Phytopathology最新文献

Investigation of the effectiveness and molecular mechanisms of thiamin priming to control early blight disease in potato.

IF 2.6 2区农林科学

Phytopathology Pub Date : 2024-11-20 DOI: 10.1094/PHYTO-09-24-0277-R

Trenton W Berrian, Matthew L Fabian, Conner J Rogan, Jeffrey C Anderson, Christopher R Clarke, Aymeric J Goyer

{"title":"Investigation of the effectiveness and molecular mechanisms of thiamin priming to control early blight disease in potato.","authors":"Trenton W Berrian, Matthew L Fabian, Conner J Rogan, Jeffrey C Anderson, Christopher R Clarke, Aymeric J Goyer","doi":"10.1094/PHYTO-09-24-0277-R","DOIUrl":"https://doi.org/10.1094/PHYTO-09-24-0277-R","url":null,"abstract":"In several plant species, thiamin foliar application primes plant immunity and can be effective in controlling various diseases. However, the effectiveness of thiamin against potato pathogens has seldom been investigated. Additionally, the transcriptomics and metabolomics of immune priming by thiamin have not previously been investigated. Here, we tested the effect of thiamin application against Alternaria solani, the causal agent of early blight in potato, and identified associated changes in gene expression and metabolite content. Thiamin applied on foliage at an optimal concentration of 10 mM reduced lesion size by ~33%. However, prevention of lesion growth was temporally limited, as a reduction of lesion size occurred when leaves were inoculated 4 h, but not 24 h, following thiamin treatment. Additionally, the effect of thiamin on lesion size was restricted to the application site and was not systemic. RNA-seq analysis showed that thiamin affected the expression of 308 genes involved in the synthesis of salicylic acid, secondary metabolites, fatty acid, chitin, and primary metabolism, and photosynthesis, which were also amongst the thousands of genes differentially regulated in the response to pathogen alone. Several of these genes and pathways were more differentially expressed and enriched when thiamin and the pathogen were combined. Thiamin also delayed the downregulation of photosynthesis-associated genes in plants inoculated with A. solani. Metabolite analyses revealed that thiamin treatment in the absence of pathogen decreased the amounts of several organic compounds involved in the citric acid cycle. We hypothesize that thiamin primes plant defenses through perturbation of primary metabolism.","PeriodicalId":20410,"journal":{"name":"Phytopathology","volume":" ","pages":""},"PeriodicalIF":2.6,"publicationDate":"2024-11-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142682576","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Geostatistical modelling improves prediction of Macrophomina phaseolina abundance and distribution in soybean fields. 地质统计建模改进了对大豆田中相枕虫丰度和分布的预测。

IF 2.6 2区农林科学

Phytopathology Pub Date : 2024-11-19 DOI: 10.1094/PHYTO-04-24-0139-R

Sandip Mondal, Emile Gluck-Thaler, Cristhian J Grabowski Ocampos, Enrique Hahn Villalba, Terry L Niblack, Aida L Orrego Fuente, Lidia M Pedrozo, Timothy I Ralston, Laura C Soilan, Horacio D Lopez-Nicora

{"title":"Geostatistical modelling improves prediction of Macrophomina phaseolina abundance and distribution in soybean fields.","authors":"Sandip Mondal, Emile Gluck-Thaler, Cristhian J Grabowski Ocampos, Enrique Hahn Villalba, Terry L Niblack, Aida L Orrego Fuente, Lidia M Pedrozo, Timothy I Ralston, Laura C Soilan, Horacio D Lopez-Nicora","doi":"10.1094/PHYTO-04-24-0139-R","DOIUrl":"10.1094/PHYTO-04-24-0139-R","url":null,"abstract":"Charcoal rot, caused by the soilborne fungus Macrophomina phaseolina (Mp) poses a serious threat to soybean health and harvests at a global scale. Mp exhibits varying distribution patterns across fields, which complicates our ability to predict disease occurrences and outbreaks. Therefore, determining the spatial distribution of Mp abundance and its relation with soil physicochemical properties would help to inform precision management decisions for mitigating charcoal rot. To achieve this, Mp colony forming units (CFU) and edaphic properties were evaluated in 297 soybean fields located in the main soybean growing regions across 7 Departments of Paraguay. A pattern of decreasing CFU density was observed from the south-eastern to the western part of the country. While several edaphic factors are positively correlated with Mp CFU, pH showed a significant negative correlation with CFU. Both spatial and non-spatial model suggest that cation exchange capacity, percentage of clay, and pH could be potential predictors of Mp CFU abundance. Including spatial dependence of edaphic factors improved the prediction of Mp CFU more effectively than classical statistical models. We demonstrated that the occurrence of Mp shows a significant spatial clustering pattern as indicated by Moran's I. Our findings will help growers and policy-makers make informed decisions for managing Mp by improving our ability to predict which agricultural fields and soils are at greatest risk for charcoal rot.","PeriodicalId":20410,"journal":{"name":"Phytopathology","volume":" ","pages":""},"PeriodicalIF":2.6,"publicationDate":"2024-11-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142668238","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Genetic Variability and Evolutionary Dynamics of Papaya Ringspot Virus and Papaya Leaf Distortion Mosaic Virus Infecting Feral Papaya in Hainan Island. 海南岛野生番木瓜感染木瓜环斑病毒和木瓜叶扭曲花叶病毒的遗传变异与进化动态。

IF 2.6 2区农林科学

Phytopathology Pub Date : 2024-11-19 DOI: 10.1094/PHYTO-01-24-0022-R

Mu-Zhi Yang, Zhi-Gang Hao, Zhen-Tao Ren, Rui Tang, Qing-Hua Wu, Li-Ying Zhou, Yu-Juan Hu, Jing-Yuan Guo, Yi Chen, Yun-Ling Guo, Biao Liu, Lai-Pan Liu, Kun Xue, Rui-Zong Jia

{"title":"Genetic Variability and Evolutionary Dynamics of Papaya Ringspot Virus and Papaya Leaf Distortion Mosaic Virus Infecting Feral Papaya in Hainan Island.","authors":"Mu-Zhi Yang, Zhi-Gang Hao, Zhen-Tao Ren, Rui Tang, Qing-Hua Wu, Li-Ying Zhou, Yu-Juan Hu, Jing-Yuan Guo, Yi Chen, Yun-Ling Guo, Biao Liu, Lai-Pan Liu, Kun Xue, Rui-Zong Jia","doi":"10.1094/PHYTO-01-24-0022-R","DOIUrl":"10.1094/PHYTO-01-24-0022-R","url":null,"abstract":"Commercialized genetically modified (GM) papaya cultivars have protected papaya from the devastating disease caused by papaya ringspot virus (PRSV). However, papaya leaf distortion mosaic virus (PLDMV), which causes similar infection symptoms but is serologically distinct from PRSV, was found to be a competitive threat to the papaya industry. Our study surveyed the occurrence of PRSV and PLDMV, as well as the transgenic markers of the 35S promoter from cauliflower mosaic virus and the neomycin phosphotransferase II gene in feral papaya plants, which were found frequently growing outside of cultivated papaya fields on Hainan Island. In total, 123 feral papayas, comprising 62 (50.4%) GM plants and 61 (49.6%) non-GM ones, were sampled. Among them, 23 (18.7%) were positive for PRSV, 49 (39.8%) were positive for PLDMV (including five plants co-infected by PRSV and PLDMV), and 56 (45.5%) were free of either virus. In traditional papaya-growing regions, we detected fewer PRSV-infected plants (2 in 33, 6%) than in other regions (21 in 90, 23%). However, overall, whether plants were transgenic or not made no difference to PRSV incidence (P = 0.230), with 9 PRSV-infected plants among 62 GM papayas and 14 among 61 non-GM papayas. Phylogenetic and genetic differentiation analysis showed a clear correlation between PRSV and PLDMV populations and their geographic origins. Negative selection was estimated for the selected gene regions of both viruses. Notably, PLDMV has deviated from neutral evolution and experienced population expansion, exhibiting increased genetic diversity, and is becoming the predominant threat to papaya in Hainan.","PeriodicalId":20410,"journal":{"name":"Phytopathology","volume":" ","pages":"PHYTO01240022R"},"PeriodicalIF":2.6,"publicationDate":"2024-11-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142154791","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Reduction of Plasmodiophora brassicae infection on Brassica rapa through host-induced gene silencing of two secreted genes. 通过宿主诱导的两个分泌基因沉默，减少 Plasmodiophora brassicae 对 Brassica rapa 的感染。

IF 2.6 2区农林科学

Phytopathology Pub Date : 2024-11-19 DOI: 10.1094/PHYTO-09-23-0334-R

Hui Yang, Yihan Zhang, Yushan Zhao, Yinping Shu, Yushu Xu, Yi Liu, Junbo Du, Wenming Wang

{"title":"Reduction of Plasmodiophora brassicae infection on Brassica rapa through host-induced gene silencing of two secreted genes.","authors":"Hui Yang, Yihan Zhang, Yushan Zhao, Yinping Shu, Yushu Xu, Yi Liu, Junbo Du, Wenming Wang","doi":"10.1094/PHYTO-09-23-0334-R","DOIUrl":"10.1094/PHYTO-09-23-0334-R","url":null,"abstract":"Clubroot disease caused by the biotrophic pathogen Plasmodiophora brassicae, is one of the most serious threats to cruciferous crops production worldwide. P. brassicae is known for rapid adaptive evolution to overcome resistance in varieties. It is urgent to establish alternative management to control P. brassicae. In this study, we identified two P. brassicae secretory proteins that were up-regulated during infection and effected plant defense. We established a method for transient expression in the roots of seedlings and demonstrated that P. brassicae could take up substances from the environment of root cells. Using a RNA interference (RNAi)-based host-induced gene silencing (HIGS) by expression of hairpin RNAi constructs with sequence homology to P. brassicae effector Pb48 or Pb52 in susceptible Brassica rapa plants enhanced host disease resistance. After silencing these two effectors, the transcription levels of cytokinin biosynthesis gene IPT1 and the regulation gene of auxin homeostasis GH3.5 were down-regulated. These results suggested that RNAi-based HIGS of effectors has a great practical application of improving crop resistance against P. brassicae and can contribute to environmentally sustainable agriculture.","PeriodicalId":20410,"journal":{"name":"Phytopathology","volume":" ","pages":""},"PeriodicalIF":2.6,"publicationDate":"2024-11-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142668241","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Evaluation of genetic diversity and genome-wide association studies of resistance to bacterial wilt disease in potato. 马铃薯细菌性萎蔫病抗性的遗传多样性评估和全基因组关联研究。

IF 2.6 2区农林科学

Phytopathology Pub Date : 2024-11-05 DOI: 10.1094/PHYTO-06-24-0188-R

Lilian A Okiro, Richard M Mulwa, Maurice E Oyoo, Pascal P Okwiri Ojwang, Susan A Otieno, Paola Gaiero, Guilherme da Silva Pereira, Thiago Mendes

{"title":"Evaluation of genetic diversity and genome-wide association studies of resistance to bacterial wilt disease in potato.","authors":"Lilian A Okiro, Richard M Mulwa, Maurice E Oyoo, Pascal P Okwiri Ojwang, Susan A Otieno, Paola Gaiero, Guilherme da Silva Pereira, Thiago Mendes","doi":"10.1094/PHYTO-06-24-0188-R","DOIUrl":"https://doi.org/10.1094/PHYTO-06-24-0188-R","url":null,"abstract":"The development of novel improved varieties adapted to unstable environmental conditions is possible through the genetic diversity of breeding materials. Potato is among the most important food crops worldwide, however, there are still significant hindrances to breeding gains attributed to its autotetraploid and highly heterozygous genome. Bacterial wilt caused by the Ralstonia solanacearum species complex (RSSC) is an important disease affecting potato among many economically important crops worldwide. No cultivated potato genotypes have shown a satisfactory level of resistance to bacterial wilt. Nevertheless, resistance can play a crucial role in effective integrated disease management. To understand the genetic landscape of bacterial wilt resistance in cultivated potato, we evaluated the diversity of 194 accessions from the International Potato Centre (CIP) using 9,250 single nucleotide polymorphisms (SNPs) and their associations to the response to bacterial wilt disease evaluated over two independent trials. Twenty-four accessions showed high resistance throughout both trials. Genetic diversity analysis revealed three major clusters whose subgroups were mostly represented by CIP clones derived from common parents. Genome-wide association analyses have shown six major hits: two on chromosome 8, and one on each chromosome 2, 4, 5, and 9. These results facilitate genetic dissection of bacterial wilt resistance and marker-enabled breeding in elite genotypes for potato breeding initiatives.","PeriodicalId":20410,"journal":{"name":"Phytopathology","volume":" ","pages":""},"PeriodicalIF":2.6,"publicationDate":"2024-11-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142584057","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Trehalose biosynthetic genes are involved in the development and pathogenesis in the poplar canker fungus Cytospora chrysosperma. 赤藓糖生物合成基因参与了杨树腐烂病真菌赤藓菌的发育和致病过程。

IF 2.6 2区农林科学

Phytopathology Pub Date : 2024-11-05 DOI: 10.1094/PHYTO-05-24-0160-R

Siying Xu, Quansheng Li, Haojie Jin, Aining Li, Yonglin Wang

引用次数: 0

TOMMicroNet: Convolutional Neural Networks for Smartphone-Based Microscopic Detection of Tomato Biotic and Abiotic Plant Health Issues. TOMMicroNet：基于智能手机的卷积神经网络，用于番茄生物和非生物植物健康问题的显微检测。

IF 2.6 2区农林科学

Phytopathology Pub Date : 2024-10-30 DOI: 10.1094/PHYTO-04-23-0123-R

Sruthi Sentil, Manoj Choudhary, Mubin Tirsaiwala, Sandeep Rvs, Vignesh Mahalingam Suresh, Chacko Jacob, Mathews Paret

{"title":"TOMMicroNet: Convolutional Neural Networks for Smartphone-Based Microscopic Detection of Tomato Biotic and Abiotic Plant Health Issues.","authors":"Sruthi Sentil, Manoj Choudhary, Mubin Tirsaiwala, Sandeep Rvs, Vignesh Mahalingam Suresh, Chacko Jacob, Mathews Paret","doi":"10.1094/PHYTO-04-23-0123-R","DOIUrl":"10.1094/PHYTO-04-23-0123-R","url":null,"abstract":"The image-based detection and classification of plant diseases has become increasingly important to the development of precision agriculture. We consider the case of tomato, a high-value crop supporting the livelihoods of many farmers around the world. Many biotic and abiotic plant health issues impede the efficient production of this crop, and laboratory-based diagnostics are inaccessible in many remote regions. Early detection of these plant health issues is essential for efficient and accurate response, prompting exploration of alternatives for field detection. Considering the availability of low-cost smartphones, artificial intelligence-based classification facilitated by mobile phone imagery can be a practical option. This study introduces a smartphone-attachable 30× microscopic lens, used to produce the novel tomato microimaging data set of 8,500 images representing 34 tomato plant conditions on the upper and lower sides of leaves as well as on the surface of tomato fruits. We introduce TOMMicroNet, a 14-layer convolutional neural network (CNN) trained to classify biotic and abiotic plant health issues, and we compare it against six existing pretrained CNN models. We compared two separate pipelines of grouping data for training TOMMicroNet, either presenting all data at once or separating the data into subsets based on the three parts of the plant. Comparing configurations based on cross-validation and F1 scores, we determined that TOMMicroNet attained the highest performance when trained on the complete data set, with 95% classification accuracy on both training and external data sets. Given TOMMicroNet's capabilities when presented with unfamiliar data, this approach has potential for the identification of plant health issues.","PeriodicalId":20410,"journal":{"name":"Phytopathology","volume":" ","pages":"PHYTO04230123R"},"PeriodicalIF":2.6,"publicationDate":"2024-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140013228","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Canker and dieback of Alnus rubra is caused by Lonsdalea quercina. 红叶石楠的腐烂和枯死是由 Lonsdalea quercina 引起的。

IF 2.6 2区农林科学

Phytopathology Pub Date : 2024-10-29 DOI: 10.1094/PHYTO-06-24-0192-SC

Fernanda Iruegas-Bocardo, Wendy Sutton, Riley A Buchanan, Niklaus J Grünwald, Jeff H Chang, Melodie L Putnam

{"title":"Canker and dieback of Alnus rubra is caused by Lonsdalea quercina.","authors":"Fernanda Iruegas-Bocardo, Wendy Sutton, Riley A Buchanan, Niklaus J Grünwald, Jeff H Chang, Melodie L Putnam","doi":"10.1094/PHYTO-06-24-0192-SC","DOIUrl":"10.1094/PHYTO-06-24-0192-SC","url":null,"abstract":"Understanding the ecology of pathogens is important for disease management. Recently a devastating canker disease was found on red alder (Alnus rubra) planted as landscape trees. Bacteria were isolated from two groups of symptomatic trees located approximately 1 kilometer apart and one strain from each group was used to complete Koch's postulates. Results showed that these bacteria can not only cause disease on red alder but also on two other alder species. Unexpectedly, analyses of genome sequences of bacterial strains identified them as Lonsdalea quercina, a pathogenic species previously known to cause dieback of oak species, but not alder. Additionally, a core genome phylogeny clustered bacterial strains isolated from red alder within a subclade of L. quercina strains isolated from symptomatic oak trees. Consistent with the close phylogenetic relationship, there was no obvious evidence for divergence in genome composition of strains isolated from red alder and oak. Altogether, findings indicate that L. quercina is a potential threat to Alnus species.","PeriodicalId":20410,"journal":{"name":"Phytopathology","volume":" ","pages":""},"PeriodicalIF":2.6,"publicationDate":"2024-10-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142522710","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Multi-component resistance responses of melon to zucchini yellow mosaic virus. 甜瓜对西葫芦黄镶嵌病毒的多成分抗性反应。

IF 2.6 2区农林科学

Phytopathology Pub Date : 2024-10-29 DOI: 10.1094/PHYTO-05-24-0166-R

Líllian B J Bibiano, Camila P Carvalho, Ricardo Gioria, Jorge A M Rezende, Luis E A Camargo

{"title":"Multi-component resistance responses of melon to zucchini yellow mosaic virus.","authors":"Líllian B J Bibiano, Camila P Carvalho, Ricardo Gioria, Jorge A M Rezende, Luis E A Camargo","doi":"10.1094/PHYTO-05-24-0166-R","DOIUrl":"https://doi.org/10.1094/PHYTO-05-24-0166-R","url":null,"abstract":"A major resistance gene of the melon accession PI414723 to zucchini yellow mosaic virus (ZYMV) is located at the Zym-1 locus on chromosome 2, but the underlying defense mechanisms are poorly understood. The physiological responses and expression of selected genes at Zym-1 were assessed in PI414723 and in the susceptible genotype Védrantais. Viral titers and the expression of genes related to systemic acquired resistance (SAR) were evaluated in inoculated (Inoc) and non-inoculated (Non-Inoc) portions of the cotyledons at 3, 7 and 10 days after inoculation (dai) and in apical leaves at 10 dai. ZYMV was detected in both portions of the cotyledons but not in the apical leaves of PI414723 plants. Also, ZYMV was recovered in a susceptible zucchini only from Inoc portions at 3 dai. By contrast, in Védrantais ZYMV was detected and recovered from all tissues at high concentrations. Starchy local lesions and accumulation of transcripts of the SAR marker genes PR1 and PR4 were also detected in the resistant genotype. Plus, transcripts of one candidate resistance gene analog previously located at Zym-1 and of two melon homologs of restricted tobacco etch virus movement 2 (RTM2) genes located close to Zym-1, accumulated only in PI414723. It is proposed that resistance results from the combined action of the R gene, involved in restricting ZYMV replication after a supposed recognition event and of the RTM genes which impact viral systemic movement to distal apical tissues.","PeriodicalId":20410,"journal":{"name":"Phytopathology","volume":" ","pages":""},"PeriodicalIF":2.6,"publicationDate":"2024-10-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142522711","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

A systematic approach for identifying unique genomic sequences for Fusarium oxysporum f. sp. lactucae race 1 and development of molecular diagnostic tools. 确定 Fusarium oxysporum f. sp. lactucae race 1 的独特基因组序列和开发分子诊断工具的系统方法。

IF 2.6 2区农林科学

Phytopathology Pub Date : 2024-10-24 DOI: 10.1094/PHYTO-04-24-0142-R

Ningxiao Li, David M Geiser, Jacob L Steenwyk, Cayla Tsuchida, Steve Koike, Stephanie Slinski, Frank N Martin

{"title":"A systematic approach for identifying unique genomic sequences for Fusarium oxysporum f. sp. lactucae race 1 and development of molecular diagnostic tools.","authors":"Ningxiao Li, David M Geiser, Jacob L Steenwyk, Cayla Tsuchida, Steve Koike, Stephanie Slinski, Frank N Martin","doi":"10.1094/PHYTO-04-24-0142-R","DOIUrl":"https://doi.org/10.1094/PHYTO-04-24-0142-R","url":null,"abstract":"Fusarium oxysporum f. sp. lactucae (FOLac) is a soil- and seedborne fungal pathogen that causes Fusarium wilt of lettuce, an important disease threatening global lettuce production. Based on pathogenicity on differential lettuce cultivars, four races (1-4) have been identified, with race 1 the only race detected in the United States, and the closely related, emerging race 4 known only in Europe. The development of race-specific diagnostic tools is hindered by insufficient genomic data to distinguish between the two races and FOLac from other F. oxysporum formae speciales and nonpathogenic isolates. Here, we describe a systematic approach for developing diagnostic markers for FOLac race 1 that utilized a comprehensive sequence database of F. oxysporum to identify 15 unique genomic sequences. Marker specificity was validated through an exhaustive screening process against genomic data from 797 F. oxysporum isolates representing 64 formae speciales and various plants and non-plant substrates. One of the unique sequences was used to develop a TaqMan quantitative polymerase chain reaction assay and a recombinase polymerase amplification assay, both exhibiting 100% sensitivity and specificity when tested against purified DNA from 171 F. oxysporum isolates and 69 lettuce samples. The relationship between qPCR Ct values and colony forming units (CFU)/g values was also determined. This study not only introduces a new marker for FOLac race 1 diagnostics and soil quantitation, but also underscores the value of an extensive genomic database and screening software pipeline for developing molecular diagnostics for F. oxysporum formae speciales and other fungal taxa.","PeriodicalId":20410,"journal":{"name":"Phytopathology","volume":" ","pages":""},"PeriodicalIF":2.6,"publicationDate":"2024-10-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142506494","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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