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Agriculture
Special Issues
Breeding for Abiotic Stress Resistance in Crops: Biotechnology and Bioinformatics
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Breeding for Abiotic Stress Resistance in Crops: Biotechnology and Bioinformatics

A special issue of Agriculture (ISSN 2077-0472). This special issue belongs to the section "Crop Genetics, Genomics and Breeding".

Deadline for manuscript submissions: 25 October 2024 | Viewed by 1092

Special Issue Editor

Prof. Dr. Antonio Di Matteo

E-Mail Website
Guest Editor
Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici, Italy
Interests: plant biotechnologies; genomics; molecular breeding; transcriptomics; abiotic stresses; plant response and tolerance; drought; salinity; genetic engineering; synthetic biology

Special Issue Information

Dear Colleagues,

Environmental stresses dramatically affect crop yield and quality at the global level. Among others, drought and salinity are becoming particularly challenging in many regions worldwide. The extent of their impact on the profitability and sustainability of agricultural systems is even exacerbated by climate change, posing increasing food insecurity concerns and competition on natural resources.

To meet an increasing food demand from a growing human population, breeding more tolerant plants to environmental stressors is consistent with the strategy to develop more resilient agricultural systems.

This Special Issue focuses on the implementation of biotechnological tools and bioinformatic pipelines in innovative breeding strategies for abiotic stress tolerance in crops. This SI will include interdisciplinary studies embracing plant genetic and breeding, genomics and bioinformatics, plant biology and physiology, chemistry, statistics, modeling, and engineering. Manuscripts addressing open questions on plant abiotic stress responses and cutting-edge research on innovative breeding approaches for enhanced abiotic stress tolerance are welcome. Among others, the following themes are warmly encouraged: (a) implementing new crop breeding approaches for abiotic stress tolerance by integrating biotechnological strategies and conventional methods; (b) improving carbon sequestering capacity and climate resilience in plants; (c) genomic-based breeding strategies to improve complex traits; and (d) integrating phenomics and big data analysis to improve crop breeding strategies for enhanced tolerance.

These research articles will cover a broad range of crops. All types of articles, such as original research, opinions, and reviews, are welcome.

Prof. Dr. Antonio Di Matteo
Guest Editor

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

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-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Agriculture is an international peer-reviewed open access monthly 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 2600 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

  • QTLs
  • complex traits
  • resilience
  • advanced plant breeding
  • genome editing
  • genomic selection
  • genome-wide association studies
  • automation
  • robotic engineering
  • phenomic platforms

Published Papers (2 papers)

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Research

20 pages, 6547 KiB  
Article
Transcriptomic Analysis Reveals the Mechanism of MtLOX24 in Response to Methyl Jasmonate Stress in Medicago truncatula
by Lei Xu, Yanchao Xu, Huanhuan Lv, Yanran Xu, Jiangqi Wen, Mingna Li, Junmei Kang, Zhipeng Liu, Qingchuan Yang and Ruicai Long
Agriculture 2024, 14(7), 1076; https://doi.org/10.3390/agriculture14071076 - 4 Jul 2024
Viewed by 420
Abstract
Lipoxygenase (LOX) is associated with responses to plant hormones, environmental stresses, and signaling substances. Methyl jasmonate (MeJA) treatment triggers the production of LOX, polyphenol oxidase, and protease inhibitors in various plants, producing resistance to herbivory. To examine the response of MtLOX24 to MeJA, [...] Read more.
Lipoxygenase (LOX) is associated with responses to plant hormones, environmental stresses, and signaling substances. Methyl jasmonate (MeJA) treatment triggers the production of LOX, polyphenol oxidase, and protease inhibitors in various plants, producing resistance to herbivory. To examine the response of MtLOX24 to MeJA, the phenotypic and physiological changes in Medicago truncatula MtLOX24 overexpression and lox mutant plants were investigated. Additionally, wild-type R108, the MtLOX24-overexpressing line L4, and the mutant lox-1 were utilized as experimental materials to characterize the differentially expressed genes (DEGs) and metabolic pathways in response to MeJA. The results indicate that after treatment with 200 µM of MeJA, the damage in the mutants lox-1 and lox-2 was more serious than in the overexpressing lines L4 and L6, with more significant leaf wilting, yellowing, and oxidative damage in lox-1 and lox-2. Exogenous application of MeJA induced H2O2 production and POD activity but reduced CAT activity in the lox mutants. Transcriptome analysis revealed 10,238 DEGs in six libraries of normal-growing groups (cR108, cL4, and clox1) and MeJA-treated groups (R108, L4, and lox1). GO and KEGG functional enrichment analysis demonstrated that under normal growth conditions, the DEGs between the cL4 vs. cR108 and the clox-1 vs. cR108 groups were primarily enriched in signaling pathways such as plant–pathogen interactions, flavonoid biosynthesis, plant hormone signal transduction, the MAPK signaling pathway, and glutathione metabolism. The DEGs of the R108 vs. cR108 and L4 vs. cL4 groups after MeJA treatment were mainly enriched in glutathione metabolism, phenylpropanoid biosynthesis, the MAPK signaling pathway, circadian rhythm, and α-linolenic acid metabolism. Among them, under normal growth conditions, genes like PTI5, PR1, HSPs, PALs, CAD, CCoAOMT, and CYPs showed significant differences between L4 and the wild type, suggesting that the expression of these genes is impacted by MtLOX24 overexpression. CDPKs, CaMCMLs, IFS, JAZ, and other genes were also significantly different between L4 and the wild type upon MeJA treatment, suggesting that they might be important genes involved in JA signaling. This study provides a reference for the study of the response mechanism of MtLOX24 under MeJA signaling. Full article
(This article belongs to the Special Issue Breeding for Abiotic Stress Resistance in Crops: Biotechnology and Bioinformatics)
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18 pages, 6741 KiB  
Article
Identification and Functional Prediction of Salt/Alkali-Responsive lncRNAs during Alfalfa Germination
by Yajiao Liu, Lei Xu, Tiejun Zhang, Bilig Sod, Yanchao Xu, Mingna Li, Junmei Kang, Qingchuan Yang, Xiao Li and Ruicai Long
Agriculture 2024, 14(6), 930; https://doi.org/10.3390/agriculture14060930 - 13 Jun 2024
Viewed by 411
Abstract
Long non-coding RNAs (lncRNAs) are pivotal regulators of the abiotic stress responses in plants, yet their specific involvement in salt/alkali stress during alfalfa germination remains incompletely understood. Here, we subjected Zhongmu No.1 alfalfa (Medicago sativa L.) seeds to salt stress (20 mM [...] Read more.
Long non-coding RNAs (lncRNAs) are pivotal regulators of the abiotic stress responses in plants, yet their specific involvement in salt/alkali stress during alfalfa germination remains incompletely understood. Here, we subjected Zhongmu No.1 alfalfa (Medicago sativa L.) seeds to salt stress (20 mM NaCl and 20 mM Na2SO4 solutions) or alkali stress (5 mM NaHCO3 and 5 mM Na2CO3 solutions) treatments for 3 days, followed by total RNA extraction and RNA-seq analysis to delineate stress-responsive alfalfa lncRNAs. We identified 17,473 novel alfalfa lncRNAs, among which 101 and 123 were differentially expressed lncRNAs (DElncRNAs) under salt and alkali stress, respectively, compared to the control. Furthermore, we predicted 16 and 237 differentially expressed target genes regulated by DElncRNAs through cis/trans-regulatory mechanisms under salt or alkali stress, respectively. A functional enrichment analysis of DElncRNA target genes indicated that lncRNAs were implicated in the fatty acid metabolism pathway under salt stress, while they played a significant role in the phenylpropanoid and flavonoid biosynthesis pathway under alkali stress. Notably, lncRNAs were found to participate in the plant hormone signal transduction pathway, a common regulatory mechanism in both salt and alkali stress responses. These findings contribute to a deeper understanding of the mechanisms underlying alfalfa’s response to salt and alkali stresses. Full article
(This article belongs to the Special Issue Breeding for Abiotic Stress Resistance in Crops: Biotechnology and Bioinformatics)
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