Identification and validation of hub genes associated with biotic and abiotic stresses by modular gene co-expression analysis in Oryza sativa L.

Scientific Reports, Journal Year: 2025, Volume and Issue: 15(1)

Published: March 12, 2025

Rice, a staple food consumed by half of the world's population, is severely affected combined impact abiotic and biotic stresses, with former causing increased susceptibility plant to pathogens. Four microarray datasets for drought, salinity, tungro virus, blast pathogen were retrieved from Gene Expression Omnibus database. A modular gene co-expression (mGCE) analysis was conducted, followed set enrichment evaluate upregulation module activity across different stress conditions. Over-representation conducted determine functional association each stress-related processes pathways. The protein–protein interaction network mGCE hub genes constructed, Maximal Clique Centrality (MCC) algorithm applied enhance precision in identifying key genes. Finally, implicated both responses validated using RT-qPCR. total 11, 12, 46, 14 modules containing 85, 106, 253, 143 detected blast. Modular drought primarily enriched response heat stimulus water deprivation, while salinity-related external stimuli. For virus pathogen, mainly observed defence responses. Interestingly, RPS5, PKG, HSP90, HSP70, MCM consistently present stresses. DEG revealed under downregulation resistant rice, indicating its role viral resistance. HSP70 showed no changes, HSP90 upregulated susceptible rice during drought. PKG but decreased japonica salinity. RPS5 highly rice. RT-qPCR that all five treatments, their potential crop improvement.

Language: Английский

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Decoding the Signaling Triad: Molecular Interactions of G-Proteins, MAP Kinases, and Helicases in Environmental Stress Responses

Plant Science, Journal Year: 2025, Volume and Issue: unknown, P. 112514 - 112514

Published: April 1, 2025

Language: Английский

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Occurrence of Abiotic and Biotic Stress Tolerance in Rice: A Multigene Approach

Indian Journal of Agricultural Research, Journal Year: 2024, Volume and Issue: Of

Published: July 17, 2024

A sustainable food system ensures security and nourishment for future generations. Rice (Oryza sativa L.) requires emergence stress tolerance successful cultivation in germination early establishment stages. According to the FAO (Food Agriculture Organization) study, rice is one of most important worldwide cereal crops a staple more than half world’s population. Over past few years, drastic climatic changes have been subjected many abiotic biotic stresses. Global estimates express that total 1000 million hectares cultivated land affected by stress. Besides this around 30% irrigated area also disturbed. This review discusses mechanisms stress-tolerant variants understanding recent developments complex phenomena. Here, we compiled logical pieces as evidence applications potent molecular tools boosting rice, their prospects limitation. information would help researchers better understand genetic enhancement rice.

Language: Английский

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OsRuvBL1a DNA helicase boost salinity and drought tolerance in transgenic indica rice raised by in planta transformation

Plant Science, Journal Year: 2023, Volume and Issue: 335, P. 111786 - 111786

Published: July 5, 2023

Language: Английский

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Study of the Genetic Adaptation Mechanisms of Siberian Larch (Larix sibirica Ledeb.) Regarding Climatic Stresses Based on Dendrogenomic Analysis

Forests, Journal Year: 2023, Volume and Issue: 14(12), P. 2358 - 2358

Published: Nov. 30, 2023

Dendrogenomics is a new interdisciplinary approach that allows joint analysis of dendrological and genomic data opens up ways to study the temporal dynamics forest treelines, delineate spatial population structures, decipher individual tree responses abiotic biotic stresses, evaluate adaptive genetic potential populations. These are needed for prediction climate change effects mitigation negative effects. We present here an association variation 27 traits, including dendrophenotypes reflecting trees drought stress, such as resistance (Rt), recovery (Rc), resilience (Rs), relative (RRs) indexes measured in 136 Siberian larch 5 populations foothills Batenevsky Ridge (Kuznetsk Alatau, Republic Khakassia, Russia), with 9742 SNPs genotyped using ddRADseq same trees. The structure five closely located was relatively weak (FST = 0.018). found level heterozygosity positively correlated Rc RR indices studied periods partly Rs three periods. It seems higher improves capabilities tree. also discovered significant relationship between Rt index four out periods, which means growth slows down during droughts more likely associated energy internal resource reallocation toward efficient water usage optimization years. 371 potentially variations significantly based on all different methods analysis. Among them, 26 were regions carrying functional genes: 21 intergenic gene-coding regions. Based obtained results, it can be assumed these have high standing underlying adaptations various climatic conditions.

Language: Английский

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Role of DNA Replication Proteins in Salinity Tolerance of Plants

CABI eBooks, Journal Year: 2024, Volume and Issue: unknown, P. 24 - 42

Published: June 28, 2024

Salinity adversely affects plant growth and development, thereby limiting crop production globally. Several salt-responsive genes proteins have so far been reported in plants salt stress their expression machinery. Since of requires cellular nucleic acid metabolism, it is possible that DNA replication such as helicases polymerases are involved salt-stress responses. (mostly polymerases) among the largest most highly conserved gene families eukaryotes, including plants. The assembly (replisome) comprises an 11-subunit helicase, replicative polymerases, sliding clamp proliferating cell nuclear antigen (PCNA), factor C (RFC), protein A (RPA), also called single-strand DNA-binding protein, coats protects single strand excised by helicase. In this chapter, we highlight model involving replisome complex major with emphasis on classification roles salinity-stress tolerance We broadly outline various members DEAD-box family), topoisomerases implicated to confer salinity different molecular function during stress. Presently, exact mechanisms protein-mediated not well understood. However, speculate role conferring largely depends ability ensure continuous transcription stress-responsive episodes which will turn increase levels salt-tolerance

Language: Английский

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Expression patterns of Arabidopsis thaliana RecQ-like (AtRecQl) genes and the roles of AtRecQl2 and AtRecQl3 in response to abiotic stress

Bioscience Biotechnology and Biochemistry, Journal Year: 2024, Volume and Issue: 88(12), P. 1411 - 1423

Published: Sept. 25, 2024

Helicases are involved in almost every nucleic acid metabolism process. Within this family, RecQ helicase proteins protect genome integrity across all organisms through DNA recombination, repair, and replication. This study focused on five Arabidopsis thaliana RecQ-like (AtRecQl) genes with diverse functionalities. Analysis of ProAtRecQl: GUS expression during vegetative reproductive development stages revealed organ- tissue-specific patterns. Changes AtRecQls transcript levels response to abiotic stressors suggest their involvement stimuli responses. Notably, germination growth rates were lower atrecql2 atrecql3 mutants under various salt concentrations cold conditions. These findings indicate that AtRecQl2 AtRecQl3 act as positive regulators stress tolerance the germinative postgerminative phases.

Language: Английский

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Comprehensive in silico characterization of Arabidopsis thaliana RecQl helicases through structure prediction and molecular dynamics simulations

Journal of King Saud University - Science, Journal Year: 2024, Volume and Issue: 36(10), P. 103479 - 103479

Published: Oct. 10, 2024

Language: Английский

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