Genome-wide identification, characterization, and validation of the bHLH transcription factors in grass pea

Frontiers in Genetics

Genetics

Achraf El Allali¹  Ahmed Hussein²  Alsamman M. Alsamman²  Mohamed Abdelsattar²  Morad M. Mokhtar³  Khaled H. Radwan⁴  Zakaria Kehel⁵  Mamdouh M. Abd El-Maksoud⁶  Aladdin Hamwieh⁷  Khaled H. Mousa⁷  Ahmed E. Nassar⁷  Tawffiq Istanbuli⁸ 

[1] African Genome Center, Mohammed VI Polytechnic University, Ben Guerir, Morocco;Agricultural Genetic Engineering Research Institute (AGERI), Agricultural Research Center (ARC), Giza, Egypt;Agricultural Genetic Engineering Research Institute (AGERI), Agricultural Research Center (ARC), Giza, Egypt;African Genome Center, Mohammed VI Polytechnic University, Ben Guerir, Morocco;Agricultural Genetic Engineering Research Institute (AGERI), Agricultural Research Center (ARC), Giza, Egypt;National Biotechnology Network of Expertise, ASRT, Cairo, Egypt;Biodiversity and Crop Improvement Program, International Center for Agricultural Research in the Dry Areas (ICARDA), Rabat, Morocco;Department of Genetics, Faculty of Agriculture, Mansoura University, Dakahlia, Egypt;International Center for Agricultural Research in the Dry Areas (ICARDA), Giza, Egypt;International Center for Agricultural Research in the Dry Areas (ICARDA), Terbol, Lebanon;

关键词: grass pea;    bHLH gene family;    phylogenetic analysis;    gene structure;    gene expression;    qPCR analysis;    cis-element;   

DOI  :  10.3389/fgene.2023.1128992

 received in 2022-12-21, accepted in 2023-03-02,  发布年份 2023

来源: Frontiers

【 摘 要 】

Background: The basic helix-loop-helix (bHLH) transcription factor is a vital component in plant biology, with a significant impact on various aspects of plant growth, cell development, and physiological processes. Grass pea is a vital agricultural crop that plays a crucial role in food security. However, the lack of genomic information presents a major challenge to its improvement and development. This highlights the urgency for deeper investigation into the function of bHLH genes in grass pea to improve our understanding of this important crop.Results: The identification of bHLH genes in grass pea was performed on a genome-wide scale using genomic and transcriptomic screening. A total of 122 genes were identified as having conserved bHLH domains and were functionally and fully annotated. The LsbHLH proteins could be classified into 18 subfamilies. There were variations in intron-exon distribution, with some genes lacking introns. The cis-element and gene enrichment analyses showed that the LsbHLHs were involved in various plant functions, including response to phytohormones, flower and fruit development, and anthocyanin synthesis. A total of 28 LsbHLHs were found to have cis-elements associated with light response and endosperm expression biosynthesis. Ten conserved motifs were identified across the LsbHLH proteins. The protein-protein interaction analysis showed that all LsbHLH proteins interacted with each other, and nine of them displayed high levels of interaction. RNA-seq analysis of four Sequence Read Archive (SRA) experiments showed high expression levels of LsbHLHs across a range of environmental conditions. Seven highly expressed genes were selected for qPCR validation, and their expression patterns in response to salt stress showed that LsbHLHD4, LsbHLHD5, LsbHLHR6, LsbHLHD8, LsbHLHR14, LsbHLHR68, and LsbHLHR86 were all expressed in response to salt stress.Conclusion: The study provides an overview of the bHLH family in the grass pea genome and sheds light on the molecular mechanisms underlying the growth and evolution of this crop. The report covers the diversity in gene structure, expression patterns, and potential roles in regulating plant growth and response to environmental stress factors in grass pea. The identified candidate LsbHLHs could be utilized as a tool to enhance the resilience and adaptation of grass pea to environmental stress.

【 授权许可】

Unknown   
Copyright © 2023 Alsamman, Abdelsattar, El Allali, Radwan, Nassar, Mousa, Hussein, Mokhtar, Abd El-Maksoud, Istanbuli, Kehel and Hamwieh.