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Abstract
Minor tropical fruits are grown on a small scale and provide income to smallholder farmers. The cultivation of these fruit crops indirectly contributes to the economy of producing countries as well as to food and crop security. Dragon fruits, guava, passionfruit, lychee, longan, mangosteen, durian, and rambutan are common minor fruit crops. In recent years, the international trade of some of these minor tropical fruits, particularly dragon fruit, passionfruit, guava, and lychee, has increased due to their nutritional value, with various health benefits. Similar to other crops, minor fruit crops are susceptible to fungal and oomycete diseases. These diseases negatively affect the yield and quality of fruit crops, leading to substantial losses. In this context, the knowledge of disease types and causal pathogens is fundamental to develop suitable disease management practices in the field as well as appropriate post-harvest treatments.
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Vázquez-Rosas-Landa M, Sánchez-Rangel D, Hernández-Domínguez EE, Pérez-Torres CA, López-Buenfil A, de Jesús García-Ávila C, Carrillo-Hernández ED, Castañeda-Casasola CC, Rodríguez-Haas B, Pérez-Lira J, Villafán E, Alonso-Sánchez A, Ibarra-Laclette E. Design of a diagnostic system based on molecular markers derived from the ascomycetes pan-genome analysis: The case of Fusarium dieback disease. PLoS One 2021; 16:e0246079. [PMID: 33507916 PMCID: PMC7843019 DOI: 10.1371/journal.pone.0246079] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2020] [Accepted: 01/12/2021] [Indexed: 11/21/2022] Open
Abstract
A key factor to take actions against phytosanitary problems is the accurate and rapid detection of the causal agent. Here, we develop a molecular diagnostics system based on comparative genomics to easily identify fusariosis and specific pathogenic species as the Fusarium kuroshium, the symbiont of the ambrosia beetle Euwallaceae kuroshio Gomez and Hulcr which is responsible for Fusarium dieback disease in San Diego CA, USA. We performed a pan-genome analysis using sixty-three ascomycetes fungi species including phytopathogens and fungi associated with the ambrosia beetles. Pan-genome analysis revealed that 2,631 orthologue genes are only shared by Fusarium spp., and on average 3,941 (SD ± 1,418.6) are species-specific genes. These genes were used for PCR primer design and tested on DNA isolated from i) different strains of ascomycete species, ii) artificially infected avocado stems and iii) plant tissue of field-collected samples presumably infected. Our results let us propose a useful set of primers to either identify any species from Fusarium genus or, in a specific manner, species such as F. kuroshium, F. oxysporum, and F. graminearum. The results suggest that the molecular strategy employed in this study can be expanded to design primers against different types of pathogens responsible for provoking critical plant diseases.
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Affiliation(s)
- Mirna Vázquez-Rosas-Landa
- Red de Estudios Moleculares Avanzados (REMAv), Instituto de Ecología A.C. (INECOL), Xalapa, Veracruz, México
| | - Diana Sánchez-Rangel
- Red de Estudios Moleculares Avanzados (REMAv), Instituto de Ecología A.C. (INECOL), Xalapa, Veracruz, México
- Catedrático CONACYT en el INECOL, Xalapa, Veracruz, México
| | - Eric E. Hernández-Domínguez
- Red de Estudios Moleculares Avanzados (REMAv), Instituto de Ecología A.C. (INECOL), Xalapa, Veracruz, México
- Catedrático CONACYT en el INECOL, Xalapa, Veracruz, México
| | - Claudia-Anahí Pérez-Torres
- Red de Estudios Moleculares Avanzados (REMAv), Instituto de Ecología A.C. (INECOL), Xalapa, Veracruz, México
- Catedrático CONACYT en el INECOL, Xalapa, Veracruz, México
| | | | - Clemente de Jesús García-Ávila
- Servicio Nacional de Sanidad, Inocuidad y Calidad Agroalimentaria (SENASICA), Centro Nacional de Referencia Fitosanitaria (CNRF), Tecámac, Estado de México, México
| | | | - Cynthia-Coccet Castañeda-Casasola
- Servicio Nacional de Sanidad, Inocuidad y Calidad Agroalimentaria (SENASICA), Centro Nacional de Referencia Fitosanitaria (CNRF), Tecámac, Estado de México, México
| | - Benjamín Rodríguez-Haas
- Red de Estudios Moleculares Avanzados (REMAv), Instituto de Ecología A.C. (INECOL), Xalapa, Veracruz, México
| | - Josué Pérez-Lira
- Red de Estudios Moleculares Avanzados (REMAv), Instituto de Ecología A.C. (INECOL), Xalapa, Veracruz, México
| | - Emanuel Villafán
- Red de Estudios Moleculares Avanzados (REMAv), Instituto de Ecología A.C. (INECOL), Xalapa, Veracruz, México
| | - Alexandro Alonso-Sánchez
- Red de Estudios Moleculares Avanzados (REMAv), Instituto de Ecología A.C. (INECOL), Xalapa, Veracruz, México
| | - Enrique Ibarra-Laclette
- Red de Estudios Moleculares Avanzados (REMAv), Instituto de Ecología A.C. (INECOL), Xalapa, Veracruz, México
- * E-mail:
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Liu JX, Cai YN, Jiang WY, Li YG, Zhang QF, Pan HY. Population Structure and Genetic Diversity of Fungi Causing Rice Seedling Blight in Northeast China Based on Microsatellite Markers. PLANT DISEASE 2020; 104:868-874. [PMID: 31935343 DOI: 10.1094/pdis-08-19-1620-re] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Rice seedling blight, which is caused by diverse pathogenic microorganisms, occurs worldwide and is the most important seedling disease affecting rice production in Northeast China. To further characterize the population structure and genetic diversity of the fungi responsible for rice seedling blight in Northeast China, 225 fungal strains were isolated from diseased rice seedlings collected from various rice-producing areas. The isolated strains included Fusarium oxysporum (48.0%), F. verticillioides (11.6%), F. tricinctum (8.0%), F. redolens (6.7%), F. equiseti (6.2%), F. solani (6.2%), Rhizoctonia solani (6.7%), Alternaria alternata (4.0%), and Curvularia coatesiae (2.7%). F. oxysporum was the dominant fungal species causing rice seedling blight, with most isolates exhibiting moderate pathogenicity. Moreover, to our knowledge, this is the first study to identify A. alternata and C. coatesiae as causal agents of rice seedling blight in Northeast China. None of the F. oxysporum isolates were sensitive to 10 μg/ml of carbendazim, implying that carbendazim is ineffective for controlling rice seedling blight in Northeast China. The F. oxysporum isolates were divided into nine groups based on a simple sequence repeat analysis involving 14 primer pairs. In addition, an analysis of molecular variance revealed a significant correlation between the F. oxysporum population and geographical location, which had a significant effect on the differentiation of the dominant isolate population. The results of this study provide insights into the genetic diversity of F. oxysporum strains causing rice seedling blight and may be useful for selecting isolates to screen for disease-resistant rice varieties, evaluating fungicide efficacy, and developing effective disease management strategies.
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Affiliation(s)
- J X Liu
- Agricultural College, Northeast Agricultural University, Harbin 150030, People's Republic of China
| | - Y N Cai
- Agricultural College, Northeast Agricultural University, Harbin 150030, People's Republic of China
| | - W Y Jiang
- Agricultural College, Northeast Agricultural University, Harbin 150030, People's Republic of China
| | - Y G Li
- Agricultural College, Northeast Agricultural University, Harbin 150030, People's Republic of China
| | - Q F Zhang
- Heilongjiang Plant Quarantine and Plant Protection Station, Harbin 150036, People's Republic of China
| | - H Y Pan
- College of Plant Sciences, Jilin University, Changchun 150000, People's Republic of China
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Lombard L, Sandoval-Denis M, Lamprecht S, Crous P. Epitypification of Fusarium oxysporum - clearing the taxonomic chaos. PERSOONIA 2018; 43:1-47. [PMID: 32214496 PMCID: PMC7085860 DOI: 10.3767/persoonia.2019.43.01] [Citation(s) in RCA: 83] [Impact Index Per Article: 13.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/20/2018] [Accepted: 10/19/2018] [Indexed: 01/06/2023]
Abstract
Fusarium oxysporum is the most economically important and commonly encountered species of Fusarium. This soil-borne fungus is known to harbour both pathogenic (plant, animal and human) and non-pathogenic strains. However, in its current concept F. oxysporum is a species complex consisting of numerous cryptic species. Identification and naming these cryptic species is complicated by multiple subspecific classification systems and the lack of living ex-type material to serve as basic reference point for phylogenetic inference. Therefore, to advance and stabilise the taxonomic position of F. oxysporum as a species and allow naming of the multiple cryptic species recognised in this species complex, an epitype is designated for F. oxysporum. Using multi-locus phylogenetic inference and subtle morphological differences with the newly established epitype of F. oxysporum as reference point, 15 cryptic taxa are resolved in this study and described as species.
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Affiliation(s)
- L. Lombard
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
| | - M. Sandoval-Denis
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
- Faculty of Natural and Agricultural Sciences, Department of Plant Sciences, University of the Free State, P.O. Box 339, Bloemfontein 9300, South Africa
| | - S.C. Lamprecht
- ARC-Plant Health and Protection, Private Bag X5017, Stellenbosch, 7599, Western Cape, South Africa
| | - P.W. Crous
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
- Faculty of Natural and Agricultural Sciences, Department of Plant Sciences, University of the Free State, P.O. Box 339, Bloemfontein 9300, South Africa
- Wageningen University and Research Centre (WUR), Laboratory of Phytopathology, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands
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Guo Q, Li S, Lu X, Gao H, Wang X, Ma Y, Zhang X, Wang P, Ma P. Identification of a New Genotype of Fusarium oxysporum f. sp. vasinfectum on Cotton in China. PLANT DISEASE 2015; 99:1569-1577. [PMID: 30695955 DOI: 10.1094/pdis-12-14-1238-re] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Genetic composition of Fusarium oxysporum f. sp. vasinfectum strains, including race 3, 7, and 8, Australian genotype strain, and 80 strains collected from China, were studied using amplified fragment length polymorphism (AFLP). Based on AFLP analysis, these strains were separated into four groups. Race 3, strain CN3, was the only strain in group A. Race 8, strain CN8, was the only strain in group B. Race 7, strain CN7, was grouped with 75 strains from China in group C. The Australian genotype strain ATCC96291 was grouped with five strains from China in group D. Evolution of the five native strains in group D was studied using multigene genealogies. Phylogenetic tree analysis revealed that the five strains of group D had a closer genetic relationship to the Australian genotype strain than the other races based on the combined elongation factor, β-tubulin, and phosphate permase gene sequence data. Group D was further tested for pathogenicity and virulence on four cotton cultivars from Upland (Gossypium hirsutum) and Sea Island (G. barbadense) cotton. All five strains caused typical Fusarium wilt symptoms on all four cotton cultivars but virulence were relatively low compared with race 3, race 7, and race 8.
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Affiliation(s)
- Qinggang Guo
- Institute of Plant Protection, Hebei Academy of Agricultural and Forestry Sciences; Integrated Pest Management Center of Hebei Province; Key Laboratory of IPM on Crops in Northern Region of North China, Ministry of Agriculture, Baoding, 071000, China
| | - Shezeng Li
- Institute of Plant Protection, Hebei Academy of Agricultural and Forestry Sciences; Integrated Pest Management Center of Hebei Province; Key Laboratory of IPM on Crops in Northern Region of North China, Ministry of Agriculture, Baoding, 071000, China
| | - Xiuyun Lu
- Institute of Plant Protection, Hebei Academy of Agricultural and Forestry Sciences; Integrated Pest Management Center of Hebei Province; Key Laboratory of IPM on Crops in Northern Region of North China, Ministry of Agriculture, Baoding, 071000, China
| | - Hui Gao
- Institute of Plant Protection, Hebei Academy of Agricultural and Forestry Sciences; Integrated Pest Management Center of Hebei Province; Key Laboratory of IPM on Crops in Northern Region of North China, Ministry of Agriculture, Baoding, 071000, China
| | - Xiaoguang Wang
- Institute of Plant Protection, Hebei Academy of Agricultural and Forestry Sciences; Integrated Pest Management Center of Hebei Province; Key Laboratory of IPM on Crops in Northern Region of North China, Ministry of Agriculture, Baoding, 071000, China
| | - Yinan Ma
- School of Molecular and Biomedical Science, University of Adelaide, Adelaide 5005, SA, Australia
| | - Xiaoyun Zhang
- Institute of Plant Protection, Hebei Academy of Agricultural and Forestry Sciences; Integrated Pest Management Center of Hebei Province; Key Laboratory of IPM on Crops in Northern Region of North China, Ministry of Agriculture, Baoding, China
| | - Peipei Wang
- Institute of Plant Protection, Hebei Academy of Agricultural and Forestry Sciences; Integrated Pest Management Center of Hebei Province; Key Laboratory of IPM on Crops in Northern Region of North China, Ministry of Agriculture, Baoding, China
| | - Ping Ma
- Institute of Plant Protection, Hebei Academy of Agricultural and Forestry Sciences; Integrated Pest Management Center of Hebei Province; Key Laboratory of IPM on Crops in Northern Region of North China, Ministry of Agriculture, Baoding, China
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Mishra RK, Pandey BK, Pathak N, Zeeshan M. BOX-PCR- and ERIC-PCR-based genotyping and phylogenetic correlation among Fusarium oxysporum isolates associated with wilt disease in Psidium guajava L. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2015. [DOI: 10.1016/j.bcab.2014.09.012] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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