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Ubiquitous conservative interaction patterns between post-spliced introns and their mRNAs revealed by genome-wide interspecies comparison

文献类型： 外文期刊

作者： Bo, Suling 1 ; Sun, Qiuying 2 ; Li, Zhongxian 1 ; Aodun, Gerile 1 ; Ji, Yucheng 1 ; Wei, Lihua 1 ; Wang, Chao 1 ; Lu, Zhanyuan 4 ; Zhang, Qiang 8 ; Zhao, Xiaoqing 4 ;

作者机构： 1.Inner Mongolia Med Univ, Coll Comp Informat, Hohhot, Peoples R China

2.Inner Mongolia Med Univ, Inner Mongolia Canc Hosp, Dept Oncol, Hohhot, Peoples R China

3.Inner Mongolia Med Univ, Affiliated Peoples Hosp, Hohhot, Peoples R China

4.Inner Mongolia Acad Agr & Anim Husb Sci, Hohhot, Peoples R China

5.Inner Mongolia Univ, Sch Life Sci, Hohhot, Peoples R China

6.Minist Agr & Rural Affairs, Key Lab Black Soil Protect & Utilizat Hohhot, Hohhot, Peoples R China

7.Inner Mongolia Key Lab Degradat Farmland Ecol Rest, Hohhot, Peoples R China

8.Inner Mongolia Agr Univ, Coll Sci, Hohhot, Peoples R China

关键词： local matched alignment; optimal matched region; interaction patterns; ubiquitous conservative; gene expression

期刊名称：FRONTIERS IN GENETICS （ 影响因子：3.7； 五年影响因子：4.3 ）

ISSN：

年卷期： 2023 年 14 卷

页码：

收录情况： SCI

摘要： Introns, as important vectors of biological functions, can influence many stages of mRNA metabolism. However, in recent research, post-spliced introns are rarely considered. In this study, the optimal matched regions between introns and their mRNAs in nine model organism genomes were investigated with improved Smith-Waterman local alignment software. Our results showed that the distributions of mRNA optimal matched frequencies were highly consistent or universal. There are optimal matched frequency peaks in the UTR regions, which are obvious, especially in the 3 '-UTR. The matched frequencies are relatively low in the CDS regions of the mRNA. The distributions of the optimal matched frequencies around the functional sites are also remarkably changed. The centers of the GC content distributions for different sequences are different. The matched rate distributions are highly consistent and are located mainly between 60% and 80%. The most probable value of the optimal matched segments is about 20 bp for lower eukaryotes and 30 bp for higher eukaryotes. These results show that there are abundant functional units in the introns, and these functional units are correlated structurally with all kinds of sequences of mRNA. The interaction between the post-spliced introns and their corresponding mRNAs may play a key role in gene expression.

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