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Bioinformatics studies on structures, functions and diversifications of rolling leaf related genes in rice (Oryza sativa L.)
Plant Genetic Resources ( IF 1.1 ) Pub Date : 2020-11-11 , DOI: 10.1017/s1479262120000404
Md. Jahangir Alam , Md. Alamin , Most. Humaira Sultana , Md. Asif Ahsan , Md. Ripter Hossain , S.M. Shahinul Islam , Md. Nurul Haque Mollah

Leaf morphology of crop plants has significant value in agronomy. Leaf rolling in rice plays a vital role to increase grain yield. However, collective information on the rolling leaf (RL) genes reported to date and different comparative bioinformatics studies of their sequences are still incomplete. This bioinformatics study was designed to investigate structures, functions and diversifications of the RL related genes reported till now through several studies. We performed different comparative and functional analyses of the selected 42 RL genes among 103 RL genes using different bioinformatics techniques including gene structure, conserved domain, phylogenetic, gene ontology (GO), transcription factor (TF), Kyoto Encyclopedia of Genes and Genomes (KEGG) and protein–protein network. Exon-intron organization and conserved domain analysis showed diversity in structures and conserved domains of RL genes. Phylogenetic analysis classified the proteins into five major groups. GO and TF analyses revealed that regulation-related genes were remarkably enriched in biological process and 10 different TF families were involved in rice leaf rolling. KEGG analysis demonstrated that 14 RL genes were involved in the KEGG pathways, among which 50% were involved in the metabolism pathways. Of the selected RL proteins, 55% proteins were non-interacting with other RL proteins and OsRL9 was the most interacting RL protein. These results provide important information regarding structures, conserved domains, phylogenetic revolution, protein–protein interactions and other genetic bases of RL genes which might be helpful to the researchers for functional analysis of new candidate RL genes to explore their characteristics and molecular mechanisms for high yield rice breeding.

中文翻译:

水稻卷叶相关基因结构、功能及多样性的生物信息学研究(Oryza sativa L.)

农作物叶片形态学具有重要的农学价值。水稻卷叶对提高粮食产量起着至关重要的作用。然而,迄今为止报道的关于卷叶(RL)基因的集体信息以及对其序列的不同比较生物信息学研究仍然不完整。这项生物信息学研究旨在调查迄今为止通过多项研究报告的 RL 相关基因的结构、功能和多样性。我们使用不同的生物信息学技术对 103 个 RL 基因中选定的 42 个 RL 基因进行了不同的比较和功能分析,包括基因结构、保守结构域、系统发育、基因本体 (GO)、转录因子 (TF)、京都基因和基因组百科全书 (KEGG) ) 和蛋白质-蛋白质网络。外显子-内含子组织和保守结构域分析显示 RL 基因的结构和保守结构域存在多样性。系统发育分析将蛋白质分为五个主要组。GO和TF分析显示调控相关基因在生物学过程中显着富集,10个不同的TF家族参与水稻卷叶。KEGG分析表明,14个RL基因参与了KEGG通路,其中50%参与了代谢通路。在选定的 RL 蛋白中,55% 的蛋白质不与其他 RL 蛋白相互作用,而 OsRL9 是相互作用最强的 RL 蛋白。这些结果提供了有关结构、保守域、系统发育革命、
更新日期:2020-11-11
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