Identification, Characterization and Comparison of the Genome-Scale UTR Introns from Six Citrus Species

Horticulturae

Xiaobao Shi¹  Bin Wang¹  Junwei Wu¹  Chunzhen Cheng²  Yongyan Zhang²  Shaohua Wang³  Shizao Yang³ 

[1] College of Horticulture, Fujian Agriculture and Forestry University, Fuzhou 350002, China;College of Horticulture, Shanxi Agricultural University, Jinzhong 030801, China;Institute of Tropical and Subtropical Cash Crops, Yunnan Academy of Agricultural Sciences, Baoshan 678000, China;

关键词: citrus;    UTR intron;    genome-wide identification;    gene expression regulation;    splice site;   

DOI  :  10.3390/horticulturae8050434

来源: DOAJ

【 摘 要 】

Ever since their discovery, introns within the coding sequence (CDS) of transcripts have been paid great attention. However, the introns located in the untranslated regions (UTRs) are often ignored. Here, we identified, characterized and compared the UTR introns (UIs) from six citrus species. Results showed that the average intron number of UTRs is greatly lower than that of CDSs. Among all six citrus species, the number and density of 5′UTR introns (5UIs) are higher than those of 3′UTR introns (3UIs). The UI densities varied greatly among different citrus species. There are 11 and 9 types of splice site (SS) pairs for the UIs of C. sinensis and C. medica, respectively. However, the UIs of the other four citrus species all own only three kinds of SS pairs. The ‘GT-AG’, accounting for more than 95% of both 5UIs and 3UIs SS pairs for all the six species, is the most popular type. Moreover, 81 5UIs and 26 3UIs were identified as common UIs among the six citrus species, and the transcripts containing these common UIs were mostly involved in gene expression or gene expression regulation. Our study revealed that the UIs’ length, abundance, density and SS pair types varied among different citrus species and that many UI-containing genes play important roles in gene expression regulation. Our findings have great implications for future citrus UI function research.

【 授权许可】

Unknown