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RAD gene family analysis in cotton provides some key genes for flowering and stress tolerance in upland cotton G. hirsutum

文献类型： 外文期刊

作者： Kabir, Nosheen 1 ; Zhang, Xin 2 ; Liu, Le 3 ; Qanmber, Ghulam 1 ; Zhang, Lian 2 ; Wang, Yu Xuan 1 ; Sun, Zhuojing 4 ; Zhao, Na 3 ; Wang, Gang 2 ;

作者机构： 1.Chinese Acad Agr Sci, Inst Cotton Res, State Key Lab Cotton Biol, Anyang 455000, Henan, Peoples R China

2.Zhengzhou Univ, State Key Lab Cotton Biol, Zhengzhou Res Base, Zhengzhou 450001, Henan, Peoples R China

3.Xinjiang Acad Agr & Reclamat Sci, Key Lab Crop Germplasm Enhancement & Gene Resourc, Xinjiang Prod & Construct Grp, Biotechnol Res Inst, Shehezi 832000, Xinjiang, Peoples R China

4.Minist Agr & Rural Affairs, Dev Ctr Sci & Technol, Beijing 100122, Peoples R China

关键词： RAD; G; hirsutum; Phylogenetic tree; Phytohormones; Sequence logs; Cis-acting elements

期刊名称：BMC GENOMICS （ 影响因子：4.547； 五年影响因子：4.931 ）

ISSN： 1471-2164

年卷期： 2022 年 23 卷 1 期

页码：

收录情况： SCI

摘要： Background RADIALIS (RAD), belongs to the MYB gene family and regulates a variety of functions including floral dorsoventral asymmetry in Antirrhinum majus and development of fruit proteins in Solanum lycopersicum. RAD genes contain an SNF2_N superfamily domain. Here, we comprehensively identified 68 RAD genes from six different species including Arabidopsis and five species of cotton. Results Phylogenetic analysis classified RAD genes into five groups. Gene structure, protein motifs and conserved amino acid residues indicated that GhRAD genes were highly conserved during the evolutionary process. Chromosomal location information showed that GhRAD genes were distributed unevenly on different chromosomes. Collinearity and selection pressure analysis indicated RAD gene family expansion in G. hirsutum and G. barbadense with purifying selection pressure. Further, various growth and stress related promotor cis-acting elements were observed. Tissue specific expression level indicated that most GhRAD genes were highly expressed in roots and flowers (GhRAD2, GhRAD3, GhRAD4 and GhRAD11). Next, GhRAD genes were regulated by phytohormonal stresses (JA, BL and IAA). Moreover, Ghi-miRN1496, Ghi-miR1440, Ghi-miR2111b, Ghi-miR2950a, Ghi-miR390a, Ghi-miR390b and Ghi-miR7495 were the miRNAs targeting most of GhRAD genes. Conclusions Our study revealed that RAD genes are evolutionary conserved and might be involved in different developmental processes and hormonal stress response. Data presented in our study could be used as the basis for future studies of RAD genes in cotton.

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