Stress-Tolerant Crops for Future Agriculture

A special issue of Plants (ISSN 2223-7747). This special issue belongs to the section "Plant Genetics, Genomics and Biotechnology".

Deadline for manuscript submissions: 30 September 2026 | Viewed by 3037

Editors


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Institute of Genomics for Crop Abiotic Stress Tolerance, Texas Tech University, Lubbock, TX 79409, USA
Interests: stress tolerance; GC-MS; physiology; transcriptomics; biostatistics
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Special Issue Information

Dear Colleagues,

Climate change is increasingly intensifying the frequency and severity of both abiotic and biotic stresses, posing a serious threat to global crop productivity and food security. The development of stress-tolerant crops is, therefore, a central priority for ensuring sustainable and resilient agriculture for the future.

In the era of precision breeding and modern molecular biology, powerful genomic tools are revolutionizing our ability to understand, design, and deploy stress tolerance in crop plants. Technologies such as CRISPR/Cas-based genome editing enable the precise manipulation of genes controlling tolerance to drought, heat, salinity, and disease. RNA-seq and single-cell transcriptomics provide high-resolution insights into stress-responsive gene networks, while genome-wide association studies (GWAS) and comparative genomics facilitate the identification and utilization of key loci and alleles underlying stress adaptation. When integrated with genomic selection and high-throughput phenomics, these approaches significantly accelerate breeding cycles and enhance the efficiency of developing robust, high-performing crop varieties.

This Special Issue of Plants, entitled “Stress-Tolerant Crops for Future Agriculture”, aims to showcase cutting-edge research focused on genetic, genomic, and molecular strategies for improving crop resilience under adverse environmental conditions. We particularly encourage submissions addressing tolerance to drought, heat, salinity, flooding, and biotic stresses such as diseases and pests, as well as studies that integrate stress tolerance with high yield, improved quality, and resource-use efficiency. Contributions demonstrating how modern genomics can support sustainable and climate-smart agricultural systems are especially welcome.

We welcome original research articles, reviews, and perspectives that highlight innovative approaches for developing stress-tolerant crops using advanced genomic and biotechnological tools, including genome editing, transcriptomics, epigenomics, GWAS, and genomic selection.

Impact and Reach

This Special Issue will serve as an international platform for sharing innovative research and fostering interdisciplinary collaboration among scientists working in plant genetics, genomics, molecular biology, physiology, agronomy, and crop breeding. By advancing our understanding of the genetic and molecular basis of stress tolerance, this collection will provide valuable resources for plant breeders, researchers, and industry stakeholders. Ultimately, it will help accelerate the development and deployment of climate-resilient, high-yielding, and sustainable crop varieties, contributing to future food security and environmentally responsible agriculture.

Possible topics for this Special Issue include:

  • Genomic and molecular breeding for stress tolerance.
  • Genome editing for developing stress-tolerant crops.
  • GWAS and QTL mapping of stress tolerance traits.
  • Transcriptomics, epigenomics, and regulatory networks in stress responses.
  • Development of climate-smart and stress-resilient crops.
  • Integration of genomics and phenomics for crop improvement.
  • The role of the plant microbiome in stress tolerance and resilience.
  • Genomics-based strategies for sustainable agriculture.
  • Single-cell genomics, spatial genomics, transposons, and regulatory elements in stress adaptation.

Prof. Dr. Muthusamy Ramakrishnan
Dr. Anket Sharma
Guest Editors

Manuscript Submission Information

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Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-anonymized peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Plants is an international peer-reviewed open access semimonthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2700 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • stress-tolerant crops
  • climate change
  • plant resilience
  • abiotic stress
  • biotic stress
  • genome editing
  • genomics-assisted breeding
  • GWAS
  • transcriptomics
  • epigenomics
  • phenomics
  • microbiome
  • sustainable agriculture
  • climate-smart agriculture
  • drought tolerance
  • heat stress tolerance
  • salinity tolerance
  • disease resistance

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Published Papers (3 papers)

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Research

23 pages, 15670 KB  
Article
Comparative Phenotype and Transcriptome Profiling in Some Grapevine Cultivars in Response to Drought Stress
by Igor Gavrilenko, Ekaterina Vodiasova, Victoria Uppe, Galina Maletich, Artem Pronozin, Yuri Plugatar, Sergey Dolgov and Pavel Khvatkov
Plants 2026, 15(10), 1464; https://doi.org/10.3390/plants15101464 - 11 May 2026
Viewed by 739
Abstract
Drought is one of the main stress factors significantly affecting the growth, development and yield of agricultural crops. This study investigated the impact of drought stress on the grapevine. The 30 cultivars were classified as drought-tolerant, intermediately tolerant or sensitive. The phenotypic characteristics [...] Read more.
Drought is one of the main stress factors significantly affecting the growth, development and yield of agricultural crops. This study investigated the impact of drought stress on the grapevine. The 30 cultivars were classified as drought-tolerant, intermediately tolerant or sensitive. The phenotypic characteristics the number of new leaves, the number of second-order roots and the length of second-order roots (NL, NR2 and LR2 respectively) were identified as the most sensitive biometric characteristics. These parameters can be used to determine the optimal level of stress exposure for plants. Using transcriptomic data from five cultivars with different levels of tolerance, differentially expressed genes (DEGs) were identified in control plants and in plants under stress, as well as DEGs between different varieties when exposed to 2% mannitol. General patterns of gene expression under drought stress were subsequently identified, including the activation of antioxidant defense systems and changes in the metabolism and biosynthesis of glucan, cellulose, polysaccharides, monocarboxylic acids, fatty acids and metal transport and splicing processes. It is hypothesized that drought tolerance is determined by the increased expression of genes associated with glutathione metabolism and methylation processes. Full article
(This article belongs to the Special Issue Stress-Tolerant Crops for Future Agriculture)
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20 pages, 2715 KB  
Article
Salinity Tolerance and Antioxidant Response in Watermelon Seedlings Pre-Treated with Abiotic Stress Attenuators
by Moadir de Sousa Leite, Salvador Barros Torres, Clarisse Pereira Benedito, Kleane Targino Oliveira Pereira, Maria Valdiglezia de Mesquita Arruda, Jéssica Christie Dantas de Oliveira Costa, Giovanna Dias de Sousa, Angie Alejandra Rodriguez Cruz, João Pedro Gonçalves Bispo, Charline Zaratin Alves, Pablo Ferreira da Silva, Marco Porceddu, Gianluigi Bacchetta, Alex Álvares da Silva and Francisco Vanies da Silva Sá
Plants 2026, 15(8), 1227; https://doi.org/10.3390/plants15081227 - 16 Apr 2026
Cited by 2 | Viewed by 909
Abstract
Salinization of agricultural areas is one of the main abiotic factors responsible for the reduction of seed germination and vigor. In this context, the use of stress attenuators applied to seeds may contribute to mitigating the effects of salinity and improving the physiological [...] Read more.
Salinization of agricultural areas is one of the main abiotic factors responsible for the reduction of seed germination and vigor. In this context, the use of stress attenuators applied to seeds may contribute to mitigating the effects of salinity and improving the physiological and antioxidant performance of seedlings. This study aimed to evaluate the effects of stress attenuators on the tolerance and antioxidant activity of watermelon Citrullus lanatus (Thunb.) Matsum & Nakai cultivars under saline conditions. The study was conducted in two stages. In the first stage, a 3 × 6 factorial scheme was used to evaluate three salinity levels (0, −0.2, and −0.4 MPa) and six watermelon cultivars. In the second stage, in a 2 × 6 factorial scheme, two cultivars (sensitive and tolerant) were subjected to the combination of salinity (−0.4 MPa) and attenuators: hydropriming, gibberellic acid, salicylic acid, and hydrogen peroxide. Physiological and biochemical traits were evaluated, including hydrogen peroxide content, lipid peroxidation, and the activity of the enzymes, superoxide dismutase, catalase, and ascorbate peroxidase. Salinity reduced germination and seedling vigor, with Crimson Sweet, Charleston Gray, and Charleston Super being the most sensitive cultivars, whereas Congo and Omaru exhibited greater tolerance, and Fairfax also showed good performance under saline conditions. The selection of cultivars for the second stage was based not only on physiological tolerance but also on agronomic and commercial relevance, including post-harvest resistance traits. Seed treatment of Crimson Sweet with salicylic acid and hydrogen peroxide increased antioxidant enzyme activity, with increases of up to 103% in ascorbate peroxidase activity, and reduced oxidative damage, with reductions of 44% in hydrogen peroxide and 49% in malondialdehyde levels. In Fairfax, gibberellic acid contributed to osmotic adjustment, promoting increase of up to 76% in total soluble sugars, while pre-germinative treatment with salicylic acid and hydrogen peroxide promoted higher enzyme activity, contributing to the reduction of oxidative stress. Full article
(This article belongs to the Special Issue Stress-Tolerant Crops for Future Agriculture)
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27 pages, 12204 KB  
Article
GWAS and Regularised Regression Identify SNPs Associated with Candidate Genes for Stage-Specific Salinity Tolerance in Rice
by Sampathkumar Renukadevi Sruthi, Zishan Ahmad, Anket Sharma, Venkatesan Lokesh, Natarajan Laleeth Kumar, Arulkumar Rinitta Pearlin, Ramanathan Janani, Yesudhas Anbu Selvam and Muthusamy Ramakrishnan
Plants 2026, 15(7), 1046; https://doi.org/10.3390/plants15071046 - 28 Mar 2026
Viewed by 915
Abstract
Soil salinity remains a major constraint to rice productivity, particularly during early developmental stages when plants are highly sensitive to osmotic and ionic stress. In this study, we evaluated 201 genetically diverse rice genotypes from the 3K Rice Diversity Panel to investigate stage-specific [...] Read more.
Soil salinity remains a major constraint to rice productivity, particularly during early developmental stages when plants are highly sensitive to osmotic and ionic stress. In this study, we evaluated 201 genetically diverse rice genotypes from the 3K Rice Diversity Panel to investigate stage-specific mechanisms of salinity tolerance and develop machine learning-based predictive models for rapid phenotypic screening. Morphological and physiological traits were measured under control and saline conditions at germination and early seedling stages to derive Stress Tolerance Indices (STIs). The average membership function value (AMFV), calculated from multi-trait STI profiles, effectively captured variation in salinity responses and enabled classification of genotypes into five tolerance categories. Genome-wide association analysis using high-density SNP markers identified 36 significant marker–trait associations, including potentially novel SNPs on chromosomes 1 and 12. Several loci co-localized with candidate genes (LTR1, LGF1, OsCPS4, OsNCX7, and OsNHX4), while functional SNPs within genes (OsDRP2C, RLCK168, and OsMed37_2) and non-synonymous variants (qSVII11.1 and qSNaK3.1) further supported their candidacy in salinity tolerance. Mining favourable SNPs of causal genes identified superior multilocus combinations consistent with STI-based phenotypic patterns, with genotype 91-382 emerging as the strongest performer, exhibiting enhanced Na+ exclusion, K+ retention, and biomass resilience across developmental stages. To address multicollinearity among STI traits, we applied cross-validated LASSO (germination) and Elastic Net (early seedling) models, achieving high predictive accuracy and revealing a developmental shift from biomass-driven tolerance at germination to ion-regulatory processes at the seedling stage. Independent validation showed strong agreement between predicted and observed AMFVs. By integrating physiological indices, GWAS-derived SNP signals, and regularized machine learning approaches, this study provides a robust framework for identifying elite donors and accelerating breeding for salt-tolerant rice. Full article
(This article belongs to the Special Issue Stress-Tolerant Crops for Future Agriculture)
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