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Arata AF, Martínez M, Pesquero NV, Cristos D, Dinolfo MI. Contamination of Fusarium spp. and mycotoxins at different ear physiological stages of maize in Argentina. Int J Food Microbiol 2024; 410:110493. [PMID: 37988795 DOI: 10.1016/j.ijfoodmicro.2023.110493] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2023] [Revised: 11/08/2023] [Accepted: 11/13/2023] [Indexed: 11/23/2023]
Abstract
Maize is one of the most important crops worldwide, being affected by several fungal species under field conditions. The study of plant-pathogen interaction plays a key role because fungal diseases are responsible for reducing grain yield and quality by increasing mycotoxin production. Thus, the present work aimed to evaluate the interaction of F. graminearum and F. verticillioides and mycotoxin production under field conditions along different physiological stages. During the 2019/2020 and 2020/2021 growing seasons, twelve maize genotypes were inoculated at the flowering stage (silking). Four treatments were applied using one isolate of each species: (i) F. graminearum; (ii) F. verticillioides; (iii) a combined inoculum (F. graminearum + F. verticillioides); (iv) and control treatment. Fungal diversity, disease evaluation, and mycotoxin contamination were evaluated at three different physiological stages: T1 (from R2 to R4), T2 (from R4 to R6), and T3 (at harvest time). A total of 15,907 Fusarium isolates were obtained. The results showed a predominance of F. verticillioides over F. graminearum in both years evaluated, reporting an increase in the occurrence of this species at late stages. Regarding mycotoxin contamination, no evidence was found supporting antagonism or synergism regarding isolates of both species used as inoculum under field conditions. The results reported in the present manuscript point out a major influence of climatic conditions on F. verticillioides predominance over F. graminearum, mainly during the late physiological stages. Furthermore, no clear relationship between mycotoxin concentration and physiological stages was established, suggesting that other grain factors, such as water activity and pH, could modulate mycotoxin production and accumulation under field conditions.
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Affiliation(s)
- Agustín F Arata
- Laboratorio de Biología Funcional y Biotecnología (BIOLAB)-CICBA-INBIOTEC-CONICET, Facultad de Agronomía, UNCPBA, Av. República de Italia 780, Azul 7300, Buenos Aires, Argentina; Centro de Investigaciones Integradas sobre Sistemas Agronómicos Sustentables (CIISAS), Facultad de Agronomía, UNCPBA, Av. República de Italia 780, Azul 7300, Buenos Aires, Argentina
| | - Mauro Martínez
- Laboratorio de Biología Funcional y Biotecnología (BIOLAB)-CICBA-INBIOTEC-CONICET, Facultad de Agronomía, UNCPBA, Av. República de Italia 780, Azul 7300, Buenos Aires, Argentina; Área de Mejoramiento Genético Vegetal, Facultad de Agronomía, UNCPBA, Av. República de Italia 780, Azul 7300, Buenos Aires, Argentina
| | - Natalia V Pesquero
- Área de Protección de Alimentos Instituto Tecnología de Alimentos Centro de Investigación de Agroindustria (CIA-INTA), Nicolas Repetto y de los Reseros s/n, 1686 Hurlingham, Buenos Aires, Argentina
| | - Diego Cristos
- Área de Protección de Alimentos Instituto Tecnología de Alimentos Centro de Investigación de Agroindustria (CIA-INTA), Nicolas Repetto y de los Reseros s/n, 1686 Hurlingham, Buenos Aires, Argentina
| | - María I Dinolfo
- Laboratorio de Biología Funcional y Biotecnología (BIOLAB)-CICBA-INBIOTEC-CONICET, Facultad de Agronomía, UNCPBA, Av. República de Italia 780, Azul 7300, Buenos Aires, Argentina.
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da Silva LAGA, Piacentini KC, Caramês ETDS, Silva NCC, Wawroszová S, Běláková S, Rocha LDO. Quantitative PCR (qPCR) for estimating the presence of Fusarium and its mycotoxins in barley grains. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2023; 40:1369-1387. [PMID: 37640447 DOI: 10.1080/19440049.2023.2250474] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2023] [Revised: 08/14/2023] [Accepted: 08/15/2023] [Indexed: 08/31/2023]
Abstract
Members within the Fusarium sambucinum species complex (FSAMSC) are able to produce mycotoxins, such as deoxynivalenol (DON), nivalenol (NIV), zearalenone (ZEN) and enniatins (ENNs) in food products. Consequently, alternative methods for assessing the levels of these mycotoxins are relevant for quick decision-making. In this context, qPCR based on key mycotoxin biosynthetic genes could aid in determining the toxigenic fungal biomass, and could therefore infer mycotoxin content. The aim of this study was to verify the use of qPCR as a technique for estimating DON, NIV, ENNs and ZEN, as well as Fusarium graminearum sensu lato (s.l.) and F. poae in barley grains. For this purpose, 53 barley samples were selected for mycobiota, mycotoxin and qPCR analyses. ENNs were the most frequent mycotoxins, followed by DON, ZEN and NIV. 83% of the samples were contaminated by F. graminearum s.l. and 51% by F. poae. Pearson correlation analysis showed significant correlations for TRI12/15-ADON with DON, ESYN1 with ENNs, TRI12/15-ADON and ZEB1 with F. graminearum s.l., as well as ESYN1 and TRI12/NIV with F. poae. Based on the results, qPCR could be useful for the assessment of Fusarium presence, and therefore, provide an estimation of its mycotoxins' levels from the same sample.
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Affiliation(s)
| | - Karim Cristina Piacentini
- Department of Food Science and Nutrition (DECAN), State University of Campinas (UNICAMP), Campinas, Brazil
| | | | | | - Simona Wawroszová
- Regional Department Brno, Central Institute for Supervising and Testing in Agriculture, National Reference Laboratory, Brno, Czech Republic
| | - Sylvie Běláková
- Malting Institute Brno, Research Institute of Brewing and Malting, Brno, Czech Republic
| | - Liliana de Oliveira Rocha
- Department of Food Science and Nutrition (DECAN), State University of Campinas (UNICAMP), Campinas, Brazil
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Matar N, Macadré C, Ammar GAG, Peres A, Collet B, Boustany NE, Rajjou L, As-Sadi F, Dufresne M, Ratet P. Identification of beneficial Lebanese Trichoderma spp. wheat endophytes. FRONTIERS IN PLANT SCIENCE 2022; 13:1017890. [PMID: 36531385 PMCID: PMC9755858 DOI: 10.3389/fpls.2022.1017890] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/12/2022] [Accepted: 11/08/2022] [Indexed: 06/17/2023]
Abstract
Wheat is one of the most important crops in the world. Its production can be influenced by a diversity of beneficial and pathogenic rhizospheric microbes, including fungi. Amongst them, beneficial Trichoderma spp. can be used as alternatives to chemical fertilizers, as they are cheap and harmless to the environment. Our study aimed to isolate, identify, and characterize Trichoderma spp. from Lebanon associated with wheat. Two Trichoderma strains belonging to T. afroharzianum, and T. guizhouense species, were isolated and found to be endophytes, enhancing root growth and producing Indole-3-acetic acid. Inoculation also improved seedling development, and increased plant growth and yield. Furthermore, the two strains inhibit Fusarium growth in vitro. These Trichoderma spp. have thus the capacity to be used as organic fertilizers for wheat.
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Affiliation(s)
- Naeif Matar
- Université Paris-Saclay, CNRS, INRAE, Univ Evry, Institute of Plant Sciences Paris-Saclay (IPS2), Orsay, France
- Université de Paris, Institute of Plant Sciences Paris-Saclay (IPS2), Orsay, France
- Department of Life & Earth Sciences, Faculty of Sciences I, Laboratory of Microbiology, Lebanese University, Beirut, Lebanon
| | - Catherine Macadré
- Université Paris-Saclay, CNRS, INRAE, Univ Evry, Institute of Plant Sciences Paris-Saclay (IPS2), Orsay, France
- Université de Paris, Institute of Plant Sciences Paris-Saclay (IPS2), Orsay, France
| | - Gamal A. G. Ammar
- Université Paris-Saclay, CNRS, INRAE, Univ Evry, Institute of Plant Sciences Paris-Saclay (IPS2), Orsay, France
- Université de Paris, Institute of Plant Sciences Paris-Saclay (IPS2), Orsay, France
- Biotechnology Unit, Plant Production Department, Arid Lands Cultivation Research Institute, City of Scientific Research and Technological Applications, Alexandria, Egypt
| | - Alexis Peres
- Université Paris-Saclay, CNRS, INRAE, Univ Evry, Institute of Plant Sciences Paris-Saclay (IPS2), Orsay, France
- Université de Paris, Institute of Plant Sciences Paris-Saclay (IPS2), Orsay, France
| | - Boris Collet
- Université Paris-Saclay, INRAE, AgroParisTech, Institut Jean-Pierre Bourgin (IJPB), Versailles, France
| | - Naim El Boustany
- Department of Biology, Faculty of Sciences I, Lebanese University, Beirut, Lebanon
| | - Loïc Rajjou
- Université Paris-Saclay, INRAE, AgroParisTech, Institut Jean-Pierre Bourgin (IJPB), Versailles, France
| | - Falah As-Sadi
- Department of Life & Earth Sciences, Faculty of Sciences I, Laboratory of Microbiology, Lebanese University, Beirut, Lebanon
- The Lebanese University, Faculty of Agronomy, Beirut, Lebanon
| | - Marie Dufresne
- Université Paris-Saclay, CNRS, INRAE, Univ Evry, Institute of Plant Sciences Paris-Saclay (IPS2), Orsay, France
- Université de Paris, Institute of Plant Sciences Paris-Saclay (IPS2), Orsay, France
| | - Pascal Ratet
- Université Paris-Saclay, CNRS, INRAE, Univ Evry, Institute of Plant Sciences Paris-Saclay (IPS2), Orsay, France
- Université de Paris, Institute of Plant Sciences Paris-Saclay (IPS2), Orsay, France
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Ji J, Yu J, Ye Y, Sheng L, Fang J, Yang Y, Sun X. Biodegradation methods and product analysis of zearalenone and its future development trend: A review. Food Control 2022. [DOI: 10.1016/j.foodcont.2022.109469] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
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5
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Zhang H, Huang L, Huang W, Dong Y, Weng S, Zhao J, Ma H, Liu L. Detection of wheat Fusarium head blight using UAV-based spectral and image feature fusion. FRONTIERS IN PLANT SCIENCE 2022; 13:1004427. [PMID: 36212329 PMCID: PMC9535335 DOI: 10.3389/fpls.2022.1004427] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/27/2022] [Accepted: 08/29/2022] [Indexed: 06/16/2023]
Abstract
Infection caused by Fusarium head blight (FHB) has severely damaged the quality and yield of wheat in China and threatened the health of humans and livestock. Inaccurate disease detection increases the use cost of pesticide and pollutes farmland, highlighting the need for FHB detection in wheat fields. The combination of spectral and spatial information provided by image analysis facilitates the detection of infection-related damage in crops. In this study, an effective detection method for wheat FHB based on unmanned aerial vehicle (UAV) hyperspectral images was explored by fusing spectral features and image features. Spectral features mainly refer to band features, and image features mainly include texture and color features. Our aim was to explain all aspects of wheat infection through multi-class feature fusion and to find the best FHB detection method for field wheat combining current advanced algorithms. We first evaluated the quality of the two acquired UAV images and eliminated the excessively noisy bands in the images. Then, the spectral features, texture features, and color features in the images were extracted. The random forest (RF) algorithm was used to optimize features, and the importance value of the features determined whether the features were retained. Feature combinations included spectral features, spectral and texture features fusion, and the fusion of spectral, texture, and color features to combine support vector machine, RF, and back propagation neural network in constructing wheat FHB detection models. The results showed that the model based on the fusion of spectral, texture, and color features using the RF algorithm achieved the best performance, with a prediction accuracy of 85%. The method proposed in this study may provide an effective way of FHB detection in field wheat.
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Affiliation(s)
- Hansu Zhang
- National Engineering Research Center for Agro-Ecological Big Data Analysis and Application, Anhui University, Hefei, China
| | - Linsheng Huang
- National Engineering Research Center for Agro-Ecological Big Data Analysis and Application, Anhui University, Hefei, China
| | - Wenjiang Huang
- State Key Laboratory of Remote Sensing Science, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
- Key Laboratory for Earth Observation of Hainan Province, Sanya, China
| | - Yingying Dong
- State Key Laboratory of Remote Sensing Science, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Shizhuang Weng
- National Engineering Research Center for Agro-Ecological Big Data Analysis and Application, Anhui University, Hefei, China
| | - Jinling Zhao
- National Engineering Research Center for Agro-Ecological Big Data Analysis and Application, Anhui University, Hefei, China
| | - Huiqin Ma
- State Key Laboratory of Remote Sensing Science, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, China
| | - Linyi Liu
- State Key Laboratory of Remote Sensing Science, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, China
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Zhong X, Yang Y, Zhao J, Gong B, Li J, Wu X, Gao H, Lü G. Detection and Quantification of Fusarium oxysporum f. sp. niveum Race 1 in Plants and Soil by Real-time PCR. THE PLANT PATHOLOGY JOURNAL 2022; 38:229-238. [PMID: 35678056 PMCID: PMC9343908 DOI: 10.5423/ppj.oa.03.2022.0039] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/16/2022] [Revised: 04/28/2022] [Accepted: 04/28/2022] [Indexed: 06/15/2023]
Abstract
Fusarium wilt caused by Fusarium oxysporum f. sp. niveum (Fon) is the most serious soil-borne disease in the world and has become the main limiting factor of watermelon production. Reliable and quick detection and quantification of Fon are essential in the early stages of infection for control of watermelon Fusarium wilt. Traditional detection and identification tests are laborious and cannot efficiently quantify Fon isolates. In this work, a real-time polymerase chain reaction (PCR) assay has been described to accurately identify and quantify Fon in watermelon plants and soil. The FONRT-18 specific primer set which was designed based on identified specific sequence amplified a specific 172 bp band from Fon and no amplification from the other formae speciales of Fusarium oxysporum tested. The detection limits with primers were 1.26 pg/µl genomic DNA of Fon, 0.2 pg/ng total plant DNA in inoculated plant, and 50 conidia/g soil. The PCR assay could also evaluate the relationships between the disease index and Fon DNA quantity in watermelon plants and soil. The assay was further used to estimate the Fon content in soil after disinfection with CaCN2. The real-time PCR method is rapid, accurate and reliable for monitoring and quantification analysis of Fon in watermelon plants and soil. It can be applied to the study of disease diagnosis, plant-pathogen interactions, and effective management.
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Affiliation(s)
- Xin Zhong
- College of Horticulture, Hebei Agricultural University, Baoding 071001,
China
- Collaborative Innovation Center of Vegetable Industry in Hebei, Baoding 071001,
China
- Key Laboratory for Vegetable Germplasm Enhancement and Utilization of Hebei, Baoding 071001,
China
| | - Yang Yang
- College of Horticulture, Hebei Agricultural University, Baoding 071001,
China
- Collaborative Innovation Center of Vegetable Industry in Hebei, Baoding 071001,
China
- Key Laboratory for Vegetable Germplasm Enhancement and Utilization of Hebei, Baoding 071001,
China
| | - Jing Zhao
- College of Horticulture, Hebei Agricultural University, Baoding 071001,
China
- Collaborative Innovation Center of Vegetable Industry in Hebei, Baoding 071001,
China
- Key Laboratory for Vegetable Germplasm Enhancement and Utilization of Hebei, Baoding 071001,
China
| | - Binbin Gong
- College of Horticulture, Hebei Agricultural University, Baoding 071001,
China
- Collaborative Innovation Center of Vegetable Industry in Hebei, Baoding 071001,
China
- Key Laboratory for Vegetable Germplasm Enhancement and Utilization of Hebei, Baoding 071001,
China
| | - Jingrui Li
- College of Horticulture, Hebei Agricultural University, Baoding 071001,
China
- Collaborative Innovation Center of Vegetable Industry in Hebei, Baoding 071001,
China
- Key Laboratory for Vegetable Germplasm Enhancement and Utilization of Hebei, Baoding 071001,
China
| | - Xiaolei Wu
- College of Horticulture, Hebei Agricultural University, Baoding 071001,
China
- Collaborative Innovation Center of Vegetable Industry in Hebei, Baoding 071001,
China
- Key Laboratory for Vegetable Germplasm Enhancement and Utilization of Hebei, Baoding 071001,
China
| | - Hongbo Gao
- College of Horticulture, Hebei Agricultural University, Baoding 071001,
China
- Collaborative Innovation Center of Vegetable Industry in Hebei, Baoding 071001,
China
- Key Laboratory for Vegetable Germplasm Enhancement and Utilization of Hebei, Baoding 071001,
China
| | - Guiyun Lü
- College of Horticulture, Hebei Agricultural University, Baoding 071001,
China
- Collaborative Innovation Center of Vegetable Industry in Hebei, Baoding 071001,
China
- Key Laboratory for Vegetable Germplasm Enhancement and Utilization of Hebei, Baoding 071001,
China
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Brito VD, Achimón F, Zunino MP, Zygadlo JA, Pizzolitto RP. Fungal diversity and mycotoxins detected in maize stored in silo-bags: a review. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2022; 102:2640-2650. [PMID: 35076089 DOI: 10.1002/jsfa.11756] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2021] [Revised: 12/01/2021] [Accepted: 01/08/2021] [Indexed: 06/14/2023]
Abstract
Silo-bags are hermetic storage systems that inhibit fungal growth because of their atmosphere with low humidity, as well as low pH and O2 concentrations, and a high CO2 concentration. If a silo-bag with stored maize loses its hermetic nature, it favors the development of fungi and the production of mycotoxins. To the best of our knowledge, this is the first review on the diversity of fungal species and mycotoxins that were reported in maize stored under the environmental conditions provided by silo-bags. The genera Penicillium, Aspergillus and Fusarium were found more frequently, whereas Acremonium spp., Alternaria sp., Candida sp., Cladosporium sp., Debaryomyces spp., Epiconum sp., Eupenicillium spp., Eurotium sp., Eurotium amstelodami, Hyphopichia spp., Hyphopichia burtonii, Moniliella sp., Wallemia sp. and genera within the orden Mucorales were reported less recurrently. Despite finding a great fungal diversity, all of the studies focused their investigations on a small group of toxins: fumonisins (FBs), aflatoxins (AFs), deoxynivalenol (DON), zearalenone (ZEA), patulin (PAT), toxin T2 (T2) and ochratoxin (OT). Of the FBs, fumonisin B1 and fumonisin B2 presented higher incidence percentages, followed by fumonisin B3 . Of the AFs, the only one reported was aflatoxin B1. The mycotoxins DON, ZEA and OT were found with lower incidences, whereas PAT and T2 were not detected. Good management practices of the silo-bags are necessary to achieve a hermetically sealed environment, without exchange of gases and water with the external environment during the storage period. © 2022 Society of Chemical Industry.
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Affiliation(s)
- Vanessa D Brito
- Instituto Multidisciplinario de Biología Vegetal (IMBIV-CONICET), Universidad Nacional de Córdoba, Córdoba, Argentina
- Instituto de Ciencia y Tecnología de los Alimentos (ICTA), FCEFyN, Universidad Nacional de Córdoba, Córdoba, Argentina
| | - Fernanda Achimón
- Instituto Multidisciplinario de Biología Vegetal (IMBIV-CONICET), Universidad Nacional de Córdoba, Córdoba, Argentina
- Instituto de Ciencia y Tecnología de los Alimentos (ICTA), FCEFyN, Universidad Nacional de Córdoba, Córdoba, Argentina
| | - María P Zunino
- Instituto Multidisciplinario de Biología Vegetal (IMBIV-CONICET), Universidad Nacional de Córdoba, Córdoba, Argentina
- Instituto de Ciencia y Tecnología de los Alimentos (ICTA), FCEFyN, Universidad Nacional de Córdoba, Córdoba, Argentina
| | - Julio A Zygadlo
- Instituto Multidisciplinario de Biología Vegetal (IMBIV-CONICET), Universidad Nacional de Córdoba, Córdoba, Argentina
- Instituto de Ciencia y Tecnología de los Alimentos (ICTA), FCEFyN, Universidad Nacional de Córdoba, Córdoba, Argentina
| | - Romina P Pizzolitto
- Instituto Multidisciplinario de Biología Vegetal (IMBIV-CONICET), Universidad Nacional de Córdoba, Córdoba, Argentina
- Instituto de Ciencia y Tecnología de los Alimentos (ICTA), FCEFyN, Universidad Nacional de Córdoba, Córdoba, Argentina
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Buslyk TV, Rosalovsky VP, Salyha YT. PCR-Based Detection and Quantification of Mycotoxin-Producing Fungi. CYTOL GENET+ 2022. [DOI: 10.3103/s0095452722010042] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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9
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Fusarium species richness in mono- and dicotyledonous weeds and their ability to infect barley and wheat. Mycol Prog 2021. [DOI: 10.1007/s11557-021-01729-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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10
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Zhang D, Chen G, Zhang H, Jin N, Gu C, Weng S, Wang Q, Chen Y. Integration of spectroscopy and image for identifying fusarium damage in wheat kernels. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 236:118344. [PMID: 32330824 DOI: 10.1016/j.saa.2020.118344] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2019] [Revised: 03/26/2020] [Accepted: 04/05/2020] [Indexed: 05/20/2023]
Abstract
Hyperspectral imaging (HSI) was studied for the detection of varying degrees of damage in wheat kernels caused by Fusarium head blight (Gibberella zeae), a major disease in wheat worldwide. A total of 810 wheat kernel samples were collected from a field trial with the three levels of Fusarium infection, healthy, moderate, and severe. Hyperspectral image of the wheat kernels was acquired over a wavelength range of 400-1000 nm. The raw spectral data were pre-processed, and then the optimal wavelengths were selected using principal component analysis (PCA), successive projection algorithm (SPA) and random forest (RF). The image features were extracted based on the optimal wavelengths, and then the spectral features and image features were combined as fusion features. Support vector machine (SVM), random forest (RF) and naive Bayes (NB) were employed to build the classification models to identify the degrees of Fuasrium damage based on spectral and fusion features. The best performance was obtained by using the SPA-RF method to select the optimal wavelengths and corresponding image features, with a classification accuracy of 96.44%. The method developed from this study can provide a more effective way to identify the degrees of Fusarium damage in wheat kernels.
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Affiliation(s)
- Dongyan Zhang
- National Engineering Research Center for Agro-Ecological Big Data Analysis & Application, Anhui University, Hefei 230601, China
| | - Gao Chen
- National Engineering Research Center for Agro-Ecological Big Data Analysis & Application, Anhui University, Hefei 230601, China
| | - Huihui Zhang
- Water Management and Systems Research Unit, USDA Agricultural Research Service, Fort Collins, CO, 80526, USA
| | - Ning Jin
- National Engineering Research Center for Agro-Ecological Big Data Analysis & Application, Anhui University, Hefei 230601, China; Department of Resources and Environment, Shanxi Institute of Energy, Jinzhong 030600, China
| | - Chunyan Gu
- Institute of Plant Protection and Agro-products Safety, Anhui Academy of Agricultural Sciences, Hefei 230031, China
| | - Shizhuang Weng
- National Engineering Research Center for Agro-Ecological Big Data Analysis & Application, Anhui University, Hefei 230601, China
| | - Qian Wang
- National Engineering Research Center for Agro-Ecological Big Data Analysis & Application, Anhui University, Hefei 230601, China
| | - Yu Chen
- National Engineering Research Center for Agro-Ecological Big Data Analysis & Application, Anhui University, Hefei 230601, China; Institute of Plant Protection and Agro-products Safety, Anhui Academy of Agricultural Sciences, Hefei 230031, China.
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Shen Y, Nie J, Kuang L, Zhang J, Li H. DNA sequencing, genomes and genetic markers of microbes on fruits and vegetables. Microb Biotechnol 2020; 14:323-362. [PMID: 32207561 PMCID: PMC7936329 DOI: 10.1111/1751-7915.13560] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2020] [Revised: 03/01/2020] [Accepted: 03/02/2020] [Indexed: 12/20/2022] Open
Abstract
The development of DNA sequencing technology has provided an effective method for studying foodborne and phytopathogenic microorganisms on fruits and vegetables (F & V). DNA sequencing has successfully proceeded through three generations, including the tens of operating platforms. These advances have significantly promoted microbial whole‐genome sequencing (WGS) and DNA polymorphism research. Based on genomic and regional polymorphisms, genetic markers have been widely obtained. These molecular markers are used as targets for PCR or chip analyses to detect microbes at the genetic level. Furthermore, metagenomic analyses conducted by sequencing the hypervariable regions of ribosomal DNA (rDNA) have revealed comprehensive microbial communities in various studies on F & V. This review highlights the basic principles of three generations of DNA sequencing, and summarizes the WGS studies of and available DNA markers for major bacterial foodborne pathogens and phytopathogenic fungi found on F & V. In addition, rDNA sequencing‐based bacterial and fungal metagenomics are summarized under three topics. These findings deepen the understanding of DNA sequencing and its application in studies of foodborne and phytopathogenic microbes and shed light on strategies for the monitoring of F & V microbes and quality control.
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Affiliation(s)
- Youming Shen
- Institute of Pomology, Chinese Academy of Agricultural Sciences/Laboratory of Quality & Safety Risk Assessment for Fruit (Xingcheng), Ministry of Agriculture and Rural Affairs/Quality Inspection and Test Center for Fruit and Nursery Stocks (Xingcheng), Ministry of Agriculture and Rural Affairs, Xingcheng, 125100, China
| | - Jiyun Nie
- Institute of Pomology, Chinese Academy of Agricultural Sciences/Laboratory of Quality & Safety Risk Assessment for Fruit (Xingcheng), Ministry of Agriculture and Rural Affairs/Quality Inspection and Test Center for Fruit and Nursery Stocks (Xingcheng), Ministry of Agriculture and Rural Affairs, Xingcheng, 125100, China.,College of Horticulture, Qingdao Agricultural University, Qingdao, 266109, China
| | - Lixue Kuang
- Institute of Pomology, Chinese Academy of Agricultural Sciences/Laboratory of Quality & Safety Risk Assessment for Fruit (Xingcheng), Ministry of Agriculture and Rural Affairs/Quality Inspection and Test Center for Fruit and Nursery Stocks (Xingcheng), Ministry of Agriculture and Rural Affairs, Xingcheng, 125100, China
| | - Jianyi Zhang
- Institute of Pomology, Chinese Academy of Agricultural Sciences/Laboratory of Quality & Safety Risk Assessment for Fruit (Xingcheng), Ministry of Agriculture and Rural Affairs/Quality Inspection and Test Center for Fruit and Nursery Stocks (Xingcheng), Ministry of Agriculture and Rural Affairs, Xingcheng, 125100, China
| | - Haifei Li
- Institute of Pomology, Chinese Academy of Agricultural Sciences/Laboratory of Quality & Safety Risk Assessment for Fruit (Xingcheng), Ministry of Agriculture and Rural Affairs/Quality Inspection and Test Center for Fruit and Nursery Stocks (Xingcheng), Ministry of Agriculture and Rural Affairs, Xingcheng, 125100, China
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12
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Cheng Q, Jiang S, Huang L, Wang Y, Yang W, Yang Z, Ge J. Effects of zearalenone-induced oxidative stress and Keap1-Nrf2 signaling pathway-related gene expression in the ileum and mesenteric lymph nodes of post-weaning gilts. Toxicology 2019; 429:152337. [PMID: 31760079 DOI: 10.1016/j.tox.2019.152337] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2019] [Revised: 11/08/2019] [Accepted: 11/20/2019] [Indexed: 12/29/2022]
Abstract
Zearalenone (ZEA) contamination of feed affects animal husbandry and the human health. Currently, the molecular mechanism underlying small intestine-related diseases caused by ZEA-induced oxidative stress is not well understood. In this study, we aimed to identify the mechanisms involved in ZEA (0.5-1.5 mg/kg)-induced oxidative stress in the ileum and mesenteric lymph nodes (MLNs) and the role of the Kelch-like erythroid cell-derived protein with CNC homology-associated protein 1 (Keap1)-nuclear factor erythroid 2-related factor 2 (Nrf2) signaling pathway in post-weaning gilts. Forty post-weaning gilts (Landrace × Yorkshire × Duroc) with an average body weight of 14.01 ± 0.86 kg were randomly allocated to four groups and fed a corn-soybean meal basal diet supplemented with < 0.1, 0.5, 1.0, or 1.5 mg/kg ZEA. The results showed that the activity of total superoxide dismutase and glutathione peroxidase decreased (p < 0.05) linearly and quadratically and that the content of malondialdehyde increased (p < 0.05) quadratically in the ileum and MLNs with increasing ZEA in the diet. Immunohistochemical analysis showed that the expression of Nrf2 and glutathione peroxidase 1 (Gpx1) immunoreactive proteins in the ileum and MLNs were significantly enhanced with increasing ZEA. The relative mRNA and protein expression of Nrf2, Gpx1, quinone oxidoreductase 1 (Nqo1), hemeoxygenase 1 (Ho1), modifier subunit of glutamate-cysteine ligase (Gclm), and catalytic subunit of glutamate-cysteine ligase (Gclc) increased (p < 0.05) linearly and quadratically, and the relative mRNA and protein expression of Keap1 decreased (p < 0.05) linearly and quadratically in the ileum with increasing ZEA concentrations in the diet. Further, the relative mRNA and protein expression of Nrf2 and Gpx1 increased (p < 0.05) linearly and quadratically, and the relative mRNA and protein expression of Nqo1, Ho1, and Gclm decreased (p < 0.05) quadratically in the MLNs as ZEA concentrations increased in the diet. Our results provide valuable genetic information on ZEA-induced oxidative stress in the ileum and MLNs of post-weaning gilts and have elucidated the key regulatory genes involved in the Keap1-Nrf2 signaling pathway. Results indicated that the Keap1-Nrf2 signaling pathway might be a key target to further prevent and treat ZEA-induced injury to the ileum in post-weaning gilts.
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Affiliation(s)
- Qun Cheng
- Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, Department of Animal Sciences and Technology, Shandong Agricultural University, Taian 271018, Shandong, China
| | - Shuzhen Jiang
- Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, Department of Animal Sciences and Technology, Shandong Agricultural University, Taian 271018, Shandong, China
| | - Libo Huang
- Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, Department of Animal Sciences and Technology, Shandong Agricultural University, Taian 271018, Shandong, China
| | - Yuxi Wang
- Agriculture and Agri-Food Canada, Lethbridge Research Centre, PO Box 3000, Lethbridge, Alberta, T1J 4B1, Canada
| | - Weiren Yang
- Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, Department of Animal Sciences and Technology, Shandong Agricultural University, Taian 271018, Shandong, China.
| | - Zaibin Yang
- Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, Department of Animal Sciences and Technology, Shandong Agricultural University, Taian 271018, Shandong, China
| | - Jinshan Ge
- Shandong Zhongcheng Feed Technology Co., Ltd, No. 226 Gongye 2 Road, Feicheng City, Shandong,271600, China
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13
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Gatti M, Choulet F, Macadré C, Guérard F, Seng JM, Langin T, Dufresne M. Identification, Molecular Cloning, and Functional Characterization of a Wheat UDP-Glucosyltransferase Involved in Resistance to Fusarium Head Blight and to Mycotoxin Accumulation. FRONTIERS IN PLANT SCIENCE 2018; 9:1853. [PMID: 30619419 PMCID: PMC6300724 DOI: 10.3389/fpls.2018.01853] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2018] [Accepted: 11/30/2018] [Indexed: 05/20/2023]
Abstract
Plant uridine diphosphate (UDP)-glucosyltransferases (UGT) catalyze the glucosylation of xenobiotic, endogenous substrates and phytotoxic agents produced by pathogens such as mycotoxins. The Bradi5g03300 UGT-encoding gene from the model plant Brachypodium distachyon was previously shown to confer tolerance to the mycotoxin deoxynivalenol (DON) through glucosylation into DON 3-O-glucose (D3G). This gene was shown to be involved in early establishment of quantitative resistance to Fusarium Head Blight, a major disease of small-grain cereals. In the present work, using a translational biology approach, we identified and characterized a wheat candidate gene, Traes_2BS_14CA35D5D, orthologous to Bradi5g03300 on the short arm of chromosome 2B of bread wheat (Triticum aestivum L.). We showed that this UGT-encoding gene was highly inducible upon infection by a DON-producing Fusarium graminearum strain while not induced upon infection by a strain unable to produce DON. Transformation of this wheat UGT-encoding gene into B. distachyon revealed its ability to confer FHB resistance and root tolerance to DON as well as to potentially conjugate DON into D3G in planta and its impact on total DON reduction. In conclusion, we provide a UGT-encoding candidate gene to include in selection process for FHB resistance.
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Affiliation(s)
- Miriam Gatti
- Institute of Plant Sciences Paris Saclay IPS2, CNRS, INRA, Université Paris-Sud, Université Evry, Université Paris-Saclay, Orsay, France
- Institute of Plant Sciences Paris-Saclay IPS2, Paris Diderot, Sorbonne Paris-Cité, Orsay, France
| | - Frédéric Choulet
- Unité Génétique Diversité et Ecophysiologie des Céréales INRA, UMR1095, Clermont-Ferrand, France
| | - Catherine Macadré
- Institute of Plant Sciences Paris Saclay IPS2, CNRS, INRA, Université Paris-Sud, Université Evry, Université Paris-Saclay, Orsay, France
- Institute of Plant Sciences Paris-Saclay IPS2, Paris Diderot, Sorbonne Paris-Cité, Orsay, France
| | - Florence Guérard
- Institute of Plant Sciences Paris Saclay IPS2, CNRS, INRA, Université Paris-Sud, Université Evry, Université Paris-Saclay, Orsay, France
- Institute of Plant Sciences Paris-Saclay IPS2, Paris Diderot, Sorbonne Paris-Cité, Orsay, France
| | - Jean-Marc Seng
- Institute of Plant Sciences Paris Saclay IPS2, CNRS, INRA, Université Paris-Sud, Université Evry, Université Paris-Saclay, Orsay, France
- Institute of Plant Sciences Paris-Saclay IPS2, Paris Diderot, Sorbonne Paris-Cité, Orsay, France
| | - Thierry Langin
- Unité Génétique Diversité et Ecophysiologie des Céréales INRA, UMR1095, Clermont-Ferrand, France
| | - Marie Dufresne
- Institute of Plant Sciences Paris Saclay IPS2, CNRS, INRA, Université Paris-Sud, Université Evry, Université Paris-Saclay, Orsay, France
- Institute of Plant Sciences Paris-Saclay IPS2, Paris Diderot, Sorbonne Paris-Cité, Orsay, France
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14
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Bah A, Ferjani R, Fhoula I, Gharbi Y, Najjari A, Boudabous A, Ouzari HI. Microbial community dynamic in tomato fruit during spontaneous fermentation and biotechnological characterization of indigenous lactic acid bacteria. ANN MICROBIOL 2018. [DOI: 10.1007/s13213-018-1385-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
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15
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Bilska K, Kulik T, Ostrowska-Kołodziejczak A, Buśko M, Pasquali M, Beyer M, Baturo-Cieśniewska A, Juda M, Załuski D, Treder K, Denekas J, Perkowski J. Development of a Highly Sensitive FcMito qPCR Assay for the Quantification of the Toxigenic Fungal Plant Pathogen Fusarium culmorum. Toxins (Basel) 2018; 10:E211. [PMID: 29883395 PMCID: PMC5983267 DOI: 10.3390/toxins10050211] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2018] [Revised: 05/15/2018] [Accepted: 05/18/2018] [Indexed: 01/03/2023] Open
Abstract
Fusarium culmorum is a ubiquitous, soil-borne fungus (ascomycete) causing foot and root rot and Fusarium head blight on cereals. It is responsible for yield and quality losses as well as grain contamination with mycotoxins, which are a potential health hazard. An extremely sensitive mitochondrial-based qPCR assay (FcMito qPCR) for quantification of F. culmorum was developed in this study. To provide specificity, the FcMito assay was successfully validated against 85 F. culmorum strains and 53 isolates of 30 other fungal species. The assay efficiency and sensitivity were evaluated against different F. culmorum strains with various amounts of pure fungal DNA and in the presence of background wheat DNA. The results demonstrated the high efficiency of the assay (97.2⁻106.0%, R²-values > 0.99). It was also shown that, in the presence of background DNA, 0.01 pg of fungal template could be reliably quantified. The FcMito assay was used to quantify F. culmorum DNA using 108 grain samples with different trichothecene levels. A significant positive correlation was found between fungal DNA quantity and the total trichothecene content. The obtained results showed that the sensitivity of the FcMito assay was much higher than the nuclear-based qPCR assay for F. culmorum.
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Affiliation(s)
- Katarzyna Bilska
- Department of Microbiology and Mycology, University of Warmia and Mazury in Olsztyn, Oczapowskiego 1A, 10-719 Olsztyn, Poland.
| | - Tomasz Kulik
- Department of Microbiology and Mycology, University of Warmia and Mazury in Olsztyn, Oczapowskiego 1A, 10-719 Olsztyn, Poland.
| | | | - Maciej Buśko
- Department of Chemistry, Poznań University of Life Sciences, Wojska Polskiego 75, 60-625 Poznań, Poland.
| | - Matias Pasquali
- Department of Food, Environmental and Nutritional Sciences (DEFENS), University of Milan, via Celoria 2, 20133 Milano, Italy.
| | - Marco Beyer
- Department Environmental Research and Innovation, Luxembourg Institute of Science and Technology, 41, rue du Brill, L-4422 Belvaux, Luxembourg.
| | - Anna Baturo-Cieśniewska
- Faculty of Agriculture and Biotechnology, Department of Phytopathology and Molecular Mycology, University of Technology and Life Sciences, Kordeckiego St. 20, 85-225 Bydgoszcz, Poland.
| | - Marcin Juda
- Faculty of Agriculture and Biotechnology, Department of Phytopathology and Molecular Mycology, University of Technology and Life Sciences, Kordeckiego St. 20, 85-225 Bydgoszcz, Poland.
| | - Dariusz Załuski
- Department of Plant Breeding and Seed Production, University of Warmia and Mazury in Olsztyn, Plac Łódzki 3, 10-727 Olsztyn, Poland.
| | - Kinga Treder
- Department of Agroecosystems, University of Warmia and Mazury in Olsztyn, Plac Łódzki 3, 10-727 Olsztyn, Poland.
| | - Joerg Denekas
- Agravis Technik Heide-Altmark GmbH, Hansestrasse 30, 29525 Uelzen, Germany.
| | - Juliusz Perkowski
- Department of Chemistry, Poznań University of Life Sciences, Wojska Polskiego 75, 60-625 Poznań, Poland.
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16
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Sim JH, Tian F, Jung SY, Auh JH, Chun HS. Multiplex polymerase chain reaction assays for the detection of the zearalenone chemotype of Fusarium species in white and brown rice. Int J Food Microbiol 2018; 269:120-127. [PMID: 29425859 DOI: 10.1016/j.ijfoodmicro.2018.02.003] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2017] [Revised: 01/19/2018] [Accepted: 02/02/2018] [Indexed: 01/26/2023]
Abstract
Early detection of the zearalenone (ZEA) chemotype of Fusarium species could be a precautionary measure for preventing ZEA contamination in rice. In this study, a multiplex polymerase chain reaction (mPCR) assay for detecting ZEA-producing fungi in rice was established using a set of four primers targeting the ZEA biosynthesis genes PKS3, PKS13, ZEB1, and ZEB2. Two mPCR approaches were used: one that amplified the DNA obtained from Fusarium isolates (conventional method) and another that directly amplified the target DNA from rice samples without time-consuming DNA isolation (direct method). The two mPCR methods showed high sensitivity in detecting ZEA-producing species, with a detection limit of 1.25 pg/μL of genomic DNA and 102 and 103 spores/g of white and brown rice, respectively. Both methods were specific for ZEA-producing species and gave four band patterns. The application of the two mPCR methods to 51 Fusarium isolates and 41 rice samples revealed that 31% (16 of 51) and 24% (10 of 41) of the samples were contaminated with ZEA-producing species, respectively. The mPCR results were further evaluated using high-performance liquid chromatography; in general, the two methods yielded similar results. These findings indicate that both mPCR methods are suitable for the detection of ZEA-producing Fusarium species in white and brown rice; however, the direct method yielded more rapid results.
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Affiliation(s)
- Jae Ho Sim
- Advanced Food Safety Research Group, BK21 Plus, Department of Food Science and Technology, College of Biotechnology and Natural Resources, Chung-Ang University, Anseong-si, Gyeonggi-do 17546, Republic of Korea
| | - Fei Tian
- Advanced Food Safety Research Group, BK21 Plus, Department of Food Science and Technology, College of Biotechnology and Natural Resources, Chung-Ang University, Anseong-si, Gyeonggi-do 17546, Republic of Korea
| | - Soo Yeon Jung
- Advanced Food Safety Research Group, BK21 Plus, Department of Food Science and Technology, College of Biotechnology and Natural Resources, Chung-Ang University, Anseong-si, Gyeonggi-do 17546, Republic of Korea
| | - Joong-Hyuck Auh
- Advanced Food Safety Research Group, BK21 Plus, Department of Food Science and Technology, College of Biotechnology and Natural Resources, Chung-Ang University, Anseong-si, Gyeonggi-do 17546, Republic of Korea
| | - Hyang Sook Chun
- Advanced Food Safety Research Group, BK21 Plus, Department of Food Science and Technology, College of Biotechnology and Natural Resources, Chung-Ang University, Anseong-si, Gyeonggi-do 17546, Republic of Korea.
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17
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El-Nekeety AA, El-Kady AA, Abdel-Wahhab KG, Hassan NS, Abdel-Wahhab MA. Reduction of individual or combined toxicity of fumonisin B 1 and zearalenone via dietary inclusion of organo-modified nano-montmorillonite in rats. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2017; 24:20770-20783. [PMID: 28718025 DOI: 10.1007/s11356-017-9721-y] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2017] [Accepted: 07/05/2017] [Indexed: 06/07/2023]
Abstract
Fusarium mycotoxins are nature environmental contaminants worldwide in animal feed and human food resulting in a serious health risk. The present study aimed to evaluate the potential role of organo-modified nano-montmorillonite (OMNM) against the health risk and the oxidative stress resulted from the exposure of fumonisin (FB1) and zearalenone (ZEN) individually and in combination in rats. Eight groups of female Sprague Dawley rats were treated orally for 3 weeks including the control group, FB1 alone-treated group (50 mg/kg b.w.), ZEN alone-treated group (40 μg/kg b.w), FB1 plus ZEN-treated group, the group fed basal diet supplemented with OMNM (5 g/kg diet), and the groups fed basal diet supplemented with OMNM and treated with FB1 and/or ZEN. At the end of the experimental period, samples of blood and tissues were collected for different biochemical and histological analyses. The results revealed that administration of FB1 and/or ZEN resulted in significant disturbances in the biochemical parameters tested, lipid profiles, serum cytokines, oxidative stress indices, the activity of antioxidant enzymes, and the histological status of the liver and kidney. Co-administration of both mycotoxins indicated a synergistic effect. OMNM alone was safe and succeeded to reduce and/or prevent most of the toxicity of both mycotoxins. It could be concluded that OMNM is a novel and promising nanograde adsorbent suitable for the protection against the combined exposure to FB1 and ZEN.
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Affiliation(s)
- Aziza A El-Nekeety
- Food Toxicology & Contaminants Department, National Research Centre, Dokki, Cairo, Egypt
| | - Ahmed A El-Kady
- Food Toxicology & Contaminants Department, National Research Centre, Dokki, Cairo, Egypt
| | | | - Nabila S Hassan
- Pathology Department, National Research Centre, Dokki, Cairo, Egypt
| | - Mosaad A Abdel-Wahhab
- Food Toxicology & Contaminants Department, National Research Centre, Dokki, Cairo, Egypt.
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18
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Comparison of DNA Microarray, Loop-Mediated Isothermal Amplification (LAMP) and Real-Time PCR with DNA Sequencing for Identification of Fusarium spp. Obtained from Patients with Hematologic Malignancies. Mycopathologia 2017; 182:625-632. [PMID: 28324245 DOI: 10.1007/s11046-017-0129-5] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2016] [Accepted: 02/24/2017] [Indexed: 01/17/2023]
Abstract
The performance of three molecular biology techniques, i.e., DNA microarray, loop-mediated isothermal amplification (LAMP), and real-time PCR were compared with DNA sequencing for properly identification of 20 isolates of Fusarium spp. obtained from blood stream as etiologic agent of invasive infections in patients with hematologic malignancies. DNA microarray, LAMP and real-time PCR identified 16 (80%) out of 20 samples as Fusarium solani species complex (FSSC) and four (20%) as Fusarium spp. The agreement among the techniques was 100%. LAMP exhibited 100% specificity, while DNA microarray, LAMP and real-time PCR showed 100% sensitivity. The three techniques had 100% agreement with DNA sequencing. Sixteen isolates were identified as FSSC by sequencing, being five Fusarium keratoplasticum, nine Fusarium petroliphilum and two Fusarium solani. On the other hand, sequencing identified four isolates as Fusarium non-solani species complex (FNSSC), being three isolates as Fusarium napiforme and one isolate as Fusarium oxysporum. Finally, LAMP proved to be faster and more accessible than DNA microarray and real-time PCR, since it does not require a thermocycler. Therefore, LAMP signalizes as emerging and promising methodology to be used in routine identification of Fusarium spp. among cases of invasive fungal infections.
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19
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Peyer LC, De Kruijf M, O’Mahony J, De Colli L, Danaher M, Zarnkow M, Jacob F, Arendt EK. Lactobacillus brevis R2Δ as starter culture to improve biological and technological qualities of barley malt. Eur Food Res Technol 2017. [DOI: 10.1007/s00217-017-2847-9] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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20
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Targeting Other Mycotoxin Biosynthetic Genes. Methods Mol Biol 2016. [PMID: 27924541 DOI: 10.1007/978-1-4939-6707-0_14] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
Abstract
Real-time PCR (qPCR) methods are adequate tools for sensitive and rapid detection and quantification of toxigenic molds contaminating food commodities. Methods of qPCR for quantifying zearalenone (ZEA)-, sterigmatocystin (ST)-, cyclopiazonic acid (CPA)-, and patulin (PAT)-producing molds have been designed on the basis of specific target genes involved in the biosynthesis of these mycotoxins. In this chapter reliable qPCR protocols to detect and quantify such toxigenic molds are described. All of these methods are suitable when working with mold pure cultures and mold contaminated foods. For ZEA-producing molds, two qPCR using the SYBR Green fluorochrome and based on two polyketide synthase (PKS) genes are detailed. qPCR protocols relied on the fluG and the idh genes able to quantify ST- and PAT-producing molds, respectively, which can be performed by both SYBR Green and TaqMan methodologies are described. Regarding CPA-producing molds a TaqManq PCR method including a competitive internal amplification control is detailed. Since DNA extraction is a critical step in the detection and quantification of toxigenic molds by qPCR, a protocol for extracting DNA from mold pure cultures and food is also described.
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21
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Gossen BD, Conner RL, Chang KF, Pasche JS, McLaren DL, Henriquez MA, Chatterton S, Hwang SF. Identifying and Managing Root Rot of Pulses on the Northern Great Plains. PLANT DISEASE 2016; 100:1965-1978. [PMID: 30683014 DOI: 10.1094/pdis-02-16-0184-fe] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
Pulse crops (annual grain legumes such as field pea, lentil, dry bean, and chickpea) have become an important component of the cropping system in the northern Great Plains of North America over the last three decades. In many areas, the intensity of damping-off, seedling blight, root rot, and premature ripening of pulse crops is increasing, resulting in reduction in stand establishment and yield. This review provides a brief description of the important pathogens that make up the root rot complex and summarizes root rot management on pulses in the region. Initially, several specific Fusarium spp., a range of Pythium spp., and Rhizoctonia solani were identified as important components of the root rot disease complex. Molecular approaches have recently been used to identify the importance of Aphanomyces euteiches on pulses, and to demonstrate that year-to-year changes in precipitation and temperature have an important effect on pathogen prevalence. Progress has been made on management of root rot, but more IPM tools are required to provide effective disease management. Seed-treatment fungicides can reduce damping-off and seedling blight for many of the pathogens in this disease complex, but complex cocktails of active ingredients are required to protect seedlings from the pathogen complex present in most commercial fields. Partial resistance against many of the pathogens in the complex has been identified, but is not yet available in commercial cultivars. Cultural practices, especially diversified cropping rotations and early, shallow seeding, have been shown to have an important role in root rot management. Biocontrol agents may also have potential over the long term. Improved methods being developed to identify and quantify the pathogen inoculum in individual fields may help producers avoid high-risk fields and select IPM packages that enhance yield stability.
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Affiliation(s)
- Bruce D Gossen
- Agriculture and Agri-Food Canada (AAFC), Saskatoon Research and Development Centre, Saskatoon, SK S7N 0X2, Canada
| | - Robert L Conner
- AAFC, Morden Research and Development Centre, Morden, MB R6M 1Y5, Canada
| | - Kan-Fa Chang
- Alberta Agriculture and Forestry, Crop Development Center North, Edmonton, AB T5Y 6H3, Canada
| | | | - Debra L McLaren
- AAFC, Brandon Research and Development Centre, Brandon, MB R7A 5Y3, Canada
| | - Maria A Henriquez
- AAFC, Morden Research and Development Centre, Morden, MB R6M 1Y5, Canada
| | - Syama Chatterton
- AAFC, Lethbridge Research and Development Centre, Lethbridge, AB T1J 4B1, Canada
| | - Sheau-Fang Hwang
- Alberta Agriculture and Forestry, Crop Development Center North, Edmonton, AB T5Y 6H3, Canada
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22
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Kizis D, Nychas GJE, Panagou EZ. Real-Time PCR Assay Targeting the veA Gene for Quantification of Aspergillus carbonarius in Grapes. J Food Prot 2015; 78:2240-6. [PMID: 26613920 DOI: 10.4315/0362-028x.jfp-15-065] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
In this work, a SYBR Green I real-time PCR method has been developed for the detection and quantification of Aspergillus carbonarius in grapes by targeting the veA gene with a primer pair (veAF4/veAR4) that specifically amplifies a 91-bp PCR product. The quantification of the fungal DNA was performed by generation of standard curves for two A. carbonarius strains, using spectrophotometrically measured DNA quantities (Log) with a linearity range from 50 to 5 × 10(-4) ng of DNA. A high positive correlation (R(2) > 0.99) between exponential increases of DNA and real-time PCR threshold cycles showed a high amplification efficiency for the assay (E values 100.06 and 101.51%, respectively). Quantification of the fungal genomic DNA in grape samples artificially inoculated with A. carbonarius conidia was successfully performed with a minimum threshold of 10(4) conidia per g of grape berry. The assay developed would allow reliable, specific, and efficient detection and quantification of A. carbonarius in grapes.
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Affiliation(s)
- Dimosthenis Kizis
- Laboratory of Microbiology and Biotechnology of Foods, Department of Food Science and Human Nutrition, Agricultural University of Athens, Iera Odos 75, 11855, Athens, Greece; Laboratory of Mycology, Department of Phytopathology, Benaki Phytopathological Institute, St. Delta 8, 14561, Athens, Greece.
| | - George-John E Nychas
- Laboratory of Microbiology and Biotechnology of Foods, Department of Food Science and Human Nutrition, Agricultural University of Athens, Iera Odos 75, 11855, Athens, Greece
| | - Efstathios Z Panagou
- Laboratory of Microbiology and Biotechnology of Foods, Department of Food Science and Human Nutrition, Agricultural University of Athens, Iera Odos 75, 11855, Athens, Greece
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23
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Ultrasensitive immunoassays based on biotin–streptavidin amplified system for quantitative determination of family zearalenones. Food Control 2015. [DOI: 10.1016/j.foodcont.2015.03.049] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
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24
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Rodríguez A, Rodríguez M, Andrade MJ, Córdoba JJ. Detection of filamentous fungi in foods. Curr Opin Food Sci 2015. [DOI: 10.1016/j.cofs.2015.07.007] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
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25
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Porto-Figueira P, Camacho I, Câmara JS. Exploring the potentialities of an improved ultrasound-assisted quick, easy, cheap, effective, rugged, and safe-based extraction technique combined with ultrahigh pressure liquid chromatography-fluorescence detection for determination of Zearalenone in cereals. J Chromatogr A 2015. [DOI: 10.1016/j.chroma.2015.07.031] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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26
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Jaillais B, Roumet P, Pinson-Gadais L, Bertrand D. Detection of Fusarium head blight contamination in wheat kernels by multivariate imaging. Food Control 2015. [DOI: 10.1016/j.foodcont.2015.01.048] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Gong L, Jiang Y, Chen F. Molecular strategies for detection and quantification of mycotoxin-producing Fusarium species: a review. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2015; 95:1767-1776. [PMID: 25255897 DOI: 10.1002/jsfa.6935] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/04/2014] [Revised: 09/19/2014] [Accepted: 09/19/2014] [Indexed: 06/03/2023]
Abstract
Fusarium contamination is considered a major agricultural problem, which could not only significantly reduce yield and quality of agricultural products, but produce mycotoxins that are virulence factors responsible for many diseases of humans and farm animals. One strategy to identify toxigenic Fusarium species is the use of modern molecular methods, which include the analysis of DNA target regions for differentiation of the Fusarium species, particularly the mycotoxin-producing Fusarium species such as F. verticillioides and F. graminearum. Additionally, polymerase chain reaction assays are used to determine the genes involved in the biosynthesis of the toxins in order to facilitate a qualitative and quantitative detection of Fusarium-producing mycotoxins. Also, it is worth mentioning that some factors that modulate the biosynthesis of mycotoxins are not only determined by their biosynthetic gene clusters, but also by environmental conditions. Therefore, all of the aforementioned factors which may affect the molecular diagnosis of mycotoxins will be reviewed and discussed in this paper.
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Affiliation(s)
- Liang Gong
- Key Laboratory of Plant Resource Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, Guangdong Province, China
| | - Yueming Jiang
- Key Laboratory of Plant Resource Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, Guangdong Province, China
| | - Feng Chen
- Department of Food, Nutrition and Packaging Sciences, Clemson University, Clemson, South Carolina, USA
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Kuruc J, Hegstad J, Lee HJ, Simons K, Ryu D, Wolf-Hall C. Infestation and Quantification of Ochratoxigenic Fungi in Barley and Wheat Naturally Contaminated with Ochratoxin A. J Food Prot 2015; 78:1350-6. [PMID: 26197287 DOI: 10.4315/0362-028x.jfp-14-578] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Cereal grains are a significant source of ochratoxin A (OTA) in the human diet. Multiple ochratoxigenic Aspergillus and Penicillium spp. have been reported as contaminants on various cereal grains around the world, although relatively few species dominate in any given location. Efforts to mitigate the risk of fungal contamination and OTA accumulation can be made pre- and postharvest. Still, a rapid and reliable screening method is sought that can be used to predict the OTA level of a sample and to inform risk assessments prior to processing. In this study, we assessed the efficacy of two OTA-related indices for OTA level prediction. Infestation rates were determined by direct plating for freshly harvested and stored barley, durum, and hard red spring wheat samples (n = 139) with known OTA levels. Presumptive ochratoxigenic isolates were tested for their ability to produce OTA. The nonribosomal peptide synthase (otanpsPN) involved in OTA biosynthesis was used to quantify ochratoxigenic fungi in barley and wheat. Viable Penicillium verrucosum was present in 45% of the samples. In total, 62.7% (n = 110) of the P. verrucosum isolates tested produced OTA on dichloran yeast extract sucrose 18% glycerol agar. Both OTA level and infestation rate (r = 0.30), as well as OTA level and otanpsPN concentration (r = 0.56), were weakly correlated. Neither infestation rate nor otanpsPN concentration is a reliable predictor of OTA level in a sample.
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Affiliation(s)
- Julie Kuruc
- Great Plains Institute of Food Safety, North Dakota State University, Fargo, North Dakota 58108, USA
| | - Justin Hegstad
- Department of Plant Sciences, North Dakota State University, Fargo, North Dakota 58108, USA
| | - Hyun Jung Lee
- School of Food Science, University of Idaho, Moscow, Idaho 83844, USA
| | - Kristin Simons
- Department of Plant Sciences, North Dakota State University, Fargo, North Dakota 58108, USA
| | - Dojin Ryu
- School of Food Science, University of Idaho, Moscow, Idaho 83844, USA
| | - Charlene Wolf-Hall
- Great Plains Institute of Food Safety, Department of Veterinary and Microbiological Sciences, North Dakota State University, Fargo, North Dakota 58108, USA.
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Tannous J, Atoui A, El Khoury A, Kantar S, Chdid N, Oswald IP, Puel O, Lteif R. Development of a real-time PCR assay for Penicillium expansum quantification and patulin estimation in apples. Food Microbiol 2015; 50:28-37. [PMID: 25998812 DOI: 10.1016/j.fm.2015.03.001] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2014] [Revised: 01/19/2015] [Accepted: 03/02/2015] [Indexed: 10/23/2022]
Abstract
Due to the occurrence and spread of the fungal contaminants in food and the difficulties to remove their resulting mycotoxins, rapid and accurate methods are needed for early detection of these mycotoxigenic fungi. The polymerase chain reaction and the real time PCR have been widely used for this purpose. Apples are suitable substrates for fungal colonization mostly caused by Penicillium expansum, which produces the mycotoxin patulin during fruit infection. This study describes the development of a real-time PCR assay incorporating an internal amplification control (IAC) to specifically detect and quantify P. expansum. A specific primer pair was designed from the patF gene, involved in patulin biosynthesis. The selected primer set showed a high specificity for P. expansum and was successfully employed in a standardized real-time PCR for the direct quantification of this fungus in apples. Using the developed system, twenty eight apples were analyzed for their DNA content. Apples were also analyzed for patulin content by HPLC. Interestingly, a positive correlation (R(2) = 0.701) was found between P. expansum DNA content and patulin concentration. This work offers an alternative to conventional methods of patulin quantification and mycological detection of P. expansum and could be very useful for the screening of patulin in fruits through the application of industrial quality control.
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Affiliation(s)
- Joanna Tannous
- Université Saint-Joseph, Centre d'Analyses et de Recherche (Faculté des Sciences), Campus des Sciences et Technologies, Mar Roukos, Mkallès, P.O Box 11-514, Riad El Solh, 1107 2050 Beirut, Lebanon; INRA, UMR 1331 Toxalim, Research Centre in Food Toxicology, 180 Chemin de Tournefeuille, F-31027 Toulouse, Cedex, France; Université de Toulouse III, ENVT, INP, UMR 1331, Toxalim, F-31076, Toulouse, France
| | - Ali Atoui
- Laboratory of Microorganisms and Food Irradiation, Lebanese Atomic Energy Commission-CNRS, P.O. Box 11-8281, Riad El Solh, 1107 2260 Beirut, Lebanon.
| | - André El Khoury
- Université Saint-Joseph, Centre d'Analyses et de Recherche (Faculté des Sciences), Campus des Sciences et Technologies, Mar Roukos, Mkallès, P.O Box 11-514, Riad El Solh, 1107 2050 Beirut, Lebanon
| | - Sally Kantar
- Université Saint-Joseph, Centre d'Analyses et de Recherche (Faculté des Sciences), Campus des Sciences et Technologies, Mar Roukos, Mkallès, P.O Box 11-514, Riad El Solh, 1107 2050 Beirut, Lebanon
| | - Nader Chdid
- Université Saint-Joseph, Centre d'Analyses et de Recherche (Faculté des Sciences), Campus des Sciences et Technologies, Mar Roukos, Mkallès, P.O Box 11-514, Riad El Solh, 1107 2050 Beirut, Lebanon
| | - Isabelle P Oswald
- INRA, UMR 1331 Toxalim, Research Centre in Food Toxicology, 180 Chemin de Tournefeuille, F-31027 Toulouse, Cedex, France; Université de Toulouse III, ENVT, INP, UMR 1331, Toxalim, F-31076, Toulouse, France
| | - Olivier Puel
- INRA, UMR 1331 Toxalim, Research Centre in Food Toxicology, 180 Chemin de Tournefeuille, F-31027 Toulouse, Cedex, France; Université de Toulouse III, ENVT, INP, UMR 1331, Toxalim, F-31076, Toulouse, France
| | - Roger Lteif
- Université Saint-Joseph, Centre d'Analyses et de Recherche (Faculté des Sciences), Campus des Sciences et Technologies, Mar Roukos, Mkallès, P.O Box 11-514, Riad El Solh, 1107 2050 Beirut, Lebanon
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Kim SY, Shin Y, Lee CY, Jung IY. In Vivo Quantitative Evaluation of Live and Dead Bacteria in Root Canal Infection by Using Propidium Monoazide with Real-Time PCR. J Endod 2013; 39:1359-63. [DOI: 10.1016/j.joen.2013.05.004] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2013] [Revised: 05/19/2013] [Accepted: 05/30/2013] [Indexed: 12/01/2022]
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Scherm B, Balmas V, Spanu F, Pani G, Delogu G, Pasquali M, Migheli Q. Fusarium culmorum: causal agent of foot and root rot and head blight on wheat. MOLECULAR PLANT PATHOLOGY 2013; 14:323-41. [PMID: 23279114 PMCID: PMC6638779 DOI: 10.1111/mpp.12011] [Citation(s) in RCA: 135] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
UNLABELLED Fusarium culmorum is a ubiquitous soil-borne fungus able to cause foot and root rot and Fusarium head blight on different small-grain cereals, in particular wheat and barley. It causes significant yield and quality losses and results in contamination of the grain with mycotoxins. This review summarizes recent research activities related to F. culmorum, including studies into its population diversity, mycotoxin biosynthesis, mechanisms of pathogenesis and resistance, the development of diagnostic tools and preliminary genome sequence surveys. We also propose potential research areas that may expand our basic understanding of the wheat-F. culmorum interaction and assist in the management of the disease caused by this pathogen. TAXONOMY Fusarium culmorum (W.G. Smith) Sacc. Kingdom Fungi; Phylum Ascomycota; Subphylum Pezizomycotina; Class Sordariomycetes; Subclass Hypocreomycetidae; Order Hypocreales; Family Nectriaceae; Genus Fusarium. DISEASE SYMPTOMS Foot and root rot (also known as Fusarium crown rot): seedling blight with death of the plant before or after emergence; brown discoloration on roots and coleoptiles of the infected seedlings; brown discoloration on subcrown internodes and on the first two/three internodes of the main stem; tiller abortion; formation of whiteheads with shrivelled white grains; Fusarium head blight: prematurely bleached spikelets or blighting of the entire head, which remains empty or contains shrunken dark kernels. IDENTIFICATION AND DETECTION: Morphological identification is based on the shape of the macroconidia formed on sporodochia on carnation leaf agar. The conidiophores are branched monophialides, short and wide. The macroconidia are relatively short and stout with an apical cell blunt or slightly papillate; the basal cell is foot-shaped or just notched. Macroconidia are thick-walled and curved, usually 3-5 septate, and mostly measuring 30-50 × 5.0-7.5 μm. Microconidia are absent. Oval to globose chlamydospores are formed, intercalary in the hyphae, solitary, in chains or in clumps; they are also formed from macroconidia. The colony grows very rapidly (1.6-2.2 cm/day) on potato dextrose agar (PDA) at the optimum temperature of 25 °C. The mycelium on PDA is floccose, whitish, light yellow or red. The pigment on the reverse plate on PDA varies from greyish-rose, carmine red or burgundy. A wide array of polymerase chain reaction (PCR) and real-time PCR tools, as well as complementary methods, which are summarised in the first two tables, have been developed for the detection and/or quantification of F. culmorum in culture and in naturally infected plant tissue. HOST RANGE Fusarium culmorum has a wide range of host plants, mainly cereals, such as wheat, barley, oats, rye, corn, sorghum and various grasses. In addition, it has been isolated from sugar beet, flax, carnation, bean, pea, asparagus, red clover, hop, leeks, Norway spruce, strawberry and potato tuber. Fusarium culmorum has also been associated with dermatitis on marram grass planters in the Netherlands, although its role as a causal agent of skin lesions appears questionable. It is also isolated as a symbiont able to confer resistance to abiotic stress, and has been proposed as a potential biocontrol agent to control the aquatic weed Hydrilla spp. USEFUL WEBSITES http://isolate.fusariumdb.org/; http://sppadbase.ipp.cnr.it/; http://www.broad.mit.edu/annotation/genome/fusarium_group/MultiHome.html; http://www.fgsc.net/Fusarium/fushome.htm; http://plantpath.psu.edu/facilities/fusarium-research-center; http://www.phi-base.org/; http://www.uniprot.org/; http://www.cabi.org/; http://www.indexfungorum.org/
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Affiliation(s)
- Barbara Scherm
- Dipartimento di Agraria-Sezione di Patologia Vegetale ed Entomologia and Centro Interdisciplinare per lo Sviluppo della Ricerca Biotecnologica e per lo Studio della Biodiversità della Sardegna e dell'Area Mediterranea, Università degli Studi di Sassari, Via E. De Nicola 9, I-07100 Sassari, Italy
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Stępień Ł. The use ofFusariumsecondary metabolite biosynthetic genes in chemotypic and phylogenetic studies. Crit Rev Microbiol 2013; 40:176-85. [DOI: 10.3109/1040841x.2013.770387] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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