Genome-wide in silico identification of phospholipase D (PLD) gene family from Corchorus capsularis and Corchorus olitorius: reveals their responses to plant stress

Md Abu Sadat,Md Wali Ullah,Md Sabbir Hossain,Borhan Ahmed,Kazi Khayrul Bashar

doi:10.1186/s43141-022-00311-w

Md Abu Sadat, Md Wali Ullah + Show 3 more

Open Access

https://doi.org/10.1186/s43141-022-00311-w

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Abstract

BackgroundPlant grows in nature facing various types of abiotic stresses for their normal growth and development. During abiotic stress, plants evolve different types of mechanisms to survive in a hostile environment. Phospholipase D (PLD) plays important role in the regulation of diverse cellular processes including stress responses in plants. Member of PLD genes are well studied in different model plants; however, their functions in the jute are not clear yet. ResultIn the present study, a total of 12 and 11 PLD genes were identified in the genome of C. capsularis and C. olitorius, respectively. The presence of the two conserved HKD motifs in PLD genes except for CoPLDδ-2 in jute suggests their strong lipase activity. Twenty different motifs were found in the identified PLD genes, and PLD-β1, PLD-γ1, and all members of PLD-δ1 of both jute species contained the highest number of motifs. Phylogenetic analysis showed the close evolutionary relationship among the five groups of jute PLD proteins along with the PLD proteins from Arabidopsis. Tissue-specific expression pattern of PLDα1-2, PLD-α2, PLDβ1, PLDγ1, and PLDδ1 of two jute species suggested their involvement in plant growth and development. However, the expression pattern of PLDα1-2, PLDα1-3, PLD-α4, PLDδ1, and PLDδ3 indicated their association during waterlogging stress. In addition, PLD-α2, PLDβ1, and PLDδ2 seemed to be involved in drought stress as well as salinity stress. ConclusionThis genome-wide identification of jute PLD genes from C. capsularis and C. olitorius will help to further functional characterization of the PLD genes for developing stress-tolerant jute variety.

Highlights

Plant grows in nature facing various types of abiotic stresses for their normal growth and development
Identification of Phospholipase D (PLD) genes from two jute species (C. capsularis and C. olitorius) and conservation of HKD domain To identify the PLD genes from two jute species, protein sequences of PLD genes from Arabidopsis, cotton, grape, poplus, and rice were employed as query, and found 12 and 11 PLD genes in C. capsularis and C. olitorius, respectively (Table 1)
Depended on the amino acid sequence homology with Arabidopsis, PLD genes of both jute species were divided in five groups namely alpha (α), beta (β), gamma (γ), delta (δ), and zeta (ζ)

Summary

Introduction

Plant grows in nature facing various types of abiotic stresses for their normal growth and development. Plants grow in nature where they are constantly facing abiotic and biotic stresses during their growth and development. They need to adjust themselves in nature by adopting the surrounding changes for their survival and it is crucial to prevent cellular damage [1]. Environmental stresses (abiotic stress) in plants are minimized by several mechanisms including lipid signaling pathway. Biochemical studies identified an N-terminal phospholipid-binding sequence and two catalytic HKD (HxKxxxxD) motifs for lipase activity in the members of PLDs of all eukaryotic organisms [11]

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