Annual review of phytopathology最新文献

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Phytopathogen Effector Biology in the Burgeoning AI Era. 新兴人工智能时代的植物病原体效应生物学。
IF 9.1 1区 农林科学
Annual review of phytopathology Pub Date : 2025-06-20 DOI: 10.1146/annurev-phyto-121823-081033
Darcy Adam Bain Jones, Sylvain Raffaele
{"title":"Phytopathogen Effector Biology in the Burgeoning AI Era.","authors":"Darcy Adam Bain Jones, Sylvain Raffaele","doi":"10.1146/annurev-phyto-121823-081033","DOIUrl":"10.1146/annurev-phyto-121823-081033","url":null,"abstract":"<p><p>Plant pathogens secrete effectors to facilitate infection and manipulate host physiological and immune responses. Effector proteins are challenging to characterize because of their sequence and functional diversity, rapid evolution, and host-specific interactions. Recent advances in artificial intelligence (AI), particularly in protein biology, offer new opportunities for identifying and characterizing effector proteins and understanding their evolutionary processes. This review discusses recent progress in applying AI to effector biology, focusing on identification, functional characterization, and evolution. Key areas include subcellular localization prediction, protein structural modeling with tools like AlphaFold, and the use of pretrained protein language models. AI promises to complement existing experimental and computational approaches and further accelerate the investigation of effector protein functions and their evolutionary histories, even in the absence of clear sequence similarity or known functional domains.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":""},"PeriodicalIF":9.1,"publicationDate":"2025-06-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144336282","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}
引用次数: 0
Pathogen-Informed Strategies for Durable Resistance in Rice: Lessons from Bacterial Blight. 基于病原体的水稻持久抗性策略:来自白叶枯病的教训。
IF 9.1 1区 农林科学
Annual review of phytopathology Pub Date : 2025-06-16 DOI: 10.1146/annurev-phyto-121923-080533
Jagjeet S Lore, Dale Pinili, D Bhatia, Lemuel Ray Balloyan, Ian Paul Navea, Mandeep S Hunjan, Gurjit S Mangat, Ram Singh, John Damien Platten, Bing Yang, Jan E Leach, Frank F White, Casiana M Vera Cruz, Van Schepler-Luu
{"title":"Pathogen-Informed Strategies for Durable Resistance in Rice: Lessons from Bacterial Blight.","authors":"Jagjeet S Lore, Dale Pinili, D Bhatia, Lemuel Ray Balloyan, Ian Paul Navea, Mandeep S Hunjan, Gurjit S Mangat, Ram Singh, John Damien Platten, Bing Yang, Jan E Leach, Frank F White, Casiana M Vera Cruz, Van Schepler-Luu","doi":"10.1146/annurev-phyto-121923-080533","DOIUrl":"https://doi.org/10.1146/annurev-phyto-121923-080533","url":null,"abstract":"<p><p>Bacterial blight (BB), caused by <i>Xanthomonas oryzae</i> pathovar <i>oryzae</i> (<i>Xoo</i>), is a major rice disease in Asia and Africa. <i>Xoo</i> possesses virulence factors for pathogenicity and race differentiation that complicate resistance breeding of rice. The availability of 48 BB resistance (<i>R</i>) genes (<i>Xa/xa</i>) portends the selection of <i>R</i> genes for broad and durable resistance. To establish durable resistance, understanding the pathogen virulence spectrum and host resistance mechanisms is required. This review examines the global distribution and diversity of <i>Xoo</i> populations, highlights the different resistance mechanisms of 15 <i>Xa/xa</i> genes, and identifies the three effective resistance genes for 24 countries. The review proposes strategies for durable, broad-spectrum resistance to BB.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":""},"PeriodicalIF":9.1,"publicationDate":"2025-06-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144309480","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}
引用次数: 0
The Spectrum of Diverse Disease-Resistance Genes Cloned and Characterized in the Triticeae Tribe. 小麦族多种抗病基因的克隆与鉴定。
IF 9.1 1区 农林科学
Annual review of phytopathology Pub Date : 2025-06-16 DOI: 10.1146/annurev-phyto-121323-031121
Yinghui Li, Liubov Govta, Yi-Chang Sung, Gitta Coaker, Tzion Fahima
{"title":"The Spectrum of Diverse Disease-Resistance Genes Cloned and Characterized in the Triticeae Tribe.","authors":"Yinghui Li, Liubov Govta, Yi-Chang Sung, Gitta Coaker, Tzion Fahima","doi":"10.1146/annurev-phyto-121323-031121","DOIUrl":"https://doi.org/10.1146/annurev-phyto-121323-031121","url":null,"abstract":"<p><p>The Triticeae tribe comprises species representing some of the world's largest food and forage crops, including common wheat, durum, barley, rye, and oat. Crop yields are continuously threatened by various plant diseases and deploying disease resistance (R) genes is a key strategy for protection. More than 70 different Triticeae R gene loci have been cloned, with approximately 60% derived from wild relatives. These R genes belong to diverse protein families, such as receptor kinases (RKs), nucleotide-binding leucine-rich repeat (NLR) immune receptors, tandem kinase proteins, and kinase fusion proteins as well as noncanonical R genes related to membrane, transcription, and detoxification. RKs and NLRs often confer race-specific resistance by recognizing pathogen effectors, whereas noncanonical R genes can provide broad-spectrum resistance. This review provides an overview of the diverse R genes cloned from Triticeae and their evolutionary origins, modes of action, and application in resistance breeding.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":""},"PeriodicalIF":9.1,"publicationDate":"2025-06-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144309481","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}
引用次数: 0
Contrasting Mechanisms of Defense Against Biotrophic and Necrotrophic Pathogens, 20 Years Later: What Has Changed? 生物营养和坏死性病原体的防御机制对比,20年后:发生了什么变化?
IF 9.1 1区 农林科学
Annual review of phytopathology Pub Date : 2025-06-04 DOI: 10.1146/annurev-phyto-121823-031139
Tesfaye Mengiste, Chao-Jan Liao
{"title":"Contrasting Mechanisms of Defense Against Biotrophic and Necrotrophic Pathogens, 20 Years Later: What Has Changed?","authors":"Tesfaye Mengiste, Chao-Jan Liao","doi":"10.1146/annurev-phyto-121823-031139","DOIUrl":"https://doi.org/10.1146/annurev-phyto-121823-031139","url":null,"abstract":"<p><p>Significant advances have been made in understanding mechanisms of plant defense against biotrophic and necrotrophic pathogens. Whole-genome sequencing of these pathogens has uncovered the genetic underpinnings of the distinct and common virulence and defense mechanisms. Necrotrophic pathogens produce toxins, necrosis-inducing proteins, secondary metabolites, and hydrolytic enzymes, and their virulence generates endogenous plant peptides. The recognition of these factors triggers broad-spectrum quantitative resistance. Resistance to specialist, host-specific, toxin-producing pathogens is mediated by the absence of host susceptibility proteins, including nucleotide-binding leucine-rich repeats (NLRs), or by detoxification mechanisms. Biotrophic pathogens utilize distinct virulence strategies, and NLR proteins are critical determinants of resistance, interacting synergistically with other quantitative resistance factors. However, NLRs are ineffective against necrotrophs, which exploit canonical immune responses to establish and promote disease. Immune responses such as hypersensitive cell death and the production of reactive oxygen species and accumulation of hormones exhibit distinct or complex roles in defense against biotrophic and necrotrophic pathogens. Lately, the microbiome has become instrumental in uncovering novel pathogen resistance mechanisms. However, further studies are needed to understand the genes involved in recruiting defense-promoting microbes and their impact on pathogens with distinct virulence. Overall, a comprehensive understanding of mechanisms of resistance to biotrophic and necrotrophic pathogens is crucial for activating or suppressing appropriate host responses.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":""},"PeriodicalIF":9.1,"publicationDate":"2025-06-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144224140","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}
引用次数: 0
Mechanisms of Enterobacterales Plant Necrotrophy and Host Specificity: Two Types of Bacterial Necrotroph. 肠杆菌的植物坏死机制和宿主特异性:两种类型的细菌坏死。
IF 9.1 1区 农林科学
Annual review of phytopathology Pub Date : 2025-06-04 DOI: 10.1146/annurev-phyto-121823-080201
Brian H Kvitko, Amy O Charkowski, Janak R Joshi
{"title":"Mechanisms of Enterobacterales Plant Necrotrophy and Host Specificity: Two Types of Bacterial Necrotroph.","authors":"Brian H Kvitko, Amy O Charkowski, Janak R Joshi","doi":"10.1146/annurev-phyto-121823-080201","DOIUrl":"https://doi.org/10.1146/annurev-phyto-121823-080201","url":null,"abstract":"<p><p>Necrotrophic bacteria within the order Enterobacterales cause significant agricultural losses, with few effective management options available for producers. These pathogens have evolved at least two distinct strategies for infecting plants. Soft rot pathogens in the family Pectobacteriaceae, such as <i>Dickeya</i> and <i>Pectobacterium</i>, rely on secreting plant cell wall-degrading enzymes. In contrast, <i>Pantoea</i> necrotrophs depend on the production of phosphonate phytotoxins, a type of secondary metabolite, for their pathogenicity. This review summarizes recent discoveries on the virulence mechanisms of bacterial necrotrophs and current knowledge of factors that influence their host range and interactions with plant immune defenses. A deeper understanding of bacterial necrotroph host range determinants could inform the development and deployment of enhanced genetic resistance strategies.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":""},"PeriodicalIF":9.1,"publicationDate":"2025-06-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144224141","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}
引用次数: 0
Guns 'N Roses: Fungal Volatile Warfare in Postharvest Disease Control. 枪炮玫瑰:采后病害控制中的真菌挥发性战。
IF 9.1 1区 农林科学
Annual review of phytopathology Pub Date : 2025-06-02 DOI: 10.1146/annurev-phyto-120624-122024
Safa Oufensou, Zahoor Ul-Hassan, Kareem Badr, Virgilio Balmas, Samir Jaoua, Quirico Migheli
{"title":"Guns 'N Roses: Fungal Volatile Warfare in Postharvest Disease Control.","authors":"Safa Oufensou, Zahoor Ul-Hassan, Kareem Badr, Virgilio Balmas, Samir Jaoua, Quirico Migheli","doi":"10.1146/annurev-phyto-120624-122024","DOIUrl":"https://doi.org/10.1146/annurev-phyto-120624-122024","url":null,"abstract":"<p><p>Phytopathogenic and food spoilage microorganisms are major contributors to postharvest crop losses. Some species of fungi are able to produce mycotoxins, posing health risks to both humans and animals. Control methods based on synthetic fungicides raised environmental and health concerns and led to the development of fungicide-resistant pathogens. As a result, biological control has gained momentum as an eco-friendly alternative. Microbial biocontrol agents (BCAs) are increasingly being commercialized, with recent research exploring volatile-mediated interactions between BCAs, pathogens, and the treated commodities. Volatile organic compounds (VOCs) play a crucial role in biocontrol. This review focuses on fungal volatiles, their chemical diversity, their effects, and the application of VOC-emitting fungi or synthetic VOCs as biofumigants. Future research directions include enhancing VOC-producing agents through targeted mutagenesis and synthetic biology, understanding interspecies interactions, and applications of artificial intelligence in analytical chemistry, which shall lead to increased efficiency and precision in postharvest biocontrol.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":""},"PeriodicalIF":9.1,"publicationDate":"2025-06-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144207431","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}
引用次数: 0
Translational Regulation of Plant Stress Responses: Mechanisms, Pathways, and Applications in Bioengineering. 植物逆境反应的翻译调控:机制、途径及其在生物工程中的应用。
IF 9.1 1区 农林科学
Annual review of phytopathology Pub Date : 2025-06-02 DOI: 10.1146/annurev-phyto-121823-032335
Yezi Xiang, Xinnian Dong
{"title":"Translational Regulation of Plant Stress Responses: Mechanisms, Pathways, and Applications in Bioengineering.","authors":"Yezi Xiang, Xinnian Dong","doi":"10.1146/annurev-phyto-121823-032335","DOIUrl":"https://doi.org/10.1146/annurev-phyto-121823-032335","url":null,"abstract":"<p><p>Understanding how organisms regulate protein translation in response to stress is vital for both fundamental biology and biotechnological innovation. However, our knowledge of this area remains limited due to the inherent complexity of the translational regulatory process. Recent advances in multiomics and single-molecule technologies now allow for an integrated analysis of the multilayered regulation of translation in plants in response to biotic and abiotic stresses. In this review, we provide essential background information for newcomers to the field and synthesize recent discoveries in stress-induced translation into the following key areas: mRNA features (cap, Kozak sequence, uAUGs and uORFs, secondary structures, modifications, alternative splicing, small RNAs), ribosomal biogenesis and heterogeneity, tRNA and codon usage, master translation regulatory factors, spatial dynamics of translation, tools for studying translation regulation, and translational engineering for crop resilience. In assembling this review, we also uncovered significant knowledge gaps that represent exciting opportunities for future research.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":""},"PeriodicalIF":9.1,"publicationDate":"2025-06-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144207432","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}
引用次数: 0
Susceptibility Genes in Bacterial Diseases of Plants. 植物细菌性病害的易感基因研究。
IF 9.1 1区 农林科学
Annual review of phytopathology Pub Date : 2025-05-30 DOI: 10.1146/annurev-phyto-121423-104525
Shivranjani Baruah, Mathilde Hutin, Adam J Bogdanove
{"title":"Susceptibility Genes in Bacterial Diseases of Plants.","authors":"Shivranjani Baruah, Mathilde Hutin, Adam J Bogdanove","doi":"10.1146/annurev-phyto-121423-104525","DOIUrl":"https://doi.org/10.1146/annurev-phyto-121423-104525","url":null,"abstract":"<p><p>Plant susceptibility (S) genes exploited by pathogenic bacteria play critical roles in disease development, collectively contributing to symptoms, pathogen proliferation, and spread. S genes may support pathogen establishment within the host, suppress host immunity, regulate host physiology or development, or function in other ways. S genes can be passive, e.g., involved in pathogen attraction or required for pathogen effector localization or activity, or active, contributing directly to symptoms or pathogen proliferation. Knowledge of S genes is important for understanding disease and other aspects of plant biology. It is also useful for disease management, as nonfunctional alleles can slow or prevent disease and, because they are often quantitative, can exert less selection on pathogens than dominant resistance genes, allowing greater durability. In this review, we discuss bacterial exploitation of S genes, S-gene functional diversity, approaches for identifying S genes, translation of S-gene knowledge for disease control, and future perspectives on this exciting area of plant pathology.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":""},"PeriodicalIF":9.1,"publicationDate":"2025-05-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144186395","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}
引用次数: 0
Cryphonectriaceae: Biodiverse and Threatening Tree Pathogens in the Tropics and Southern Hemisphere. 冰楠科:热带和南半球的生物多样性和威胁性树木病原体。
IF 9.1 1区 农林科学
Annual review of phytopathology Pub Date : 2025-05-28 DOI: 10.1146/annurev-phyto-121823-030316
Michael J Wingfield, Nam Q Pham, Seonju Marincowitz, Brenda D Wingfield
{"title":"Cryphonectriaceae: Biodiverse and Threatening Tree Pathogens in the Tropics and Southern Hemisphere.","authors":"Michael J Wingfield, Nam Q Pham, Seonju Marincowitz, Brenda D Wingfield","doi":"10.1146/annurev-phyto-121823-030316","DOIUrl":"https://doi.org/10.1146/annurev-phyto-121823-030316","url":null,"abstract":"<p><p>The chestnut blight pathogen <i>Cryphonectria parasitica</i> is well-known for the devastation it caused to North American forests. It is less well recognized that numerous other fungi in the Cryphonectriaceae are emerging as threats to native and planted forests in the tropics and Southern Hemisphere. Unlike <i>C. parasitica</i>, these fungi, such as <i>Chrysoporthe cubensis</i>, initially gained attention due to a canker disease in plantations of non-native <i>Eucalyptus</i>. More than four decades of research have revealed a wide diversity of Cryphonectriaceae species that infect many other tree genera in the Myrtales. These fungi often exist as endophytes but become problematic when trees are planted outside their native range. Growing numbers of species are also undergoing host shifts from native to susceptible trees such as <i>Eucalyptus</i>, posing serious risks to both natural and planted forests. These fungi provide an example of the biodiversity of tree-infecting fungi that is understudied, despite their significant potential to harm forest ecosystems.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":""},"PeriodicalIF":9.1,"publicationDate":"2025-05-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144172143","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}
引用次数: 0
Genome Biology of Rust Fungi. 锈菌的基因组生物学。
IF 9.1 1区 农林科学
Annual review of phytopathology Pub Date : 2025-05-28 DOI: 10.1146/annurev-phyto-121823-085551
Eva C Henningsen, Camilla Langlands-Perry, Eric A Stone, Peter N Dodds, Melania Figueroa, Jana Sperschneider
{"title":"Genome Biology of Rust Fungi.","authors":"Eva C Henningsen, Camilla Langlands-Perry, Eric A Stone, Peter N Dodds, Melania Figueroa, Jana Sperschneider","doi":"10.1146/annurev-phyto-121823-085551","DOIUrl":"https://doi.org/10.1146/annurev-phyto-121823-085551","url":null,"abstract":"<p><p>Rust fungi (order Pucciniales) form the largest group of plant pathogens. Early studies addressed infection processes and heritability of virulence but were limited by the complexity of these organisms. We present six lessons highlighting major discoveries about rust genome biology. First, during their main infectious stage, rusts carry two haploid genomes that can be highly heterozygous, and each genome is packaged in its own nucleus. Remarkably, this allows for the exchange of whole nuclei. Second, haploid genome size is extremely variable, ranging from ∼75 Mb to 1 GB. Third, genome expansions are driven by repetitive elements, but genomes are not compartmentalized. Fourth, although chromosome number and biotrophy-related gene content are conserved across the order, effectors are highly divergent in sequence. Fifth, resolution of the mating-type locus highlights its role in genetic exchange in populations. Sixth, individual haplotypes can now be tracked to reveal nuclear exchange events, delivering unprecedented insights into rust epidemiology.</p>","PeriodicalId":8251,"journal":{"name":"Annual review of phytopathology","volume":" ","pages":""},"PeriodicalIF":9.1,"publicationDate":"2025-05-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144172155","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}
引用次数: 0
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