Elsevier

Genomics

Volume 112, Issue 6, November 2020, Pages 4332-4341
Genomics

Genome-wide identification and characterization of nonspecific lipid transfer protein (nsLTP) genes in Arachis duranensis

https://doi.org/10.1016/j.ygeno.2020.07.034Get rights and content
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Highlights

  • AdLTPs were classified into 6 subfamilies and were randomly distributed along 9 chromosomes.

  • The tandem and segmental duplication events were detected in the evolution of AdLTPs.

  • The Ks and ω values were significantly different between Type 1 and D subfamilies.

  • The expression level of AdLTPs was changed after salinity, PEG, low temperature and ABA treatments.

  • DOF and WRI1 transcription factors may regulate the AdLTP response to nematode infection.

Abstract

Nonspecific lipid transfer proteins (nsLTPs) play vital roles in lipid metabolism, cell apoptosis and biotic and abiotic stresses in plants. However, the distribution of nsLTPs in Arachis duranensis has not been fully characterized. In this study, we identified 64 nsLTP genes in A. duranensis (designated AdLTPs), which were classified into six subfamilies and randomly distributed along nine chromosomes. Tandem and segmental duplication events were detected in the evolution of AdLTPs. The Ks and ω values differed significantly between Types 1 and D subfamilies, and eight AdLTPs were under positive selection. The expression levels of AdLTPs were changed after salinity, PEG, low-temperature and ABA treatments. Three AdLTPs were associated with resistance to nematode infection, and DOF and WRI1 transcription factors may regulate the AdLTP response to nematode infection. Our results may provide valuable genomic information for the breeding of peanut cultivars that are resistant to biotic and abiotic stresses.

Keywords

Arachis duranensis
nsLTP genes
Abiotic stress
Nematode
Phylogenetic relationship
Coexpression

Abbreviations

nsLTP
nonspecific lipid transfer protein
qRT-PCR
quantitative real-time PCR
CDS
coding domain sequence
RNA-seq
RNA-sequencing
LRR
Leucine-rich repeat
WRI1
WRINKLED1
PRP
pathogenesis-related protein
Dof
DNA binding with one finger
HSF
heat shock transcription factor
WGCNA
coexpression network analysis
ML
maximum likelihood
BI
Bayesian inference
HMM
Hidden Markov Model
GO
Gene ontology
FPKM
fragments per kilobase of transcript per million mapped reads
A. hypogaea
Arachis hypogaea
A. duranensis
Arachis duranensis
A. ipaensis
Arachis ipaensis
At
Arabidopsis thaliana

Cited by (0)

1

These three authors contributed equally to this study.