Differentially Expressed Genes (DEGs) and Regulatory Network in Response to Various Abiotic Stresses in Plants

A special issue of Genes (ISSN 2073-4425). This special issue belongs to the section "Plant Genetics and Genomics".

Deadline for manuscript submissions: 30 October 2025 | Viewed by 49

Special Issue Editor


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Guest Editor
Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China
Interests: cotton genetic breeding
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Special Issue Information

Dear Colleagues,

Various kinds of abiotic stresses, including drought, salt, cold, flooding, and alkaline stress, seriously hinder plant growth and development. Under abiotic stresses, plants initiate a series of biological activities, including alterations in physiological and biochemical processes, changes in the amounts of metabolites and proteins, and regulation of differentially expressed genes (DEGs) and cooperation of complex interaction network of multiple genes at different developmental stages. In the light of continuous deterioration of the growing environment of plants, the research of molecular mechanisms of stress adaptation and tolerance has become the focus for many biologists. This Special Issue will focus on (but is not limited to) recent research advances of genomics, transcriptomics, proteomics, miRNAs, DNA methylation, gene editing, transgenic plants and other studies related to abiotic stresses through the use of various traditional and modern biotechnological strategies, providing more reference to comprehend molecular mechanisms of stress adaptation and tolerance. Other studies related to abiotic stresses are also welcomed.

In this Special Issue, we invite authors to submit new manuscripts on, but not limited to, the following potential topics:

  • Physiological and biochemical responses of plants under different abiotic stresses.
  • Phenotyping analysis for various crops under abiotic stresses.
  • Molecular breeding for improving abiotic stress tolerance in crops.
  • Multiple omics analysis of plants in responding to abiotic stresses.
  • Epigenetic research of plants in responding to abiotic stresses.
  • CRISPR-Cas genome editing research for the improvement of abiotic stress tolerance in plants.
  • Identification and function analysis of key genes related to abiotic stresses.
  • Interaction and expression regulation networks in plants under abiotic stresses.

Dr. Xuke Lu
Guest Editor

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Keywords

  • plants
  • abiotic stresses
  • molecular mechanism
  • differentially expressed genes (DEGs)
  • regulatory network

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Published Papers (1 paper)

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Research

17 pages, 5163 KiB  
Article
GhA01EP1 of Upland Cotton Stimulates Precocity, Improved Water Deficit Tolerance, and High Seed Yield in Transgenic Arabidopsis
by Dan Li, Cunpeng Zhao, Xiaohui Zhang, Haina Zhang, Chen Yuan, Kaihui Wang, Suen Liu, Junyi Geng and Baosheng Guo
Genes 2025, 16(6), 669; https://doi.org/10.3390/genes16060669 - 30 May 2025
Abstract
Background: The GhA01EP1 gene in upland cotton encodes an epidermal-specific secreted glycoprotein, whose functional characterization remains unexplored beyond our initial discovery of its water deficit resistance association. Therefore, we further designed experiments to investigate the functional role of GhA01EP1. Methods: We sequenced [...] Read more.
Background: The GhA01EP1 gene in upland cotton encodes an epidermal-specific secreted glycoprotein, whose functional characterization remains unexplored beyond our initial discovery of its water deficit resistance association. Therefore, we further designed experiments to investigate the functional role of GhA01EP1. Methods: We sequenced and analyzed the transcriptomes of wild-type (Col-0) and GhA01EP1-transgenic Arabidopsis thaliana. The differences in morphological and biochemical indicators were examined. In addition, the proteins interacting with GhA01EP1 in Arabidopsis were screened using a glutathione-S-transferase pull-down assay. Results: The GhA01EP1-transgenic Arabidopsis plants flowered earlier, produced more branches, and had a higher seed yield than Col-0. Transcriptome analysis revealed that differentially expressed genes detected in the comparison of GhA01EP1-transgenic and Col-0 Arabidopsis under the water treatment (the control) were associated especially with circadian rhythm regulation, photoperiodic flowering reaction, hormone metabolism, glyoxalase I synthesis, antioxidant pathway, branching development, and carbon-nitrogen allocation. Under water-sufficient or water-deficient treatments, the glyoxalase I activity and lignin content of GhA01EP1-transgenic Arabidopsis were significantly higher. Under water deficit stress, the malondialdehyde and starch contents were significantly lower, while peroxidase activity and protein content were significantly higher than those of Col-0. Conclusions: GhA01EP1 synergistically improved the precocity, water deficit tolerance, and seed yield of GhA01EP1-transgenic Arabidopsis. Analysis of GhA01EP1 function provides a molecular basis for breeding improved cotton varieties. Full article
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