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Agronomy
Special Issues
Genetics and Genomics of Disease Resistance in Crops
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Genetics and Genomics of Disease Resistance in Crops

A special issue of Agronomy (ISSN 2073-4395). This special issue belongs to the section "Crop Breeding and Genetics".

Deadline for manuscript submissions: closed (20 June 2019) | Viewed by 20601

Special Issue Editors

Prof. Laurent Gentzbittel

E-Mail Website
Guest Editor
EcoLab, Université de Toulouse, Centre National de Recherche Scientifique, Institute National Polytechnique de Toulouse, Université Paul Sabatier, Toulouse, France
Interests: disease resistance; genomics; genetics; QTL analysis; GWAS; genomic selection/prediction; molecular biology
Dr. Diego Rubiales

E-Mail Website
Guest Editor
Institute for Sustainable Agriculture, CSIC, Avenida Menendez Pidal s/n, 14004 Cordoba, Spain
Interests: identification, characterization and use of genetic resistance in legume breeding
Special Issues, Collections and Topics in MDPI journals
Dr. Maria Carlota Vaz Patto

E-Mail Website
Guest Editor
Instituto de Tecnologia Química e Biológica António Xavier (ITQB NOVA), Universidade Nova de Lisboa, Av. da República, 2780-157 Oeiras, Portugal
Interests: genomics; genetics; molecular quantitative genetics; plant breeding; biotic/abiotic stress resistance

Special Issue Information

Dear Colleagues,

Plant diseases are among the greatest deterrents to crop production worldwide. Hence, major efforts have been devoted to understanding the mechanisms of genetic resistance and incorporating them into breeding programs to offset yield loss caused by pathogens. Breeding for disease resistance is a crucial component of sustainable agriculture that can be performed by using several approaches from classical breeding to genetic engineering.

Grounded in a strong genetics framework, the genomics revolution has contributed enormously to research and disease management applications in plant pathology. This development has rapidly increased our understanding of the molecular mechanisms underpinning pathogenesis and resistances. Nowdays, the availability of whole genome resources coupled with next-generation sequencing (NGS) technologies helps to fuel genomics-based approaches to improve disease resistance in crops. This continuous improvement of existing knowledge on both pathogen virulence and plant resistance will efficiently accelerate resistance breeding for disease resistances.

The Special Issue will focus on research topics for “Genetics and Genomics of Disease Resistance in Crops”. We are open to contributions (research papers and a number of high quality reviews), covering achievements and challenges in exploring the so-called qualitative and quantitative resistances in crops, because both qualitative and quantitative resistance are targets of selection for breeding programs. Laboratory, field scale experiments, or bioinformatics approaches, assessing the importance of gene expression (protein-coding or smRNAs genes) or of genetic polymorphisms are welcome. We will also welcome manuscripts detailing the implementation of these results into plant breeding programs, eventually combining classical and genome-editing technologies.

Prof. Laurent Gentzbittel
Prof. Diego Rubiales
Dr. Maria Carlota Vaz Patto
Guest Editors

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. Agronomy 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

  • Quantitative Disease Resistances
  • Major genes for Disease Resistances
  • Transcriptomics
  • Genomics of disease responses in a climate change framework
  • Genome structure of Resistance Gene Analogs
  • Population genomics, enlightened with phenotypic diversity within taxons
  • Genome-Editing Technologies for Enhancing Plant Disease Resistance
  • GWAS
  • Marker Assisted Selection, Pyramiding
  • Genomic Prediction/Genomic Selection

Published Papers (4 papers)

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Research

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14 pages, 1751 KiB  
Article
Aggressiveness and Fumonisins Production of Fusarium Subglutinans and Fusarium Temperatum on Korean Maize Cultivars
by Setu Bazie Tagele, Sang Woo Kim, Hyun Gu Lee and Youn Su Lee
Agronomy 2019, 9(2), 88; https://0-doi-org.brum.beds.ac.uk/10.3390/agronomy9020088 - 15 Feb 2019
Cited by 9 | Viewed by 4354
Abstract
Fusarium root rot and stalk rot are becoming a threat to maize production worldwide. However, there is still limited information about the aggressiveness of Fusarium subglutinans Edwards and Fusarium temperatum and their relationship with fumonisin production. In this study, for the first time, [...] Read more.
Fusarium root rot and stalk rot are becoming a threat to maize production worldwide. However, there is still limited information about the aggressiveness of Fusarium subglutinans Edwards and Fusarium temperatum and their relationship with fumonisin production. In this study, for the first time, the reaction of seven Korean maize cultivars to F. subglutinans and F. temperatum was investigated. The results showed that among the maize cultivars, Hik-chal and Miheung-chal had the highest Fusarium-induced root rot and stalk rot severity, while De Hack-chal had the lowest disease severity regardless of the Fusarium species. Furthermore, the disease resistant cv. De Hack-chal accumulated low levels of fumonisins (FUM) in the infected stalk, while cv. Hik-chal and Miheung-chal had the highest level of FUM. It is worth to note that, plants infected with F. temperatum had a higher FUM concentration compared to cultivars infected with F. subglutinans. The present study shows a significant correlation between stalk rot ratings and FUM levels and it also presents new information about the potential risk of FUM contamination of maize stalk with F. subglutinans and F. temperatum in South Korea. In addition, enzyme activities like polyphenol oxidase (PPO), peroxidase (POD), and the amount of total phenol content (TPC) were studied in selected susceptible cultivar Miheung-chal and resistant cultivar De Hack-chal. The activity of PPO, POD and concentration of TPC were generally higher in the roots of the resistant cultivar than the susceptible cultivar. Moreover, following inoculation of either F. subglutinans or F. temperatum, there was a significant increase in PPO and POD activity in the roots of both cultivars. Hence, the information provided in this study could be helpful to better understand the mechanisms of resistance response to infection of Fusarium root rot pathogens. Full article
(This article belongs to the Special Issue Genetics and Genomics of Disease Resistance in Crops)
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14 pages, 2405 KiB  
Article
Functional Annotation of Hypothetical Proteins Derived from Suppressive Subtraction Hybridization (SSH) Analysis Shows NPR1 (Non-Pathogenesis Related)-Like Activity
by Murugesan Chandrasekaran, Chandrasekar Raman, Kandasamy Karthikeyan and Manivannan Paramasivan
Agronomy 2019, 9(2), 57; https://0-doi-org.brum.beds.ac.uk/10.3390/agronomy9020057 - 28 Jan 2019
Cited by 3 | Viewed by 3571
Abstract
Fusarium wilt is considered the most devastating banana disease incited by Fusarium oxysporum f. sp. cubense (FOC). The present study addresses suppressive subtraction hybridization (SSH) analysis for differential gene expression in banana plant, mediated through FOC and its interaction with biocontrol agent Trichoderma [...] Read more.
Fusarium wilt is considered the most devastating banana disease incited by Fusarium oxysporum f. sp. cubense (FOC). The present study addresses suppressive subtraction hybridization (SSH) analysis for differential gene expression in banana plant, mediated through FOC and its interaction with biocontrol agent Trichoderma asperellum (prr2). SSH analysis yielded a total of 300 clones. The resultant clones were sequenced and processed to obtain 22 contigs and 87 singleton sequences. BLAST2GO (Basic Local Alignment Search Tool 2 Gene Ontology) analysis was performed to assign known protein function. Initial functional annotation showed that contig 21 possesses p38-like endoribonuclease activity and duality in subcellular localization. To gain insights into its additional roles and precise functions, a sequential docking protocol was done to affirm its role in the defense pathway. Atomic contact energies revealed binding affinities in the order of miRNA > phytoalexins > polyubiquitin, emphasizing their role in the Musa defense pathway. Contig 21 and polyubiquitin showed an atomic contact energy value of −479.60 kJ/mol, and even higher atomic contact energies were observed for miRNA (−804.86, −482.28, −494.75 kJ/mol), demonstrating its high RNA-binding properties. Phytoalexin contig 21-interacting interfacial residues were identified as rigid (10)/non-rigid (2) based on Bi, N values, and B-factor per residue. Hence, based on these results, contig 21 was characterized as a NPR1 (non-pathogenesis-related protein) homolog that is involved in plant defense and systemic induced resistance. Full article
(This article belongs to the Special Issue Genetics and Genomics of Disease Resistance in Crops)
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Review

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23 pages, 1817 KiB  
Review
Prospects for Durable Resistance Against an Old Soybean Enemy: A Four-Decade Journey from Rpp1 (Resistance to Phakopsora pachyrhizi) to Rpp7
by Subhash Chander, Alejandro Ortega-Beltran, Ranajit Bandyopadhyay, Parvender Sheoran, Gbemisola Oluwayemisi Ige, Marta W. Vasconcelos and Ana Luisa Garcia-Oliveira
Agronomy 2019, 9(7), 348; https://0-doi-org.brum.beds.ac.uk/10.3390/agronomy9070348 - 01 Jul 2019
Cited by 10 | Viewed by 6395
Abstract
Soybean rust (SBR), caused by Phakopsora spp., is a major global concern for soybean producers. SBR causing fungi are polycyclic and obligate biotrophs, rendering the study of their biology particularly tedious. Over the past four decades, substantial progress has been made towards understanding [...] Read more.
Soybean rust (SBR), caused by Phakopsora spp., is a major global concern for soybean producers. SBR causing fungi are polycyclic and obligate biotrophs, rendering the study of their biology particularly tedious. Over the past four decades, substantial progress has been made towards understanding the epidemiology of the disease, the identification of sources of resistance, and the mapping of soybean loci conferring resistance to P. pachyrhizi (Rpp genes), since this species is particularly well established and widespread in many soybean growing areas. Although host-plant resistance is generally considered as the most desirable solution from an environmental, economic, and social perspective, other disease control approaches such as agronomic practices and chemical application are also important, and influence rust epidemiology as well as the durability of host plant resistance. This review focusses primarily on genetic aspects of SBR management and summarizes the research in the following areas: SBR symptoms, aetiology, pathogenic variation and population structure of Phakopsora populations, expression of soybean resistance to Phakopsora infection, genetics and molecular diagnostics of host resistance to pathogen, and resistance gene deployment approaches. Finally, the role of multidisciplinary strategies is discussed for achieving higher durability of SBR resistance in soybean. Full article
(This article belongs to the Special Issue Genetics and Genomics of Disease Resistance in Crops)
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35 pages, 468 KiB  
Review
An Overview of Rice QTLs Associated with Disease Resistance to Three Major Rice Diseases: Blast, Sheath Blight, and Bacterial Panicle Blight
by Seyedeh Soheila Zarbafi and Jong Hyun Ham
Agronomy 2019, 9(4), 177; https://0-doi-org.brum.beds.ac.uk/10.3390/agronomy9040177 - 06 Apr 2019
Cited by 23 | Viewed by 5746
Abstract
Rice (Oryza sativa L.) is one of the most important crops that are produced as human food, directly feeding people more than any other crop. Hence, it is important to increase the yield potential of rice through improving the disease resistance to [...] Read more.
Rice (Oryza sativa L.) is one of the most important crops that are produced as human food, directly feeding people more than any other crop. Hence, it is important to increase the yield potential of rice through improving the disease resistance to prevailing rice diseases. Blast caused by the fungus Magnaporthe oryzae, sheath blight caused by the fungus Rhizoctonia solani Kühn, and bacterial panicle blight caused by the bacteria Burkholderia glumae and B. gladioli are serious rice diseases in many rice-producing regions. In spite of the chronic damages from these major diseases, the quantitative resistance to each of them is not known very well and any available disease-resistant varieties are rare or not stable. Although gene-for-gene resistance that is mediated by an R-Avr interaction has been intensively studied for blast, quantitative (or horizontal) resistance to a broad spectrum of races in M. oryzae is still poorly understood. Identification of the quantitative trait loci (QTLs) related to these diseases and using marker technology can facilitate marker-assisted selection to screen resistant traits in individual resources, which could ultimately lead to the development of novel disease-resistant rice varieties. This article is a summary of identified QTLs that are associated with rice diseases, including blast, sheath blight, and bacterial panicle blight that can be used in breeding programs. Full article
(This article belongs to the Special Issue Genetics and Genomics of Disease Resistance in Crops)
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