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Exploration of the pearl millet phospholipase gene family to identify potential candidates for grain quality traits

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Relation http://oar.icrisat.org/12778/
https://link.springer.com/article/10.1186/s12864-024-10504-x
https://doi.org/10.1186/s12864-024-10504-x
 
Title Exploration of the pearl millet phospholipase gene family to identify potential candidates for grain quality traits
 
Creator Moin, M
Bommineni, P R
Tyagi, W
 
Subject Pearl Millet
 
Description Background Phospholipases constitute a diverse category of enzymes responsible for the breakdown of phospholipids. Their involvement in signal transduction with a pivotal role in plant development and stress responses is well documented. Results In the present investigation, a thorough genome-wide analysis revealed that the pearl millet genome
contains at least 44 phospholipase genes distributed across its 7 chromosomes, with chromosome one harbouring
the highest number of these genes. The synteny analysis suggested a close genetic relationship of pearl millet
phospholipases with that of foxtail millet and sorghum. All identified genes were examined to unravel their gene
structures, protein attributes, cis-regulatory elements, and expression patterns in two pearl millet genotypes
contrasting for rancidity. All the phospholipases have a high alpha-helix content and distorted regions within the
predicted secondary structures. Moreover, many of these enzymes possess binding sites for both metal and nonmetal
ligands. Additionally, the putative promoter regions associated with these genes exhibit multiple copies of
cis-elements specifically responsive to biotic and abiotic stress factors and signaling molecules. The transcriptional
profiling of 44 phospholipase genes in two genotypes contrasting for rancidity across six key tissues during pearl millet growth revealed a predominant expression in grains, followed by seed coat and endosperm. Specifically,
the genes PgPLD-alpha1-1, PgPLD-alpha1-5, PgPLD-delta1-7a, PgPLA1-II-1a, and PgPLD-delta1-2a exhibited notable
expression in grains of both the genotypes while showing negligible expression in the other five tissues. The
sequence alignment of putative promoters revealed several variations including SNPs and InDels. These variations
resulted in modifications to the corresponding cis-acting elements, forming distinct transcription factor binding sites suggesting the transcriptional-level regulation for these five genes in pearl millet. Conclusions The current study utilized a genome-wide computational analysis to characterize the phospholipase gene family in pearl millet. A comprehensive expression profile of 44 phospholipases led to the identification of five grain-specific candidates. This underscores a potential role for at least these five genes in grain quality traits including the regulation of rancidity in pearl millet. Therefore, this study marks the first exploration highlighting the possible impact of phospholipases towards enhancing agronomic traits in pearl millet.
 
Publisher BMC
 
Date 2024-06-10
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
Rights cc_attribution
 
Identifier http://oar.icrisat.org/12778/1/BMC%20Genomics_25_1-23__2024.pdf
Moin, M and Bommineni, P R and Tyagi, W (2024) Exploration of the pearl millet phospholipase gene family to identify potential candidates for grain quality traits. BMC Genomics (TSI), 25. pp. 1-23. ISSN 1471-2164