比较转录组分析揭示了两种不同鹰嘴豆基因型耐盐性的分子调控机制。

Comparative transcriptome analysis reveals molecular regulation of salt tolerance in two contrasting chickpea genotypes.

作者信息

Khan Hammad Aziz, Sharma Niharika, Siddique Kadambot H M, Colmer Timothy David, Sutton Tim, Baumann Ute

机构信息

UWA School of Agriculture and Environment, The University of Western Australia, Perth, WA, Australia.

The UWA Institute of Agriculture, The University of Western Australia, Perth, WA, Australia.

出版信息

Front Plant Sci. 2023 May 30;14:1191457. doi: 10.3389/fpls.2023.1191457. eCollection 2023.

DOI:10.3389/fpls.2023.1191457

PMID:37360702

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10289292/

Abstract

Salinity is a major abiotic stress that causes substantial agricultural losses worldwide. Chickpea ( L.) is an important legume crop but is salt-sensitive. Previous physiological and genetic studies revealed the contrasting response of two desi chickpea varieties, salt-sensitive Rupali and salt-tolerant Genesis836, to salt stress. To understand the complex molecular regulation of salt tolerance mechanisms in these two chickpea genotypes, we examined the leaf transcriptome repertoire of Rupali and Genesis836 in control and salt-stressed conditions. Using linear models, we identified categories of differentially expressed genes (DEGs) describing the genotypic differences: salt-responsive DEGs in Rupali (1,604) and Genesis836 (1,751) with 907 and 1,054 DEGs unique to Rupali and Genesis836, respectively, salt responsive DEGs (3,376), genotype-dependent DEGs (4,170), and genotype-dependent salt-responsive DEGs (122). Functional DEG annotation revealed that the salt treatment affected genes involved in ion transport, osmotic adjustment, photosynthesis, energy generation, stress and hormone signalling, and regulatory pathways. Our results showed that while Genesis836 and Rupali have similar primary salt response mechanisms (common salt-responsive DEGs), their contrasting salt response is attributed to the differential expression of genes primarily involved in ion transport and photosynthesis. Interestingly, variant calling between the two genotypes identified SNPs/InDels in 768 Genesis836 and 701 Rupali salt-responsive DEGs with 1,741 variants identified in Genesis836 and 1,449 variants identified in Rupali. In addition, the presence of premature stop codons was detected in 35 genes in Rupali. This study provides valuable insights into the molecular regulation underpinning the physiological basis of salt tolerance in two chickpea genotypes and offers potential candidate genes for the improvement of salt tolerance in chickpeas.

摘要

盐度是一种主要的非生物胁迫，在全球范围内导致了大量农业损失。鹰嘴豆（Cicer arietinum L.）是一种重要的豆类作物，但对盐敏感。先前的生理和遗传研究揭示了两个德西鹰嘴豆品种，即盐敏感的鲁帕利（Rupali）和耐盐的创世纪836（Genesis836）对盐胁迫的不同反应。为了了解这两种鹰嘴豆基因型中耐盐机制的复杂分子调控，我们检测了鲁帕利和创世纪836在对照和盐胁迫条件下的叶片转录组。使用线性模型，我们确定了描述基因型差异的差异表达基因（DEG）类别：鲁帕利（1604个）和创世纪836（1751个）中的盐响应DEG，分别有907个和1054个DEG是鲁帕利和创世纪836特有的，盐响应DEG（3376个），基因型依赖性DEG（4170个），以及基因型依赖性盐响应DEG（122个）。功能DEG注释显示，盐处理影响了参与离子运输、渗透调节、光合作用、能量产生、胁迫和激素信号传导以及调控途径的基因。我们的结果表明，虽然创世纪836和鲁帕利具有相似的初级盐响应机制（共同的盐响应DEG），但它们不同的盐响应归因于主要参与离子运输和光合作用的基因的差异表达。有趣的是，两个基因型之间的变异检测在768个创世纪836和701个鲁帕利盐响应DEG中鉴定出单核苷酸多态性/插入缺失（SNP/InDel），创世纪836中鉴定出1741个变异，鲁帕利中鉴定出1449个变异。此外，在鲁帕利的35个基因中检测到提前终止密码子的存在。本研究为两种鹰嘴豆基因型耐盐生理基础的分子调控提供了有价值的见解，并为提高鹰嘴豆的耐盐性提供了潜在的候选基因。