Genome-Wide Identification of MDH Family Genes and Their Association with Salt Tolerance in Rice

Abstract

Malate dehydrogenase (MDH) is widely present in nature and regulates plant growth and development, as well as playing essential roles, especially in abiotic stress responses. Nevertheless, there is no comprehensive knowledge to date on MDH family members in rice. In this study, a total of 12 MDH members in rice were identified through genome-wide analysis and divided into three groups on the basis of their phylogenetic relationship and protein-conserved motifs. Evolutionary analysis showed that MDH proteins from rice, maize and wheat shared a close phylogenetic relationship, and the MDH family was conserved in the long-term process of domestication. We identified two segmental duplication events involving four genes, which could be the major force driving the expansion of the OsMDH family. The expression profile, cis-regulatory elements and qRT-PCR results of these genes revealed that a few OsMDH showed high tissue specificity, almost all of which had stress response elements in the promoter region, and ten MDH members were significantly induced by salt stress. Through gene-based association analysis, we found a significant correlation between salt tolerance at the seedling stage and the genetic variation of OsMDH8.1 and OsMDH12.1. Additionally, we found that the polymorphism in the promoter region of OsMDH8.1 might be related to the salt tolerance of rice. This study aimed to provide valuable information on the functional study of the rice MDH gene family related to salt stress response and revealed that OsMDH8.1 might be an important gene for the cultivar improvement of salt tolerance in rice.

Genome-Wide Identification of AhMDHs and Analysis of Gene Expression under Manganese Toxicity Stress in Arachis hypogaea

“…Seven SgMDHs were found in stylosanthes, and subcellular localization showed that SgMDH mainly ex-ists in the cytoplasm, chloroplasts, peroxidase bodies, and vacuolar membranes [18]. In addition, 12 OsMDHs have been confirmed in O. sativa [15], and 12 SlMDHs have also been verified in tomato (Solanum lycopersicum) [17]. Twenty MpMDHs have been identified in the whole genome of apple (Malus pumila) [18], and studies have shown that the number of MDHs is different in different species of plants and that the MDHs are distributed in different subregions of plant cells.…”

“…With the development of bioinformatics technology, an increasing number of MDH members have been authenticated in plants, such as Oryza sativa [15], Glycine max [45], and Stylosanthes guianensis [18]. Eight MDH genes in beans (Phaseolus vulgaris) have been identified and found to be mainly located in the cytoplasm and chloroplasts [1].…”

“…With the sequencing of whole genomes and the development of bioinformatics, many types of MDHs have been identified in different plants: 12 MDHs have been found in rice (Oryza sativa) [15], 16 MDHs have been discovered in soybean (Glycine max) [16], 12 MDHs have been found in Chinese fir (Cunninghamia lanceolata) [13], 13 MDHs have been identified in cotton (Gossypium hirsutum) [17], 7 MDHs have been detected in Stylosanthes (Stylosanthes guianensis) [18], 20 MDHs have been discovered in apple (Malus pumila) [19], and 16 MDH genes have been found in poplar (Populus trichocarpa) [20].…”

Exploring the Heat Shock Transcription Factor (HSF) Gene Family in Ginger: A Genome-Wide Investigation on Evolution, Expression Profiling, and Response to Developmental and Abiotic Stresses

“…The similarity of gene function within branches of a multi-species phylogenetic tree has been verified [ 66 ]. By analyzing the phylogenetic relationships and collinear analysis of ginger and four other plant HSF members, we can make initial predictions about the function of ZoHSF members in response to abiotic stress.…”

The role of priming and memory in rice environmental stress adaptation: Current knowledge and perspectives

“…AI can identify relevant biomarkers and recognize complex patterns from various data types in responses to stress, pinpointing regulatory hubs within gene networks, proteins complexes or epigenetic modifications pivotal to plant stress responses, as well as determining interactions among the different regulatory levels mediating plant adaptation to stress (Crandall et al, 2020; Zhang et al, 2022).…”