Richard A Sikora, Johannes Helder, Leendert P G Molendijk, Johan Desaeger, Sebastian Eves-van den Akker, Anne-Katrin Mahlein
{"title":"Integrated Nematode Management in a World in Transition: Constraints, Policy, Processes, and Technologies for the Future.","authors":"Richard A Sikora, Johannes Helder, Leendert P G Molendijk, Johan Desaeger, Sebastian Eves-van den Akker, Anne-Katrin Mahlein","doi":"10.1146/annurev-phyto-021622-113058","DOIUrl":"10.1146/annurev-phyto-021622-113058","url":null,"abstract":"<p><p>Plant-parasitic nematodes are one of the most insidious pests limiting agricultural production, parasitizing mostly belowground and occasionally aboveground plant parts. They are an important and underestimated component of the estimated 30% yield loss inflicted on crops globally by biotic constraints. Nematode damage is intensified by interactions with biotic and abiotic factors constraints: soilborne pathogens, soil fertility degradation, reduced soil biodiversity, climate variability, and policies influencing the development of improved management options. This review focuses on the following topics: (<i>a</i>) biotic and abiotic constraints, (<i>b</i>) modification of production systems, (<i>c</i>) agricultural policies, (<i>d</i>) the microbiome, (<i>e</i>) genetic solutions, and (<i>f</i>) remote sensing. Improving integrated nematode management (INM) across all scales of agricultural production and along the Global North-Global South divide, where inequalities influence access to technology, is discussed. The importance of the integration of technological development in INM is critical to improving food security and human well-being in the future.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":"61 ","pages":"209-230"},"PeriodicalIF":10.2,"publicationDate":"2023-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10148738","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
L M Quesada-Ocampo, C H Parada-Rojas, Z Hansen, G Vogel, C Smart, M K Hausbeck, R M Carmo, E Huitema, R P Naegele, C S Kousik, P Tandy, K Lamour
{"title":"<i>Phytophthora capsici</i>: Recent Progress on Fundamental Biology and Disease Management 100 Years After Its Description.","authors":"L M Quesada-Ocampo, C H Parada-Rojas, Z Hansen, G Vogel, C Smart, M K Hausbeck, R M Carmo, E Huitema, R P Naegele, C S Kousik, P Tandy, K Lamour","doi":"10.1146/annurev-phyto-021622-103801","DOIUrl":"10.1146/annurev-phyto-021622-103801","url":null,"abstract":"<p><p><i>Phytophthora capsici</i> is a destructive oomycete pathogen of vegetable, ornamental, and tropical crops. First described by L.H. Leonian in 1922 as a pathogen of pepper in New Mexico, USA, <i>P. capsici</i> is now widespread in temperate and tropical countries alike. <i>Phytophthora capsici</i> is notorious for its capability to evade disease management strategies. High genetic diversity allows <i>P. capsici</i> populations to overcome fungicides and host resistance, the formation of oospores results in long-term persistence in soils, zoospore differentiation in the presence of water increases epidemic potential, and a broad host range maximizes economic losses and limits the effectiveness of crop rotation. The severity of disease caused by <i>P. capsici</i> and management challenges have led to numerous research efforts in the past 100 years. Here, we discuss recent findings regarding the biology, genetic diversity, disease management, fungicide resistance, host resistance, genomics, and effector biology of <i>P. capsici</i>.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":"61 ","pages":"185-208"},"PeriodicalIF":10.2,"publicationDate":"2023-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10148769","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"<i>Ralstonia solanacearum</i>: An Arsenal of Virulence Strategies and Prospects for Resistance.","authors":"Fabienne Vailleau, Stéphane Genin","doi":"10.1146/annurev-phyto-021622-104551","DOIUrl":"10.1146/annurev-phyto-021622-104551","url":null,"abstract":"<p><p>The group of strains constituting the <i>Ralstonia solanacearum</i> species complex (RSSC) is a prominent model for the study of plant-pathogenic bacteria because of its impact on agriculture, owing to its wide host range, worldwide distribution, and long persistence in the environment. RSSC strains have led to numerous studies aimed at deciphering the molecular bases of virulence, and many biological functions and mechanisms have been described to contribute to host infection and pathogenesis. In this review, we put into perspective recent advances in our understanding of virulence in RSSC strains, both in terms of the inventory of functions that participate in this process and their evolutionary dynamics. We also present the different strategies that have been developed to combat these pathogenic strains through biological control, antimicrobial agents, plant genetics, or microbiota engineering.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":"61 ","pages":"25-47"},"PeriodicalIF":10.2,"publicationDate":"2023-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10158101","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Engineering the Crop Microbiota Through Host Genetics.","authors":"Carmen Escudero-Martinez, Davide Bulgarelli","doi":"10.1146/annurev-phyto-021621-121447","DOIUrl":"10.1146/annurev-phyto-021621-121447","url":null,"abstract":"<p><p>The microbiota populating the plant-soil continuum defines an untapped resource for sustainable crop production. The host plant is a driver for the taxonomic composition and function of these microbial communities. In this review, we illustrate how the host genetic determinants of the microbiota have been shaped by plant domestication and crop diversification. We discuss how the heritable component of microbiota recruitment may represent, at least partially, a selection for microbial functions underpinning the growth, development, and health of their host plants and how the magnitude of this heritability is influenced by the environment. We illustrate how host-microbiota interactions can be treated as an external quantitative trait and review recent studies associating crop genetics with microbiota-based quantitative traits. We also explore the results of reductionist approaches, including synthetic microbial communities, to establish causal relationships between microbiota and plant phenotypes. Lastly, we propose strategies to integrate microbiota manipulation into crop selection programs. Although a detailed understanding of when and how heritability for microbiota composition can be deployed for breeding purposes is still lacking, we argue that advances in crop genomics are likely to accelerate wider applications of plant-microbiota interactions in agriculture.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":"61 ","pages":"257-277"},"PeriodicalIF":10.2,"publicationDate":"2023-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10511465","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
John McDowell, Gwyn Beattie, Steve Lindow, Jan Leach
{"title":"Appreciation for the Leadership of Leach and Lindow.","authors":"John McDowell, Gwyn Beattie, Steve Lindow, Jan Leach","doi":"10.1146/annurev-py-60-061722-100001","DOIUrl":"https://doi.org/10.1146/annurev-py-60-061722-100001","url":null,"abstract":"","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":"v"},"PeriodicalIF":10.2,"publicationDate":"2022-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40420548","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Jasmine S Peters, Beatriz A Aguirre, Anna DiPaola, Alison G Power
{"title":"Ecology of Yellow Dwarf Viruses in Crops and Grasslands: Interactions in the Context of Climate Change.","authors":"Jasmine S Peters, Beatriz A Aguirre, Anna DiPaola, Alison G Power","doi":"10.1146/annurev-phyto-020620-101848","DOIUrl":"https://doi.org/10.1146/annurev-phyto-020620-101848","url":null,"abstract":"<p><p>Our understanding of the ecological interactions between plant viruses, their insect vectors, and their host plants has increased rapidly over the past decade. The suite of viruses known collectively as the yellow dwarf viruses infect an extensive range of cultivated and noncultivated grasses worldwide and is one of the best-studied plant virus systems. The yellow dwarf viruses are ubiquitous in cereal crops, where they can significantly limit yields, and there is growing recognition that they are also ubiquitous in grassland ecosystems, where they can influence community dynamics. Here, we discuss recent research that has explored (<i>a</i>) the extent and impact of yellow dwarf viruses in a diversity of plant communities, (<i>b</i>) the role of vector behavior in virus transmission, and (<i>c</i>) the prospects for impacts of climate change-including rising temperatures, drought, and elevated CO<sub>2</sub>-on the epidemiology of yellow dwarf viruses.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":"283-305"},"PeriodicalIF":10.2,"publicationDate":"2022-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40420547","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Anuj Sharma, Peter Abrahamian, Renato Carvalho, Manoj Choudhary, Mathews L Paret, Gary E Vallad, Jeffrey B Jones
{"title":"Future of Bacterial Disease Management in Crop Production.","authors":"Anuj Sharma, Peter Abrahamian, Renato Carvalho, Manoj Choudhary, Mathews L Paret, Gary E Vallad, Jeffrey B Jones","doi":"10.1146/annurev-phyto-021621-121806","DOIUrl":"https://doi.org/10.1146/annurev-phyto-021621-121806","url":null,"abstract":"<p><p>Bacterial diseases are a constant threat to crop production globally. Current management strategies rely on an array of tactics, including improved cultural practices; application of bactericides, plant activators, and biocontrol agents; and use of resistant varieties when available. However, effective management remains a challenge, as the longevity of deployed tactics is threatened by constantly changing bacterial populations. Increased scrutiny of the impact of pesticides on human and environmental health underscores the need for alternative solutions that are durable, sustainable, accessible to farmers, and environmentally friendly. In this review, we discuss the strengths and shortcomings of existing practices and dissect recent advances that may shape the future of bacterial disease management. We conclude that disease resistance through genome modification may be the most effective arsenal against bacterial diseases. Nonetheless, more research is necessary for developing novel bacterial disease management tactics to meet the food demand of a growing global population.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":"259-282"},"PeriodicalIF":10.2,"publicationDate":"2022-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40585276","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Rooting Out the Mechanisms of Root-Knot Nematode-Plant Interactions.","authors":"William B Rutter, Jessica Franco, Cynthia Gleason","doi":"10.1146/annurev-phyto-021621-120943","DOIUrl":"https://doi.org/10.1146/annurev-phyto-021621-120943","url":null,"abstract":"<p><p>Root-knot nematodes (RKNs; <i>Meloidogyne</i> spp.) engage in complex parasitic interactions with many different host plants around the world, initiating elaborate feeding sites and disrupting host root architecture. Although RKNs have been the focus of research for many decades, new molecular tools have provided useful insights into the biological mechanisms these pests use to infect and manipulate their hosts. From identifying host defense mechanisms underlying resistance to RKNs to characterizing nematode effectors that alter host cellular functions, the past decade of research has significantly expanded our understanding of RKN-plant interactions, and the increasing number of quality parasite and host genomes promises to enhance future research efforts into RKNs. In this review, we have highlighted recent discoveries, summarized the current understanding within the field, and provided links to new and useful resources for researchers. Our goal is to offer insights and tools to support the study of molecular RKN-plant interactions.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":"43-76"},"PeriodicalIF":10.2,"publicationDate":"2022-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40313136","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Point-of-Care DNA Amplification for Disease Diagnosis and Management.","authors":"José R Botella","doi":"10.1146/annurev-phyto-021621-115027","DOIUrl":"https://doi.org/10.1146/annurev-phyto-021621-115027","url":null,"abstract":"<p><p>Early detection of pests and pathogens is of paramount importance in reducing agricultural losses. One approach to early detection is point-of-care (POC) diagnostics, which can provide early warning and therefore allow fast deployment of preventive measures to slow down the establishment of crop diseases. Among the available diagnostic technologies, nucleic acid amplification-based diagnostics provide the highest sensitivity and specificity, and those technologies that forego the requirement for thermocycling show the most potential for use at POC. In this review, I discuss the progress, advantages, and disadvantages of the established and most promising POC amplification technologies. The success and usefulness of POC amplification are ultimately dependent on the availability of POC-friendly nucleic acid extraction methods and amplification readouts, which are also briefly discussed in the review.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":"1-20"},"PeriodicalIF":10.2,"publicationDate":"2022-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40431253","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
K. Garrett, D. Bebber, B. Etherton, K. Gold, A. I. P. Sulá, M. Selvaraj
{"title":"Climate Change Effects on Pathogen Emergence: Artificial Intelligence to Translate Big Data for Mitigation.","authors":"K. Garrett, D. Bebber, B. Etherton, K. Gold, A. I. P. Sulá, M. Selvaraj","doi":"10.1146/annurev-phyto-021021-042636","DOIUrl":"https://doi.org/10.1146/annurev-phyto-021021-042636","url":null,"abstract":"Plant pathology has developed a wide range of concepts and tools for improving plant disease management, including models for understanding and responding to new risks from climate change. Most of these tools can be improved using new advances in artificial intelligence (AI), such as machine learning to integrate massive data sets in predictive models. There is the potential to develop automated analyses of risk that alert decision-makers, from farm managers to national plant protection organizations, to the likely need for action and provide decision support for targeting responses. We review machine-learning applications in plant pathology and synthesize ideas for the next steps to make the most of these tools in digital agriculture. Global projects, such as the proposed global surveillance system for plant disease, will be strengthened by the integration of the wide range of new data, including data from tools like remote sensors, that are used to evaluate the risk of plant disease. There is exciting potential for the use of AI to strengthen global capacity building as well, from image analysis for disease diagnostics and associated management recommendations on farmers' phones to future training methodologies for plant pathologists that are customized in real-time for management needs in response to the current risks. International cooperation in integrating data and models will help develop the most effective responses to new challenges from climate change. Expected final online publication date for the Annual Review of Phytopathology, Volume 60 is August 2022. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":""},"PeriodicalIF":10.2,"publicationDate":"2022-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43181273","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}