滑皮金柑全长转录组测序分析

Full-length Transcriptome Sequencing and Comparative Genomics Analysis of Fortunella crassifolia Swingle

滑皮金柑(Fortunella crassifolia Swingle)为我国重要的柑橘类水果之一,为获得其完整的遗传信息,我们采用PacBio单细胞长链测序技术对滑皮金柑进行全长转录组测序,总获得13.81G原始数据.经处理得到12040个全长转录本,其中已知转录本为5033个,已知基因的新转录本为5589个,新基因转录本为1418个,确定的新转录本占比为58%.全长转录本对应于6984个基因,其中878个为新基因.经结构分析发现3031个基因发生了可变剪切事件,占比为43.4%;6106个基因至少含有一个poly(A)位点,且其中含有2个和2个以上的poly(A)位点的基因占比为42.3%;596个转录因子分布于82个转录因子家族;360个LncRNA序列和75个融合基因.通过对PacBio数据的进一步挖掘,该研究还发现了6个抗病基因,为滑皮金柑的抗病品种培育打下基础.

Fortunella crassifolia Swingle is one of the most important citrus fruits crops in China.In order to obtain com-plete genetic information,single-molecule long read isoform sequencing(SMRT-seq)technology of PacBio was performed to sequence the full-length transcriptome of Huapi kumquat,and a total of 13.81G raw data was produced.After analysis,we get 12,040 full-length transcripts including 5,033 known transcripts,5,589 new transcripts of known genes,1,418 new gene tran-scripts.58%of transcripts were newly excavated transcripts that had not been previously annotated.6,984 genes containing 878 new genes were annotated,and 3,031 genes(43.4%)were found to have alternative splicing events.6,106 genes con-tained at least one poly(A)sites,and the proportion of genes containing two or more poly(A)sites was 42.3%.596 tran-scription factors were identified and distributed in 82 transcription factor families.360 LncRNAs and 75 fusion genes were i-dentified.Beside,we also identified 6 resistance genes which will lay foundation for the breeding of disease-resistant varieties of Fortunella crassifolia Swingle in the future.