Harnessing Plant Microbiome to Improve the Resilience of Crop Species Under Various Biotic and Abiotic Stress Conditions

A special issue of Plants (ISSN 2223-7747). This special issue belongs to the section "Plant Protection and Biotic Interactions".

Deadline for manuscript submissions: 30 October 2025 | Viewed by 933

Special Issue Editors


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Guest Editor
Citrus Center, Texas A&M University-Kingsville, Weslaco, TX 78599, USA
Interests: plant pathology; biotic and abiotic stress tolerance; metagenomics; sustainable agriculture

E-Mail Website
Guest Editor
Citrus Center, Texas A&M University-Kingsville, Weslaco, TX 785799, USA
Interests: plant microbiome; plant–pathogen interaction; biocontrol
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Special Issue Information

Dear Colleagues,

The demand for agricultural products is increasing due to the growing human population. However, in recent years, the current agricultural cropping system is continuously being challenged by its frequent exposure to extreme weather conditions, leading to unprecedented stress conditions for crops. It is estimated that approximately 30% and 50% of the yield of global agricultural production is compromised by biotic and abiotic stress conditions, respectively. Modern agriculture is heavily reliant on the application of diverse agrochemicals throughout the whole growing season to maintain or enhance its yield. However, this heavy use of agrochemicals in agriculture has led to an increase  in awareness regarding the potential hazardous effect that agrochemicals have on the environment and human health. The use of beneficial microbes against biotic and abiotic stress is an eco-friendly strategy that can reduce the application of agrochemicals. With the development of high-throughput sequencing technologies, 16s rRNA genes and shotgun metagenomic sequencing provide a powerful tool for deciphering plant microbiomes, which are useful for the identification, isolation and application of beneficial microbes for sustainable agriculture.

This Special Issue aims to explore the latest findings and insights regarding the plant-associated microbiome and its relationship with crop resilience under various stress conditions. The scope of this Special Issue therefore includes, but is not limited to, the following topics:

  • The interaction between the microbiome and plant pathogens;
  • Alterations in the community and structure of the plant-associated microbiome in response to environmental or ecological factors;
  • Microbiome engineering for improving crop resistance to biotic and abiotic stresses; 
  • Plant microbiome assemblage.

Dr. Jong Won Park
Dr. Chuanyu Yang
Guest Editors

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Keywords

  • plant-associated microbiome
  • climate change
  • biotic and abiotic stress
  • crop protection
  • sustainable agriculture
  • metabolomics
  • microbiome engineering
  • beneficial microbe
  • rhizosphere
  • secondary metabolites

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Published Papers (1 paper)

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Review

31 pages, 1989 KiB  
Review
Plant Microbiomes Alleviate Abiotic Stress-Associated Damage in Crops and Enhance Climate-Resilient Agriculture
by Fazal Ullah, Sajid Ali, Muhammad Siraj, Muhammad Saeed Akhtar and Wajid Zaman
Plants 2025, 14(12), 1890; https://doi.org/10.3390/plants14121890 - 19 Jun 2025
Viewed by 644
Abstract
Plant microbiomes, composed of a diverse array of microorganisms such as bacteria, fungi, archaea, and microalgae, are critical to plant health and resilience, playing key roles in nutrient cycling, stress mitigation, and disease resistance. Climate change is expected to intensify various abiotic stressors, [...] Read more.
Plant microbiomes, composed of a diverse array of microorganisms such as bacteria, fungi, archaea, and microalgae, are critical to plant health and resilience, playing key roles in nutrient cycling, stress mitigation, and disease resistance. Climate change is expected to intensify various abiotic stressors, such as drought, salinity, temperature extremes, nutrient deficiencies, and heavy metal toxicity. Plant-associated microbiomes have emerged as a promising natural solution to help mitigate these stresses and enhance agricultural resilience. However, translating laboratory findings into real-world agricultural benefits remains a significant challenge due to the complexity of plant–microbe interactions under field conditions. We explore the roles of plant microbiomes in combating abiotic stress and discuss advances in microbiome engineering strategies, including synthetic biology, microbial consortia design, metagenomics, and CRISPR-Cas, with a focus on enhancing their practical application in agriculture. Integrating microbiome-based solutions into climate-smart agricultural practices may contribute to long-term sustainability. Finally, we underscore the importance of interdisciplinary collaboration in overcoming existing challenges. Microbiome-based solutions hold promise for improving global food security and promoting sustainable agricultural practices in the face of climate change. Full article
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