid a foundation for further research on genetics,breeding and molecular biology.