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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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Góral T, Przetakiewicz J, Ochodzki P, Wiewióra B, Wiśniewska H. Quantification of DNA of Fusarium culmorum and Trichothecene Genotypes 3ADON and NIV in the Grain of Winter Wheat. Pathogens 2022; 11:pathogens11121449. [PMID: 36558783 PMCID: PMC9788549 DOI: 10.3390/pathogens11121449] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2022] [Revised: 11/24/2022] [Accepted: 11/28/2022] [Indexed: 12/04/2022] Open
Abstract
Fusarium head blight (FHB) is a wheat disease caused by fungi of the genus Fusarium. The aim of the study was to find relationships between the weather conditions in the experimental years and the locations and the amount of F. culmorum DNA and trichothecene genotypes, as well as the proportions between them. A three-year field experiment (2017, 2018 and 2019) was established in two locations (Poznań, Radzików). The DNA of F. culmorum was detected in all grain samples in an average amount of 20,124 pg per 1 μg of wheat DNA. The average amount of DNA from the 3ADON genotype was 4879 pg/μg and the amount of DNA from the NIV genotype was 3330 pg/μg. Weather conditions strongly affected the amount of DNA of F. culmorum and trichothecene genotypes detected in the grain. In the three experimental years, a high variability was observed in the coefficients of correlation between DNA concentrations and the FHB index, FDK, ergosterol and the corresponding toxins. There were significant correlations between disease incidence, fungal biomass (quantified as the total amount of fungal DNA or DNA trichothecene genotypes) and toxins (DON, 3AcDON and NIV) concentrations. The 3ADON trichothecene genotype dominated over the NIV genotype (ratio 1.5); however, this varied greatly depending on environmental conditions.
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Affiliation(s)
- Tomasz Góral
- Plant Breeding and Acclimatization Institute—National Research Institute, Radzików, 05-870 Błonie, Poland
- Correspondence: ; Tel.: +48-22-733-4636
| | - Jarosław Przetakiewicz
- Plant Breeding and Acclimatization Institute—National Research Institute, Radzików, 05-870 Błonie, Poland
| | - Piotr Ochodzki
- Plant Breeding and Acclimatization Institute—National Research Institute, Radzików, 05-870 Błonie, Poland
| | - Barbara Wiewióra
- Plant Breeding and Acclimatization Institute—National Research Institute, Radzików, 05-870 Błonie, Poland
| | - Halina Wiśniewska
- Institute of Plant Genetics, Polish Academy of Sciences, 34 Strzeszyńska Str., 60-479 Poznań, Poland
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Tini F, Covarelli L, Cowger C, Sulyok M, Benincasa P, Beccari G. Infection timing affects Fusarium poae colonization of bread wheat spikes and mycotoxin accumulation in the grain. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2022; 102:6358-6372. [PMID: 35535556 PMCID: PMC9796436 DOI: 10.1002/jsfa.12002] [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: 11/24/2021] [Revised: 04/06/2022] [Accepted: 05/10/2022] [Indexed: 06/06/2023]
Abstract
BACKGROUND Fusarium poae is one of the most common Fusarium head blight (FHB) causal agents in wheat. This species can biosynthesize a wide range of mycotoxins, in particular nivalenol (NIV). In FHB epidemiology, infection timing is important for disease occurrence, kernel development, symptom appearance and mycotoxin accumulation in grain. The present study explored, both in a controlled environment and in a 2-year field plot experiment in Central Italy, the influence of five infection timings (from beginning of flowering to medium milk growth stage) on F. poae colonization and mycotoxin accumulation in bread wheat spikes (spring cv. A416 and winter cv. Ambrogio). RESULTS Both climate chamber and field experiments showed that early infection timings (from beginning of flowering to full flowering) especially favoured F. poae colonization and accumulation of its mycotoxins (particularly NIV) in grain. By contrast, later infection timings (watery ripe and medium milk) reduced F. poae development and mycotoxin levels. The time window of host susceptibility in the field was shorter than that observed under controlled conditions. Symptom expression in kernels also differed among infection timings. In general, F. poae biomass was higher in the chaff than in the grain. CONCLUSION These results enhance knowledge of a common member of the FHB complex worldwide, and could be useful in forecasting the risk of F. poae infection and mycotoxin contamination. © 2022 The Authors. Journal of The Science of Food and Agriculture published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry.
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Affiliation(s)
- Francesco Tini
- Department of Agricultural, Food and Environmental SciencesUniversity of PerugiaPerugiaItaly
| | - Lorenzo Covarelli
- Department of Agricultural, Food and Environmental SciencesUniversity of PerugiaPerugiaItaly
| | - Christina Cowger
- United States Department of Agriculture‐Agricultural Research Service, Department of Entomology and Plant PathologyNorth Carolina State University27695RaleighUSA
| | - Michael Sulyok
- University of Natural Resources and Life Sciences, ViennaDepartment of Agrobiotechnology (IFA‐Tulln), Institute of Bioanalytics and Agro‐MetabolomicsKonrad Lorenz Strasse 20, A‐3430TullnAustria
| | - Paolo Benincasa
- Department of Agricultural, Food and Environmental SciencesUniversity of PerugiaPerugiaItaly
| | - Giovanni Beccari
- Department of Agricultural, Food and Environmental SciencesUniversity of PerugiaPerugiaItaly
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Karlsson I, Mellqvist E, Persson P. Temporal and spatial dynamics of Fusarium spp. and mycotoxins in Swedish cereals during 16 years. Mycotoxin Res 2022; 39:3-18. [PMID: 36279098 PMCID: PMC10156870 DOI: 10.1007/s12550-022-00469-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2022] [Revised: 10/03/2022] [Accepted: 10/10/2022] [Indexed: 10/31/2022]
Abstract
AbstractWe analysed the dynamics of Fusarium spp. and mycotoxin contamination in Swedish cereals during 2004–2018. More than 1400 cereal samples from field trials were included, collected in a monitoring programme run by the Swedish Board of Agriculture. Five Fusarium mycotoxins were quantified with LC-MS/MS and fungal DNA from four species was quantified using quantitative real-time PCR. Correlation analyses revealed that deoxynivalenol (DON) and zearalenone (ZEN) were mainly associated with Fusarium graminearum, but stronger correlations with F. culmorum was seen some years. Nivalenol (NIV) was associated with F. poae and the HT-2 and T-2 toxins with F. langsethiae. Clear differences in mycotoxin contamination between different cereal crops and geographical regions were identified. The highest levels of DON and ZEN were found in spring wheat in Western Sweden. For NIV, HT-2 and T-2 toxins, the levels were highest in spring oats and spring barley. Regional differences were not detected for NIV, while HT-2 and T-2 toxins were associated with the northernmost region. We found that delayed harvest was strongly associated with increased levels of DON and ZEN in several crops. However, harvest date did not influence the levels of NIV or HT-2 and T-2 toxins. Our results suggest similar distribution patterns of DON and ZEN, in contrast to NIV and HT-2 and T-2 toxins, probably mirroring the differences in the ecology of the toxin-producing Fusarium species. Timely harvest is important to reduce the risk of DON and ZEN contamination, especially for fields with other risk factors.
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Sánchez-Sánchez C, Aranda-Medina M, Rodríguez A, Hernández A, Córdoba MG, Cuadros-Blázquez F, Ruiz-Moyano S. Development of real-time PCR methods for the quantification of Methanoculleus, Methanosarcina and Methanobacterium in anaerobic digestion. J Microbiol Methods 2022; 199:106529. [PMID: 35772572 DOI: 10.1016/j.mimet.2022.106529] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2022] [Revised: 06/18/2022] [Accepted: 06/22/2022] [Indexed: 12/27/2022]
Abstract
Anaerobic digestion is a growing technology to manage organic waste and produce bioenergy. To promote this technology, it is essential to know, at the molecular level, the dynamics of microbial communities, specifically the methanogenic community. In the present study, three primer pairs were selected from seven primer pairs which were designed and tested with different concentrations and conditions to detect Methanosarcina, Methanoculleus and Methanobacterium by real-time PCR based on the SYBR Green System. The functionality of the developed methods was demonstrated by the high linear relationship of the standard curves, and the specificity of each primer was empirically verified by testing DNA isolated from methane-producing and non-producing strains. These assays also exhibited good repeatability and reproducibility, which indicates the robustness of the methods. The described primers were successfully used to investigate the methanogenic communities of 10 samples from an anaerobic co-digestion. The genus Methanosarcina was the dominant methanogenic group.
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Affiliation(s)
- Consolación Sánchez-Sánchez
- Departamento de Física Aplicada, Escuela de Ingenierías Agrarias, Universidad de Extremadura, Avda, de Adolfo Suárez S/n, 06007 Badajoz, Spain
| | - Mercedes Aranda-Medina
- Expresión Gráfica, Escuela de Ingenierías Industriales, Campus Universitario, Avda de Elvas sn, 06006 Badajoz, Spain
| | - Alicia Rodríguez
- Instituto Universitario de Investigación de Recursos Agrarios (INURA), Escuela de Ingenierías Agrarias, Universidad de Extremadura, Avda. Adolfo Suarez, s/n, 06071 Badajoz, Spain.
| | - Alejandro Hernández
- Instituto Universitario de Investigación de Recursos Agrarios (INURA), Escuela de Ingenierías Agrarias, Universidad de Extremadura, Avda. Adolfo Suarez, s/n, 06071 Badajoz, Spain
| | - María G Córdoba
- Instituto Universitario de Investigación de Recursos Agrarios (INURA), Escuela de Ingenierías Agrarias, Universidad de Extremadura, Avda. Adolfo Suarez, s/n, 06071 Badajoz, Spain
| | - Francisco Cuadros-Blázquez
- Departamento de Física Aplicada, Escuela de Ingenierías Agrarias, Universidad de Extremadura, Avda, de Adolfo Suárez S/n, 06007 Badajoz, Spain
| | - Santiago Ruiz-Moyano
- Instituto Universitario de Investigación de Recursos Agrarios (INURA), Escuela de Ingenierías Agrarias, Universidad de Extremadura, Avda. Adolfo Suarez, s/n, 06071 Badajoz, Spain
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Meyer JC, Hennies I, Wessels D, Schwarz K. Survey of mycotoxins in milling oats dedicated for food purposes between 2013 and 2019 by LC-MS/MS. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2021; 38:1934-1947. [PMID: 34330195 DOI: 10.1080/19440049.2021.1950931] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
Although the common oat (Avena sativa L.) is well known for its nutritional benefits, it carries the risk of contamination with mycotoxins due to its susceptibility to the growth of various fungi. The procurement of milling oats for food could become more difficult in the coming harvest years due to limited availability, specific quality requirements and the avoidance of mycotoxin contamination. In light of ongoing discussions in the European Commission on regulatory limits for certain mycotoxins including their modified forms, the purpose of this study was to improve the database on their occurrence in milling oats. In particular, we provide data on the predominantly occurring trichothecenes such as deoxynivalenol and its acetylated and modified derivatives (e.g. 3-acetyl-deoxynivalenol, 15-acetyl-deoxynivalenol and deoxynivalenol-3-glucoside) as well as on T-2 and HT-2 toxins. Additionally, the following mycotoxins were analysed: zearalenone, nivalenol, diacetoxyscirpenol, fusarenon-X, ochratoxin A, sterigmatocystin and aflatoxins B1, B2, G1 and G2. Oat samples, (n = 281) pre-selected for their physical properties and DON-content to be less than 1750 µg/kg from 11 European provenances, were analysed for 16 different mycotoxins by LC-MS/MS. Samples were collected from the years of harvest 2013 to 2019. High incidence rates above the limit of quantification of either 5 µg/kg for T-2 and HT-2 toxins or 10 µg/kg for deoxynivalenol were found (98.1, 94.7 and 91.4%, respectively). The mean concentration of the sum of T-2 and HT-2 toxins was 149 µg/kg. The highest level was found in an Irish sample containing 1290 µg/kg for the sum of T-2 and HT-2 toxins. The mean deoxynivalenol concentration was 289 µg/kg, while the highest level was 1414 µg/kg in a Swedish sample. Besides nivalenol other mycotoxins were only present in trace concentrations or not detected.
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Affiliation(s)
- Jens Chr Meyer
- H. & J. Brüggen KG, Lübeck, Germany.,Division of Food Technology, Institute of Human Nutrition and Food Science, Kiel University, Kiel, Germany
| | | | | | - Karin Schwarz
- Division of Food Technology, Institute of Human Nutrition and Food Science, Kiel University, Kiel, Germany
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Genome-wide Association Study and Genomic Prediction for Fusarium graminearum Resistance Traits in Nordic Oat (Avena sativa L.). AGRONOMY-BASEL 2020. [DOI: 10.3390/agronomy10020174] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Fusarium head blight (FHB) and the accumulation of deoxynivalenol (DON) mycotoxin induced by Fusarium graminearum and other Fusarium fungi cause serious problems for oat production in the Nordic region (Scandinavia, Fennoscandia). Besides toxin accumulation, FHB causes reduction in grain yield and in germination capacity. Here, genomic approaches for accelerating breeding efforts against FHB and DON accumulation were studied. Resistance-related traits included DON content, F. graminearum DNA (relative to oat DNA) content (qFUSG) measured with real-time quantitative polymerase chain reaction (PCR), Fusarium-infected kernels (FIKs) and germination capacity (GC). Plant germplasm used in the study consisted of mostly breeding lines, and additionally, a few cultivars and exotic accessions. Genome-wide association study (GWAS) and genomic prediction, enabling genomic selection (GS) on the resistance-related and collected agronomic traits, were performed. Considerable genetic correlations between resistance-related traits were observed: DON content had a positive correlation (0.60) with qFUSG and a negative correlation (−0.63) with germination capacity. With the material in hand, we were not able to find any significant associations between markers and resistance-related traits. On the other hand, in genomic prediction, some resistance-related traits showed favorable accuracy in fivefold cross-validation (GC = 0.57). Genomic prediction is a promising method and genomic estimated breeding values (GEBVs) generated for germination capacity are applicable in oat breeding programs.
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Gonda M, Garmendia G, Rufo C, Peláez ÁL, Wisniewski M, Droby S, Vero S. Biocontrol of Aspergillus flavus in Ensiled Sorghum by Water Kefir Microorganisms. Microorganisms 2019; 7:microorganisms7080253. [PMID: 31405185 PMCID: PMC6722955 DOI: 10.3390/microorganisms7080253] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2019] [Revised: 08/06/2019] [Accepted: 08/07/2019] [Indexed: 11/17/2022] Open
Abstract
The capacity of microorganisms from water kefir (WK) to control Aspergillus flavus growth during the aerobic phase of ensiled sorghum grains was determined. Sorghum inoculated with A. flavus was treated with filter-sterilized and non-sterilized water kefir, ensiled, and incubated 7 days at 25 °C. A. flavus growth was quantified by qPCR after incubation. Mold growth was inhibited in the presence of water kefir while no inhibition was observed when filter-sterilized water kefir was applied, demonstrating the relevant role of the microorganisms in the kefir water in the biocontrol process. Fungal and bacterial diversity in treated sorghum mini-silos was analyzed by high-throughput sequencing. Firmicutes was the predominant bacterial phyla and Lactobacillus represented the most abundant genus, while Ascomycota was the predominant fungal phyla with Saccharomyces and Pichia as the major genera. Bacterial and yeast counts before and after incubation indicated that the microbial community obtained from WK was able to grow in the sorghum mini-silos in the presence of A. flavus. Results of the present work indicate that the use of a mixed inoculum of microorganisms present in WK may represent an alternative management practice to avoid the growth of A. flavus in ensiled sorghum grains and the concomitant contamination with aflatoxins.
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Affiliation(s)
- Mariana Gonda
- Área Microbiología, Departamento de Biociencias, Facultad de Química, Universidad de la República, Gral Flores 2124, Montevideo 11800, Uruguay
| | - Gabriela Garmendia
- Área Microbiología, Departamento de Biociencias, Facultad de Química, Universidad de la República, Gral Flores 2124, Montevideo 11800, Uruguay
| | - Caterina Rufo
- Instituto Polo Tecnológico, Facultad de Química, Universidad de la República, By Pass Ruta 8 s/n, Pando, 8 Canelones 90000, Uruguay
| | - Ángela León Peláez
- Cátedra de Microbiología, Facultad de Ciencias Exactas, Universidad Nacional de La Plata, Calle 47 y 115, La Plata 1900, Argentina
| | - Michael Wisniewski
- Appalachian Fruit Research Station, Agricultural Research Service, United States Department of Agriculture, Wiltshire Road Kearneysville, WV 25443, USA
| | - Samir Droby
- Agricultural Research Organization (ARO), Department of Postharvest Science, The Volcani Center, Rishon LeZion 7505101, Israel
| | - Silvana Vero
- Área Microbiología, Departamento de Biociencias, Facultad de Química, Universidad de la República, Gral Flores 2124, Montevideo 11800, Uruguay.
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Analysis of Toxigenic Fusarium Species Associated with Wheat Grain from Three Regions of Russia: Volga, Ural, and West Siberia. Toxins (Basel) 2019; 11:toxins11050252. [PMID: 31060276 PMCID: PMC6563154 DOI: 10.3390/toxins11050252] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2019] [Revised: 04/25/2019] [Accepted: 05/02/2019] [Indexed: 01/22/2023] Open
Abstract
Wheat grains collected in three regions of Russia—Volga, Ural, and West Siberia—were analyzed for triangulation of methods in analysis of toxigenic Fusarium species. The presence of fungi and quantitative content of their biomass were detected by using various analytical methods, including a mycological and immunochemical methods, and quantitative PCR. Additionally, an enzyme-linked immunosorbent assay and high-performance liquid chromatography with tandem mass spectrometry were applied for determination of mycotoxins. Regional differences were found regarding the contamination of wheat grain by Fusarium fungi and their toxins. The most important observation was the detection of F. graminearum in the Ural and West Siberian regions, where this pathogen had not been found previously. A maximum damaged grains by F. graminearum and F. sporotrichioides was found in the grain samples from West Siberia. The DNA of F. graminearum was detected in 19.2% and DNA of F. sporotrichioides was found in 84.1% of the analyzed grain samples. The amount of Fusarium antigens in the grain samples from the West Siberian region was 7–8 times higher than in the grain samples from the other two regions. Significant contamination of the grain with deoxynivalenol and T-2/HT-2 toxins (maximum contents were 2239 ppb and 199 ppb, respectively) was detected in the West Siberian region.
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Gerin D, Pollastro S, Raguseo C, De Miccolis Angelini RM, Faretra F. A Ready-to-Use Single- and Duplex-TaqMan-qPCR Assay to Detect and Quantify the Biocontrol Agents Trichoderma asperellum and Trichoderma gamsii. Front Microbiol 2018; 9:2073. [PMID: 30233545 PMCID: PMC6127317 DOI: 10.3389/fmicb.2018.02073] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2018] [Accepted: 08/14/2018] [Indexed: 11/13/2022] Open
Abstract
Trichoderma asperellum strain icc012 and Trichoderma gamsii strain icc080, the microbial active ingredients of RemedierTM (ISAGRO, Novara, Italy), are biocontrol agents (BCAs) employable for crop protection against a wide range of fungal pathogens, including soil-borne pathogens and fungi involved in grapevine trunk disease. In this study, single and duplex real-time quantitative PCR (qPCR) methods to detect and quantify T. asperellum and T. gamsii were developed. Primers/probe sets were designed on the T. asperellum and T. gamsii rpb2 genes and tested for specificity on a panel of microorganisms commonly associated with grape wood and soil. No differences were observed comparing single- and duplex-qPCR assays on different BCAs, 1 pg of target DNA was detected approximately at Cq = 34. R2-values and the efficiency were always equal to 0.99 and >80%, respectively. The detection limit of the duplex-qPCR assay on artificially inoculated samples was 2 × 103 and 4 × 104 conidia g-1 of grape wood tissue and soil, respectively. The methods will be useful to better schedule BCA application in the field and in grapevine nurseries, as well as for investigating the dynamic of BCA populations.
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Affiliation(s)
- Donato Gerin
- Department of Soil, Plant and Food Sciences, University of Bari Aldo Moro, Bari, Italy
| | - Stefania Pollastro
- Department of Soil, Plant and Food Sciences, University of Bari Aldo Moro, Bari, Italy
- Public Laboratory of Research SELGE Network No. 14, Bari, Italy
| | - Celeste Raguseo
- Department of Soil, Plant and Food Sciences, University of Bari Aldo Moro, Bari, Italy
| | - Rita M. De Miccolis Angelini
- Department of Soil, Plant and Food Sciences, University of Bari Aldo Moro, Bari, Italy
- Public Laboratory of Research SELGE Network No. 14, Bari, Italy
| | - Francesco Faretra
- Department of Soil, Plant and Food Sciences, University of Bari Aldo Moro, Bari, Italy
- Public Laboratory of Research SELGE Network No. 14, Bari, Italy
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DNA extraction on bio-chip: history and preeminence over conventional and solid-phase extraction methods. Appl Microbiol Biotechnol 2017; 101:8077-8088. [PMID: 28942548 DOI: 10.1007/s00253-017-8493-0] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2017] [Revised: 05/11/2017] [Accepted: 08/30/2017] [Indexed: 12/12/2022]
Abstract
This review covers a developmental progression on early to modern taxonomy at cellular level following the advent of electron microscopy and the advancement in deoxyribonucleic acid (DNA) extraction for expatiation of biological classification at DNA level. Here, we discuss the fundamental values of conventional chemical methods of DNA extraction using liquid/liquid extraction (LLE) followed by development of solid-phase extraction (SPE) methods, as well as recent advances in microfluidics device-based system for DNA extraction on-chip. We also discuss the importance of DNA extraction as well as the advantages over conventional chemical methods, and how Lab-on-a-Chip (LOC) system plays a crucial role for the future achievements.
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12
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Development of Reverse Transcription Quantitative Real-Time PCR (RT-qPCR) Assays for Monitoring Saccharomycopsis fibuligera, Rhizopus oryzae, and Monascus purpureus During the Traditional Brewing of Hong Qu Glutinous Rice Wine. FOOD ANAL METHOD 2017. [DOI: 10.1007/s12161-016-0565-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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13
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Carvalho CR, Wedge DE, Cantrell CL, Silva‐Hughes AF, Pan Z, Moraes RM, Madoxx VL, Rosa LH. Molecular Phylogeny, Diversity, and Bioprospecting of Endophytic Fungi Associated with wild Ethnomedicinal North American Plant
Echinacea purpurea
(Asteraceae). Chem Biodivers 2016; 13:918-30. [DOI: 10.1002/cbdv.201500299] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Accepted: 02/04/2016] [Indexed: 11/10/2022]
Affiliation(s)
- Camila R. Carvalho
- Department of Microbiology Institute of Biological Science Federal University of Minas Gerais P.O. Box 486 Belo Horizonte MG CEP 31270‐901 Brazil
| | - David E. Wedge
- Natural Products Utilization Research Unit United States Department of Agriculture, Agricultural Research Service University Oxford MS 38677 USA
| | - Charles L. Cantrell
- Natural Products Utilization Research Unit United States Department of Agriculture, Agricultural Research Service University Oxford MS 38677 USA
| | - Alice F. Silva‐Hughes
- Department of Microbiology Institute of Biological Science Federal University of Minas Gerais P.O. Box 486 Belo Horizonte MG CEP 31270‐901 Brazil
| | - Zhiqiang Pan
- Natural Products Utilization Research Unit United States Department of Agriculture, Agricultural Research Service University Oxford MS 38677 USA
| | - Rita M. Moraes
- National Center for Natural Products Research School of Pharmacy The University of Mississippi University Oxford MS 38677 USA
- Center for Water and Wetland Resources The University of Mississippi Abbeville MS 38601 USA
| | - Victor L. Madoxx
- Geosystems Research Institute Mississippi State University Starkville MS 39762 USA
| | - Luiz H. Rosa
- Department of Microbiology Institute of Biological Science Federal University of Minas Gerais P.O. Box 486 Belo Horizonte MG CEP 31270‐901 Brazil
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14
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Hofgaard I, Aamot H, Torp T, Jestoi M, Lattanzio V, Klemsdal S, Waalwijk C, Van der Lee T, Brodal G. Associations between Fusarium species and mycotoxins in oats and spring wheat from farmers’ fields in Norway over a six-year period. WORLD MYCOTOXIN J 2016. [DOI: 10.3920/wmj2015.2003] [Citation(s) in RCA: 65] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
During the last ten years, Norwegian cereal grain industry has experienced large challenges due to Fusarium spp. and Fusarium mycotoxin contamination of small-grained cereals. To prevent severely contaminated grain lots from entering the grain supply chain, it is important to establish surveys for the most prevalent Fusarium spp. and mycotoxins. The objective of our study was to quantify and calculate the associations between Fusarium spp. and mycotoxins prevalent in oats and spring wheat. In a 6-year period from 2004-2009, 178 grain samples of spring wheat and 289 samples of oats were collected from farmers’ fields in South East Norway. The grains were analysed for 18 different Fusarium-mycotoxins by liquid chromatography – mass spectrometry. Generally, the median mycotoxin levels were higher than reported in Norwegian studies covering previous years. The DNA content of Fusarium graminearum, Fusarium culmorum, Fusarium langsethiae, Fusarium poae and Fusarium avenaceum were determined by quantitative PCR. We identified F. graminearum as the main deoxynivalenol (DON) producer in oats and spring wheat, and F. langsethiae as the main HT-2 and T-2-toxins producer in oats. No association was observed between quantity of F. graminearum DNA and quantity of F. langsethiae DNA nor for their respective mycotoxins, in oats. F. avenaceum was one of the most prevalent Fusarium species in both oats and spring wheat. The following ranking of Fusarium species was made based on the DNA concentrations of the Fusarium spp. analysed in this survey (from high to low): F. graminearum = F. langsethiae = F. avenaceum > F. poae > F. culmorum (oats); F. graminearum = F. avenaceum > F. culmorum > F. poae = F. langsethiae (spring wheat). Our results are in agreement with recently published data indicating a shift in the relative prevalence of Fusarium species towards more F. graminearum versus F. culmorum in Norwegian oats and spring wheat.
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Affiliation(s)
- I.S. Hofgaard
- NIBIO, Norwegian Institute of Bioeconomy Research, P.O. Box 115, 1431 Ås, Norway
| | - H.U. Aamot
- NIBIO, Norwegian Institute of Bioeconomy Research, P.O. Box 115, 1431 Ås, Norway
| | - T. Torp
- NIBIO, Norwegian Institute of Bioeconomy Research, P.O. Box 115, 1431 Ås, Norway
| | - M. Jestoi
- Finnish Food Safety Authority, Evira, Mustialankatu 3, 00790 Helsinki, Finland
| | - V.M.T. Lattanzio
- Institute of Sciences of Food Production (ISPA), National Research Council of Italy (CNR), Via Amendola 122/O, 70126 Bari, Italy
| | - S.S. Klemsdal
- NIBIO, Norwegian Institute of Bioeconomy Research, P.O. Box 115, 1431 Ås, Norway
| | - C. Waalwijk
- Plant Research International, Business Unit Biointeractions and Plant Health, P.O. Box 16, 6700 AA Wageningen, the Netherlands
| | - T. Van der Lee
- Plant Research International, Business Unit Biointeractions and Plant Health, P.O. Box 16, 6700 AA Wageningen, the Netherlands
| | - G. Brodal
- NIBIO, Norwegian Institute of Bioeconomy Research, P.O. Box 115, 1431 Ås, Norway
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15
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Four-locus phylogeny of Fusarium avenaceum and related species and their species-specific identification based on partial phosphate permease gene sequences. Int J Food Microbiol 2016; 225:27-37. [DOI: 10.1016/j.ijfoodmicro.2016.02.012] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2015] [Revised: 02/01/2016] [Accepted: 02/15/2016] [Indexed: 11/20/2022]
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16
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Hietaniemi V, Rämö S, Yli-Mattila T, Jestoi M, Peltonen S, Kartio M, Sieviläinen E, Koivisto T, Parikka P. Updated survey of Fusarium species and toxins in Finnish cereal grains. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2016; 33:831-48. [PMID: 27002810 DOI: 10.1080/19440049.2016.1162112] [Citation(s) in RCA: 60] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Abstract
The aim of the project was to produce updated information during 2005-14 on the Fusarium species found in Finnish cereal grains, and the toxins produced by them, as the last comprehensive survey study of Fusarium species and their toxins in Finland was carried out at the turn of the 1960s and the 1970s. Another aim was to use the latest molecular and chemical methods to investigate the occurrence and correlation of Fusarium species and their mycotoxins in Finland. The most common Fusarium species found in Finland in the FinMyco project 2005 and 2006 were F. avenaceum, F. culmorum, F. graminearum, F. poae, F. sporotrichioides and F. langsethiae. F. avenaceum was the most dominant species in barley, spring wheat and oat samples. The occurrence of F. culmorum and F. graminearum was high in oats and barley. Infection by Fusarium fungi was the lowest in winter cereal grains. The incidence of Fusarium species in 2005 was much higher than in 2006 due to weather conditions. F. langsethiae has become much more common in Finland since 2001. F. graminearum has also risen in the order of importance. A highly significant correlation was found between Fusarium graminearum DNA and deoxynivalenol (DON) levels in Finnish oats, barley and wheat. When comparing the FinMyco data in 2005-06 with the results of the Finnish safety monitoring programme for 2005-14, spring cereals were noted as being more susceptible to infection by Fusarium fungi and the formation of toxins. The contents of T-2 and HT-2 toxins and the frequency of exceptionally high DON concentrations all increased in Finland during 2005-14. Beauvericin (BEA), enniatins (ENNs) and moniliformin (MON) were also very common contaminants of Finnish grains in 2005-06. Climate change is leading to warmer weather, and this may indicate more changes in Finnish Fusarium mycobiota and toxin contents and profiles in the near future.
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Affiliation(s)
- Veli Hietaniemi
- a MTT Agrifood Research Finland, Services Unit , FI-31600 Jokioinen , Finland
| | - Sari Rämö
- a MTT Agrifood Research Finland, Services Unit , FI-31600 Jokioinen , Finland
| | - Tapani Yli-Mattila
- b Molecular Plant Biology , Department of Biochemistry, University of Turku , FI-20014 Turku , Finland
| | - Marika Jestoi
- c Finnish Food Safety Authority Evira , Product Safety Unit , FI-00790 Helsinki , Finland
| | - Sari Peltonen
- d Association of ProAgria Centres, Crop, Horticulture, Pig and Poultry Business , FI-01301 Vantaa , Finland
| | - Mirja Kartio
- e Finnish Food Safety Authority Evira, Plant Analysis Laboratory Unit , FI-00790 Helsinki , Finland
| | - Elina Sieviläinen
- e Finnish Food Safety Authority Evira, Plant Analysis Laboratory Unit , FI-00790 Helsinki , Finland
| | - Tauno Koivisto
- a MTT Agrifood Research Finland, Services Unit , FI-31600 Jokioinen , Finland
| | - Päivi Parikka
- f MTT Agrifood Research Finland, Plant Production Research , FI-31600 Jokioinen , Finland
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17
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Wang D, Yamahara KM, Cao Y, Boehm AB. Absolute Quantification of Enterococcal 23S rRNA Gene Using Digital PCR. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2016; 50:3399-408. [PMID: 26903207 DOI: 10.1021/acs.est.5b05747] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
We evaluated the ability of chip-based digital PCR (dPCR) to quantify enterococci, the fecal indicator recommended by the United States Environmental Protection Agency (USEPA) for water-quality monitoring. dPCR uses Poisson statistics to estimate the number of DNA fragments in a sample with a specific sequence. Underestimation may occur when a gene is redundantly encoded in the genome and multiple copies of that gene are on one DNA fragment. When genomic DNA (gDNA) was extracted using two commercial DNA extraction kits, we confirmed that dPCR could discern individual copies of the redundant 23s rRNA gene in the enterococcal genome. dPCR quantification was accurate when compared to the nominal concentration inferred from fluorometer measurements (linear regression slope = 0.98, intercept = 0.03, R(2) = 0.99, and p value <0.0001). dPCR quantification was also consistent with quantitative PCR (qPCR) measurements as well as cell counts for BioBall reference standard and 24 environmental water samples. qPCR and dPCR quantification of enterococci in the 24 environmental samples were significantly correlated (linear regression slope =1.08, R(2) of 0.96, and p value <0.0001); the group mean of the qPCR measurements was 0.19 log units higher than that of the dPCR measurements. At environmentally relevant concentrations, dPCR quantification was more precise (i.e., had narrower 95% confidence intervals than qPCR quantification). We observed that humic acid caused a similar level of inhibition in both dPCR and qPCR, but calcium inhibited dPCR to a lesser degree than qPCR. Inhibition of dPCR was partially relieved when the number of thermal cycles was increased. Based on these results, we conclude that dPCR is a viable option for enumerating enterococci in ambient water.
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Affiliation(s)
- Dan Wang
- Environmental and Water Studies, Department of Civil and Environmental Engineering, Stanford University , Stanford, California 94305, United States
| | - Kevan M Yamahara
- Environmental and Water Studies, Department of Civil and Environmental Engineering, Stanford University , Stanford, California 94305, United States
| | - Yiping Cao
- Southern California Coastal Water Research Project Authority , Costa Mesa, California 92626, United States
| | - Alexandria B Boehm
- Environmental and Water Studies, Department of Civil and Environmental Engineering, Stanford University , Stanford, California 94305, United States
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18
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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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19
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Czaban J, Wróblewska B, Sułek A, Mikos M, Boguszewska E, Podolska G, Nieróbca A. Colonisation of winter wheat grain by Fusarium spp. and mycotoxin content as dependent on a wheat variety, crop rotation, a crop management system and weather conditions. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2015; 32:874-910. [PMID: 25705931 DOI: 10.1080/19440049.2015.1019939] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Abstract
Field experiments were conducted during three consecutive growing seasons (2007/08, 2008/09 and 2009/10) with four winter wheat (Triticum aestivum L.) cultivars - 'Bogatka', 'Kris', 'Satyna' and 'Tonacja' - grown on fields with a three-field crop rotation (winter triticale, spring barley, winter wheat) and in a four-field crop rotation experiment (spring wheat, spring cereals, winter rapeseed, winter wheat). After the harvest, kernels were surface disinfected with 2% NaOCl and then analysed for the internal infection by different species of Fusarium. Fusaria were isolated on Czapek-Dox iprodione dichloran agar medium and identified on the basis of macro- and micro-morphology on potato dextrose agar and synthetic nutrient agar media. The total wheat grain infection by Fusarium depended mainly on relative humidity (RH) and a rainfall during the flowering stage. Intensive rainfall and high RH in 2009 and 2010 in the period meant the proportions of infected kernels by the fungi were much higher than those in 2008 (lack of precipitation during anthesis). Weather conditions during the post-anthesis period changed the species composition of Fusarium communities internally colonising winter wheat grain. The cultivars significantly varied in the proportion of infected kernels by Fusarium spp. The growing season and type of crop rotation had a distinct effect on species composition of Fusarium communities colonising the grain inside. A trend of a higher percentage of the colonised kernels by the fungi in the grain from the systems using more fertilisers and pesticides as well as the buried straw could be perceived. The most frequent species in the grain were F. avenaceum, F. tricinctum and F. poae in 2008, and F. avenaceum, F. graminearum, F. tricinctum and F. poae in 2009 and 2010. The contents of deoxynivalenol and zearalenon in the grain were correlated with the percentage of kernels colonised by F. graminearum and were the highest in 2009 in the grain from the four-field crop rotation. The content of T-2/HT-2 toxins was the highest in 2010 in grain from the three-field crop rotation and it was correlated with the isolation frequency of F. langsethiae.
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Affiliation(s)
- Janusz Czaban
- a Department of Agricultural Microbiology , Institute of Soil Science and Plant Cultivation - State Research Institute , Puławy , Poland
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20
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Silva-Hughes AF, Wedge DE, Cantrell CL, Carvalho CR, Pan Z, Moraes RM, Madoxx VL, Rosa LH. Diversity and antifungal activity of the endophytic fungi associated with the native medicinal cactus Opuntia humifusa (Cactaceae) from the United States. Microbiol Res 2015; 175:67-77. [PMID: 25851725 DOI: 10.1016/j.micres.2015.03.007] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2015] [Revised: 03/08/2015] [Accepted: 03/11/2015] [Indexed: 11/24/2022]
Abstract
The endophytic fungal community associated with the native cactus Opuntia humifusa in the United States was investigated and its potential for providing antifungal compounds. A hundred-eight endophytic fungal isolates were obtained and identified by molecular methods into 17 different taxa of the genera Alternaria, Aureobasidium, Biscogniauxia, Cladosporium, Cryptococcus, Curvularia, Diaporthe, Epicoccum, Paraconiothyrium, Pestalotiopsis and Phoma. The most frequent species associated with O. humifusa were Alternaria sp. 3, Aureobasidium pullulans and Diaporthe sp. The fungal community of O. humifusa had a high richness and diversity; additionally, the species richness obtained indicates that the sample effort was enough to recover the diversity pattern obtained. Six extracts of endophytes showed antifungal properties and (1)H NMR analyses of the extracts of Alternaria sp. 5 Ohu 8B2, Alternaria sp. 3 Ohu 30A, Cladosporium funiculosum Ohu 17C1 and Paraconiothyrium sp. Ohu 17A indicated the presence of functional groups associated with unsaturated fatty-acid olefinic protons and fatty acid methylene and methyl protons. GC-FID analysis of these extracts confirmed the presence of a mixture of different fatty acids. The (1)H NMR analyses of Biscogniauxia mediterranea Ohu 19B extracts showed the presence of aromatic compounds. From the extract of B. mediterranea we isolated the compound 5-methylmellein that displayed moderate antifungal activity against the phytopathogenic fungi Phomopsis obscurans. Our results suggest that native medicinal cacti of the United States can live symbiotically with rich and diverse endophytic communities and may be a source of bioactive molecules, including those able to inhibit or control plant disease pathogens.
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Affiliation(s)
- Alice F Silva-Hughes
- Departamento de Microbiologia, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - David E Wedge
- Natural Products Utilization Research Unit, Agricultural Research Service, United States Department of Agriculture, University, MS, USA.
| | - Charles L Cantrell
- Natural Products Utilization Research Unit, Agricultural Research Service, United States Department of Agriculture, University, MS, USA
| | - Camila R Carvalho
- Departamento de Microbiologia, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Zhiqiang Pan
- Natural Products Utilization Research Unit, Agricultural Research Service, United States Department of Agriculture, University, MS, USA
| | - Rita M Moraes
- National Center for Natural Products Research, School of Pharmacy, University of Mississippi, University, MS, USA; Center for Water and Wetland Resources, University of Mississippi, Abbeville, MS, USA
| | - Victor L Madoxx
- Geosystems Research Institute, Mississippi State University, MS, USA
| | - Luiz H Rosa
- Departamento de Microbiologia, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil.
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21
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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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22
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Häggblom P, Nordkvist E. Deoxynivalenol, zearalenone, and Fusarium graminearum contamination of cereal straw; field distribution; and sampling of big bales. Mycotoxin Res 2015; 31:101-7. [PMID: 25665688 PMCID: PMC4412695 DOI: 10.1007/s12550-015-0220-z] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2014] [Revised: 01/28/2015] [Accepted: 01/29/2015] [Indexed: 11/28/2022]
Abstract
Sampling of straw bales from wheat, barley, and oats was carried out after harvest showing large variations in deoxynivalenol (DON) and zearalenone (ZEN) levels. In the wheat field, DON was detected in all straw samples with an average DON concentration of 976 μg/kg and a median of 525 μg/kg, while in four bales, the concentrations were above 3000 μg/kg. For ZEN, the concentrations were more uniform with an average concentration of 11 μg/kg. The barley straw bales were all positive for DON with an average concentration of 449 μg/kg and three bales above 800 μg/kg. In oat straw, the average DON concentration was 6719 μg/kg with the lowest concentration at 2614 μg/kg and eight samples above 8000 μg/kg. ZEN contamination was detected in all bales with an average concentration of 53 μg/kg with the highest concentration at 219 μg/kg. Oat bales from another field showed an average concentration of 16,382 μg/kg. ZEN concentrations in the oat bales were on average 153 μg/kg with a maximum at 284 μg/kg. Levels of Fusarium graminearum DNA were higher in oat straw (max 6444 pg DNA/mg straw) compared to straw from wheat or barley. The significance of mycotoxin exposure from straw should not be neglected particularly in years when high levels of DON and ZEN are also detected in the feed grain. With a limited number of samples preferably using a sampling probe, it is possible to distinguish lots of straw that should not be used as bedding material for pigs.
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Affiliation(s)
- P Häggblom
- Department of Chemistry, Environment and Feed Hygiene, National Veterinary Institute, SE-751 89, Uppsala, Sweden,
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23
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Lozano-Ojalvo D, Rodríguez A, Cordero M, Bernáldez V, Reyes-Prieto M, Córdoba JJ. Characterisation and detection of spoilage mould responsible for black spot in dry-cured fermented sausages. Meat Sci 2015; 100:283-90. [DOI: 10.1016/j.meatsci.2014.10.003] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2014] [Revised: 09/23/2014] [Accepted: 10/05/2014] [Indexed: 10/24/2022]
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24
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Liu CL, Wang HY, Wu ZY, Zhang WX, Fan A. Development of a real-time PCR for quantification of the family Syntrophomonadaceae in pit mud from Chinese Luzhou-flavour liquor distilleries. JOURNAL OF THE INSTITUTE OF BREWING 2015. [DOI: 10.1002/jib.201] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Chao-Lan Liu
- College of Light Industry, Textile and Food Engineering; Sichuan University; Chengdu 610065 China
- Chengdu University; Chengdu; 610106 China
| | - Hai-Ying Wang
- College of Light Industry, Textile and Food Engineering; Sichuan University; Chengdu 610065 China
| | - Zheng-Yun Wu
- College of Light Industry, Textile and Food Engineering; Sichuan University; Chengdu 610065 China
| | - Wen-Xue Zhang
- College of Light Industry, Textile and Food Engineering; Sichuan University; Chengdu 610065 China
- School of Liquor-Making Engineering; Sichuan University Jinjiang College; Meishan 620860 China
| | - Ao Fan
- Sichuan Swellfun Co. Ltd; Chengdu 610036 China
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25
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Cordero M, Córdoba JJ, Bernáldez V, Rodríguez M, Rodríguez A. Quantification of Penicillium nalgiovense on Dry-Cured Sausage ‘Salchichón’ Using a SYBR Green-Based Real-Time PCR. FOOD ANAL METHOD 2015. [DOI: 10.1007/s12161-014-0078-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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26
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Iheanacho HE, Njobeh PB, Dutton FM, Steenkamp PA, Steenkamp L, Mthombeni JQ, Daru BH, Makun AH. Morphological and molecular identification of filamentous Aspergillus flavus and Aspergillus parasiticus isolated from compound feeds in South Africa. Food Microbiol 2014; 44:180-4. [DOI: 10.1016/j.fm.2014.05.019] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2013] [Revised: 04/28/2014] [Accepted: 05/25/2014] [Indexed: 11/29/2022]
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27
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Liang JM, Xayamongkhon H, Broz K, Dong Y, McCormick SP, Abramova S, Ward TJ, Ma ZH, Kistler HC. Temporal dynamics and population genetic structure of Fusarium graminearum in the upper Midwestern United States. Fungal Genet Biol 2014; 73:83-92. [PMID: 25312860 DOI: 10.1016/j.fgb.2014.10.002] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2014] [Revised: 09/25/2014] [Accepted: 10/01/2014] [Indexed: 11/30/2022]
Abstract
Fusarium graminearum sensu stricto causes Fusarium head blight (FHB) in wheat and barley, and contaminates grains with several trichothecene mycotoxins, causing destructive yield losses and economic impact in the United States. Recently, a F. graminearum strain collected from Minnesota (MN) was determined to produce a novel trichothecene toxin, called NX-2. In order to determine the spatial and temporal dynamics of NX-2 producing strains in MN, North Dakota (ND) and South Dakota (SD), a total of 463 F. graminearum strains were collected from three sampling periods, 1999-2000, 2006-2007 and 2011-2013. A PCR-RFLP based diagnostic test was developed and validated for NX-2 producing strains based on polymorphisms in the Tri1 gene. Trichothecene biosynthesis gene (Tri gene)-based polymerase chain reaction (PCR) assays and ten PCR-restriction fragment length polymorphism (RFLP) markers were used to genotype all strains. NX-2 strains were detected in each sampling period but with a very low overall frequency (2.8%) and were mainly collected near the borders of MN, ND and SD. Strains with the 3ADON chemotype were relatively infrequent in 1999-2000 (4.5%) but increased to 29.4% in 2006-2007 and 17.2% in 2011-2013. The distribution of 3ADON producing strains also expanded from a few border counties between ND and MN in 1999-2000, southward toward the border between SD and MN in 2006-2007 and westward in 2011-2013. Genetic differentiation between 2006-2007 and 2011-2013 populations (3%) was much lower than that between 1999-2000 and 2006-2007 (22%) or 1999-2000 and 2011-2013 (20%) suggesting that most change to population genetic structure of F. graminearum occurred between 1999-2000 and 2006-2007. This change was associated with the emergence of a new population consisting largely of individuals with a 3ADON chemotype. A Bayesian clustering analysis suggested that NX-2 chemotype strains are part of a previously described Upper Midwestern population. However, these analyses also suggest that the NX-2 isolates could represent a distinct population, but that interpretations of population assignment are influenced by the small number of NX-2 strains available for analysis.
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Affiliation(s)
- J M Liang
- Department of Plant Pathology, China Agricultural University, Beijing 100193, PR China; USDA-ARS, Cereal Disease Laboratory, University of Minnesota, St. Paul 55108, United States
| | - H Xayamongkhon
- Department of Plant Pathology, University of Minnesota, St. Paul 55108, United States
| | - K Broz
- USDA-ARS, Cereal Disease Laboratory, University of Minnesota, St. Paul 55108, United States
| | - Y Dong
- Department of Plant Pathology, University of Minnesota, St. Paul 55108, United States
| | - S P McCormick
- USDA-ARS, 1815 N. University St., Peoria, IL 61604, United States
| | - S Abramova
- Russian Research Institute of Phytopathology (VNIIF), 143050 Bolshie Vyazyomy, Russia
| | - T J Ward
- USDA-ARS, 1815 N. University St., Peoria, IL 61604, United States
| | - Z H Ma
- Department of Plant Pathology, China Agricultural University, Beijing 100193, PR China
| | - H C Kistler
- Department of Plant Pathology, University of Minnesota, St. Paul 55108, United States; USDA-ARS, Cereal Disease Laboratory, University of Minnesota, St. Paul 55108, United States
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Arquiza JMRA, Hunter J. The use of real-time PCR to study Penicillium chrysogenum growth kinetics on solid food at different water activities. Int J Food Microbiol 2014; 187:50-6. [PMID: 25036772 DOI: 10.1016/j.ijfoodmicro.2014.06.002] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2013] [Revised: 05/17/2014] [Accepted: 06/05/2014] [Indexed: 11/30/2022]
Abstract
Fungal growth on solid foods can make them unfit for human consumption, but certain specialty foods require fungi to produce their characteristic properties. In either case, a reliable way of measuring biomass is needed to study how various factors (e.g. water activity) affect fungal growth rates on these substrates. Biochemical markers such as chitin, glucosamine or ergosterol have been used to estimate fungal growth, but they cannot distinguish between individual species in mixed culture. In this study, a real-time polymerase chain reaction (rt-PCR) protocol specific for a target fungal species was used to quantify its DNA while growing on solid food. The measured amount of DNA was then related to the biomass present using an experimentally determined DNA-to-biomass ratio. The highly sensitive rt-PCR biomass assay was found to have a wide range, able to quantify the target DNA within a six orders-of-magnitude difference. The method was used to monitor germination and growth of Penicillium chrysogenum spores on a model porous food (cooked wheat flour) at 25°C and different water activities of 0.973, 0.936, and 0.843. No growth was observed at 0.843, but lag, exponential and stationary phases were identified in the growth curves for the higher water activities. The calculated specific growth rates (μ) during the exponential phase were almost identical, at 0.075/h and 0.076/h for aw=0.973 and 0.936, respectively. The specificity of the method was demonstrated by measuring the biomass of P. chrysogenum while growing together with Aspergillus niger on solid media at aw=0.973.
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Affiliation(s)
- J M R Apollo Arquiza
- Department of Biological & Environmental Engineering, Cornell University, Ithaca, NY, USA
| | - Jean Hunter
- Department of Biological & Environmental Engineering, Cornell University, Ithaca, NY, USA.
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29
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Nielsen LK, Cook DJ, Edwards SG, Ray RV. The prevalence and impact of Fusarium head blight pathogens and mycotoxins on malting barley quality in UK. Int J Food Microbiol 2014; 179:38-49. [PMID: 24727381 PMCID: PMC4018669 DOI: 10.1016/j.ijfoodmicro.2014.03.023] [Citation(s) in RCA: 63] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2013] [Revised: 03/10/2014] [Accepted: 03/18/2014] [Indexed: 11/02/2022]
Abstract
Fusarium head blight (FHB) caused by Fusarium and Microdochium species can significantly affect the yield of barley grain as well as the quality and safety of malt and beer. The present study provides new knowledge on the impacts of the FHB pathogen complex on the malting and brewing quality parameters of naturally infected barley. Quantitative real-time PCR and liquid chromatography double mass spectrometry were used to quantify the predominant FHB pathogens and Fusarium mycotoxins, respectively, in commercially grown UK malting barley samples collected between 2007 and 2011. The predominant Fusarium species identified across the years were F. poae, F. tricinctum and F. avenaceum. Microdochium majus was the predominant Microdochium species in 2007, 2008, 2010 and 2011 whilst Microdochium nivale predominated in 2009. Deoxynivalenol and zearalenone quantified in samples collected between 2007 and 2009 were associated with F. graminearum and F. culmorum, whilst HT-2 and T-2, and nivalenol in samples collected between 2010 and 2011 correlated positively with F. langsethiae and F. poae, respectively. Analysis of the regional distribution and yearly variation in samples from 2010 to 2011 showed significant differences in the composition of the FHB species complex. In most regions (Scotland, the South and North of England) the harvest in 2010 had higher concentrations of Fusarium spp. than in 2011, although no significant difference was observed in the Midlands between the two years. Microdochium DNA was significantly higher in 2011 and in the North of England and Scotland compared to the South or Midlands regions. Pathogens of the FHB complex impacted negatively on grain yield and quality parameters. Thousand grain weight of malting barley was affected significantly by M. nivale and M. majus whilst specific weight correlated negatively with F. avenaceum and F. graminearum. To determine the impact of sub-acute infections of the identified Fusarium and Microdochium species on malting and brewing quality of naturally infected samples, selected malting barley cultivars (Optic, Quench and Tipple) were micromalted and subjected to malt and wort analysis of key quality parameters. F. poae and M. nivale decreased germinative energy and increased water sensitivity of barley. The fungal biomass of F. poae and F. langsethiae correlated with increased wort free amino nitrogen and with decreased extract of malt. DNA of M. nivale correlated with increased malt friability as well as decreased wort filtration volume. The findings of this study indicate that the impact of species such as the newly emerging F. langsethiae, as well as F. poae and the two non-toxigenic Microdochium species should be considered when evaluating the quality of malting barley.
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Affiliation(s)
- L K Nielsen
- Division of Plant and Crop Sciences, School of Biosciences, The University of Nottingham, Sutton Bonington, UK
| | - D J Cook
- Division of Food Science, School of Biosciences, The University of Nottingham, Sutton Bonington, UK
| | - S G Edwards
- Crop and Environment Sciences, Harper Adams University, Newport, UK
| | - R V Ray
- Division of Plant and Crop Sciences, School of Biosciences, The University of Nottingham, Sutton Bonington, UK.
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30
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Bernáldez V, Rodríguez A, Martín A, Lozano D, Córdoba JJ. Development of a multiplex qPCR method for simultaneous quantification in dry-cured ham of an antifungal-peptide Penicillium chrysogenum strain used as protective culture and aflatoxin-producing moulds. Food Control 2014. [DOI: 10.1016/j.foodcont.2013.08.020] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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31
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Deoxynivalenol and other selected Fusarium toxins in Swedish oats — Occurrence and correlation to specific Fusarium species. Int J Food Microbiol 2013; 167:276-83. [DOI: 10.1016/j.ijfoodmicro.2013.06.026] [Citation(s) in RCA: 84] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2013] [Revised: 05/29/2013] [Accepted: 06/03/2013] [Indexed: 11/22/2022]
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32
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Lindblad M, Gidlund A, Sulyok M, Börjesson T, Krska R, Olsen M, Fredlund E. Deoxynivalenol and other selected Fusarium toxins in Swedish wheat--occurrence and correlation to specific Fusarium species. Int J Food Microbiol 2013; 167:284-91. [PMID: 23962919 DOI: 10.1016/j.ijfoodmicro.2013.07.002] [Citation(s) in RCA: 94] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2013] [Revised: 06/25/2013] [Accepted: 07/04/2013] [Indexed: 11/19/2022]
Abstract
Wheat is often infected by Fusarium species producing mycotoxins, which may pose health risks to humans and animals. Deoxynivalenol (DON) is the most important Fusarium toxin in Swedish wheat and has previously been shown to be produced mainly by Fusarium graminearum. However, less is known about the co-occurrence of DON and F. graminearum with other toxins and Fusarium species in Sweden. This study examined the distribution of the most important toxigenic Fusarium species and their toxins in winter wheat (2009 and 2011) and spring wheat (2010 and 2011). DNA from seven species was quantified with qPCR and the toxin levels were quantified with a multitoxin analysis method based on liquid chromatography/electrospray ionisation-tandem mass spectrometry (HPLC/ESI-MS/MS). The method enabled detection of many fungal metabolites, including DON, zearalenone (ZEA), nivalenol (NIV), T-2 toxin, HT-2 toxins, moniliformin (MON), beauvericin (BEA), and enniatins (ENNs). It was found that Fusarium poae and Fusarium avenaceum were present in almost all samples. Other common Fusarium species were F. graminearum and F. culmorum, present in more than 70% of samples. Several species occurred at lower DNA levels in 2011 than in other years, but the reverse was true for F. graminearum and Fusarium langsethiae. The most prevalent toxins were ENNs, present in 100% of samples. DON was also common, especially in spring wheat, whereas ZEA and NIV were common in 2009 and in winter wheat, but less common in 2011 and in spring wheat. Only three samples of spring wheat contained T-2 or HT-2 above LOQ. Annual mean levels of several mycotoxins were significantly lower in 2011 than in other years, but the reverse applied for DON. The strongest correlations between mycotoxin and Fusarium DNA levels were found between F. avenaceum and ENNs (r(2) = 0.67) and MON (r(2) = 0.62), and F. graminearum and DON (r(2) = 0.74). These results show that several Fusarium species and toxins co-occur in wheat. The highest toxin levels were detected in spring wheat and DON and ENNs, the latter belonging to the group of so called "emerging toxins", which were the most prevalent toxins and those occurring at the highest levels.
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Affiliation(s)
- Mats Lindblad
- National Food Administration, P.O Box 622, SE-751 26 Uppsala, Sweden
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33
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Serradilla MJ, Hernández A, Ruiz-Moyano S, Benito MJ, López-Corrales M, de Guía Córdoba M. Authentication of ‘Cereza del Jerte’ cherry cultivars using real time PCR. Food Control 2013. [DOI: 10.1016/j.foodcont.2012.08.018] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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34
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Morcia C, Rattotti E, Stanca AM, Tumino G, Rossi V, Ravaglia S, Germeier CU, Herrmann M, Polisenska I, Terzi V. Fusarium genetic traceability: Role for mycotoxin control in small grain cereals agro-food chains. J Cereal Sci 2013. [DOI: 10.1016/j.jcs.2012.09.016] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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35
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Jin Z, Lei J, Li S, Xu X. Soil microbial diversity, site conditions, shelter forest land, saline water drip-irrigation, drift desert. J Basic Microbiol 2013; 53:856-67. [PMID: 23417761 DOI: 10.1002/jobm.201200113] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2012] [Accepted: 07/06/2012] [Indexed: 11/11/2022]
Abstract
Soil microbes in forest land are crucial to soil development in extreme areas. In this study, methods of conventional culture, PLFA and PCR-DGGE were utilized to analyze soil microbial quantity, fatty acids and microbial DNA segments of soils subjected to different site conditions in the Tarim Desert Highway forest land. The main results were as follows: the soil microbial amount, diversity indexes of fatty acid and DNA segment differed significantly among sites with different conditions (F < F0.05 ). Specifically, the values were higher in the middle and base of dunes than the top part of dunes and hardened flat sand, but all values for dunes were higher than for drift sand. Bacteria was dominant in the soil microbial community (>84%), followed by actinomycetes and then fungi (<0.05%). Vertical differences in the soil microbial diversity were insignificant at 0-35 cm. Correlation analysis indicated that the forest trees grew better as the soil microbial diversity index increased. Therefore, construction of the Tarim Desert Highway shelter-forest promoted soil biological development; however, for enhancing sand control efficiency and promoting sand development, we should consider the effects of site condition in the construction and regeneration of shelter-forest ecological projects.
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Affiliation(s)
- Zhengzhong Jin
- Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi 830011, China
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36
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Yong X, Zhang R, Zhang N, Chen Y, Huang X, Zhao J, Shen Q. Development of a specific real-time PCR assay targeting the poly-γ-glutamic acid synthesis gene, pgsB, for the quantification of Bacillus amyloliquefaciens in solid-state fermentation. BIORESOURCE TECHNOLOGY 2013; 129:477-484. [PMID: 23266849 DOI: 10.1016/j.biortech.2012.11.092] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/29/2012] [Revised: 11/17/2012] [Accepted: 11/20/2012] [Indexed: 06/01/2023]
Abstract
A TaqMan real-time PCR procedure was developed for specific detection and quantification of strains belonging to Bacillus amyloliquefaciens group. The primer pair pgsB726-f/pgsB791-r and the pgsB-probe were designed from one of the poly-γ-glutamic acid synthesis gene (pgsB) of B. amyloliquefaciens. The detection limit was approximately between 10(2)-10(3) cells/mL. A linear correlation between the log10 input pMD-pgsB plasmid DNA copies and the threshold cycle values were observed with a magnitude of linearity in the range of 9.415×10(3)-10(7) copies/mL for the standard curve, which exhibited a slope of -3.35 and an R2 value of 99.8%. Results of validation of this method with artificially contaminated and natural solid-state fermentation samples showed that it was suitable for specific and sensitive detection and quantification for the target strains in solid-state fermentation samples. This could be more useful to understand the fermentation starting strain and the final microbiological properties of fermentation products.
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Affiliation(s)
- Xiaoyu Yong
- Agricultural Ministry Key Lab of Plant Nutrition and Fertilization in Low-Middle Reaches of the Yangtze River, Jiangsu Key Lab and Engineering Center for Solid Organic Waste Utilization, Nanjing Agricultural University, Nanjing 210095, China
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37
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Rodríguez A, Werning ML, Rodríguez M, Bermúdez E, Córdoba JJ. Quantitative real-time PCR method with internal amplification control to quantify cyclopiazonic acid producing molds in foods. Food Microbiol 2012; 32:397-405. [DOI: 10.1016/j.fm.2012.08.001] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2012] [Revised: 07/26/2012] [Accepted: 08/05/2012] [Indexed: 11/25/2022]
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38
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Scauflaire J, Godet M, Gourgue M, Liénard C, Munaut F. A multiplex real-time PCR method using hybridization probes for the detection and the quantification of Fusarium proliferatum, F. subglutinans, F. temperatum, and F. verticillioides. Fungal Biol 2012; 116:1073-80. [PMID: 23063186 DOI: 10.1016/j.funbio.2012.07.011] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2011] [Revised: 07/25/2012] [Accepted: 07/30/2012] [Indexed: 10/28/2022]
Abstract
Maize contamination with Fusarium species is one of the major sources of mycotoxins in food and feed derivates. In the present study, a LightCycler(®) real-time PCR method using hybridization probes was developed for the specific identification, detection, and quantification of Fusarium proliferatum, Fusarium subglutinans, Fusarium temperatum, and Fusarium verticillioides, four mycotoxin-producing pathogens of maize. Primers and hybridization probes were designed to target the translation elongation factor 1α (EF-1α) gene of F. subglutinans and F. temperatum or the calmodulin (Cal) gene of F. proliferatum and F. verticillioides. The specificity of the real-time PCR assays was confirmed for the four Fusarium species, giving no amplification with DNA from other fungal species commonly recovered from maize. The assays were found to be sensitive, detecting down to 5 pg and 50 pg of Fusarium DNA in simplex and multiplex conditions respectively, and were able to quantify pg-amounts of Fusarium DNA in artificially Fusarium-contaminated maize samples. The real-time PCR method developed provides a useful tool for routine identification, detection, and quantification of toxigenic Fusarium species in maize.
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Affiliation(s)
- Jonathan Scauflaire
- Université catholique de Louvain, Earth and Life Institute, Laboratory of Mycology, Louvain-la-Neuve, Belgium.
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39
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A comparative study of DNA extraction methods to be used in real-time PCR based quantification of ochratoxin A-producing molds in food products. Food Control 2012. [DOI: 10.1016/j.foodcont.2011.12.010] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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40
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Rodríguez A, Córdoba JJ, Gordillo R, Córdoba MG, Rodríguez M. Development of Two Quantitative Real-Time PCR Methods Based on SYBR Green and TaqMan to Quantify Sterigmatocystin-Producing Molds in Foods. FOOD ANAL METHOD 2012. [DOI: 10.1007/s12161-012-9411-9] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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41
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Sneller C, Guttieri M, Paul P, Costa J, Jackwood R. Variation for resistance to kernel infection and toxin accumulation in winter wheat infected with Fusarium graminearum. PHYTOPATHOLOGY 2012; 102:306-314. [PMID: 21848396 DOI: 10.1094/phyto-05-11-0143] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
Host resistance is the main way to control Fusarium head blight (FHB) in wheat. Despite improved levels of resistance to infection and spread in vegetative tissue, the toxin deoxynivalenol (DON) can still accumulate to unacceptable concentration levels. In this study, our objectives were to assess the genetic variation for resistance to kernel infection (RKI) and resistance to toxin accumulation (RTA) and their role in controlling DON. We collected spikes with different levels of visual symptoms from each of 32 wheat genotypes and at four environments and determined DON and fungal biomass (FB) from each sample. We assessed RKI by regressing FB on the level of visual symptoms and RTA by regressing DON on FB for each genotype. Significant genetic effects were found for RKI and RTA. Some genotypes consistently had low FB in their grain despite increasing visual symptoms suggesting RKI. Additionally, some genotypes consistently had low DON in their grain despite increasing FB levels suggesting a higher RTA in these genotypes. The variation for RKI and RTA explained a significant fraction of the variation for DON among genotypes with moderate visual symptoms using independent grain samples. Although RKI and RTA were significantly correlated (r = 0.58, P = 0.05), RTA was more predictive of DON accumulation because it modeled 32 to 44% of the genotype sum of squares for DON, while only 9 to 10% were predicted using RKI. Thus, variation for RTA was important in explaining variation for DON among genotypes with acceptable levels of resistance to fungal infection and spread. This work indicates that there is a need to develop a better understanding of RTA and rapid screening methods for this trait.
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Affiliation(s)
- Clay Sneller
- Department of Horticulture and Crop Science, The Ohio State University and the Ohio Agriculture Research and Development Center, Wooster, Ohio 44691, USA.
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42
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Leite GM, Magan N, Medina Á. Comparison of different bead-beating RNA extraction strategies: An optimized method for filamentous fungi. J Microbiol Methods 2012; 88:413-8. [DOI: 10.1016/j.mimet.2012.01.011] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2011] [Revised: 01/16/2012] [Accepted: 01/16/2012] [Indexed: 10/14/2022]
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43
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Rodríguez A, Rodríguez M, Luque MI, Martín A, Córdoba JJ. Real-time PCR assays for detection and quantification of aflatoxin-producing molds in foods. Food Microbiol 2012; 31:89-99. [PMID: 22475946 DOI: 10.1016/j.fm.2012.02.009] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2011] [Revised: 11/08/2011] [Accepted: 02/15/2012] [Indexed: 10/28/2022]
Abstract
Aflatoxins are among the most toxic mycotoxins. Early detection and quantification of aflatoxin-producing species is crucial to improve food safety. In the present work, two protocols of real-time PCR (qPCR) based on SYBR Green and TaqMan were developed, and their sensitivity and specificity were evaluated. Primers and probes were designed from the o-methyltransferase gene (omt-1) involved in aflatoxin biosynthesis. Fifty-three mold strains representing aflatoxin producers and non-producers of different species, usually reported in food products, were used as references. All strains were tested for aflatoxins production by high-performance liquid chromatography-mass spectrometry (HPLC-MS). The functionality of the proposed qPCR method was demonstrated by the strong linear relationship of the standard curves constructed with the omt-1 gene copy number and Ct values for the different aflatoxin producers tested. The ability of the qPCR protocols to quantify aflatoxin-producing molds was evaluated in different artificially inoculated foods. A good linear correlation was obtained over the range 4 to 1 log cfu/g per reaction for all qPCR assays in the different food matrices (peanuts, spices and dry-fermented sausages). The detection limit in all inoculated foods ranged from 1 to 2 log cfu/g for SYBR Green and TaqMan assays. No significant effect was observed due to the different equipment, operator, and qPCR methodology used in the tests of repeatability and reproducibility for different foods. The proposed methods quantified with high efficiency the fungal load in foods. These qPCR protocols are proposed for use to quantify aflatoxin-producing molds in food products.
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Affiliation(s)
- Alicia Rodríguez
- Higiene y Seguridad Alimentaria, Facultad de Veterinaria, Universidad de Extremadura, Avda. de la Universidad s/n., 10071 Cáceres, Spain
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44
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Rodríguez A, Rodríguez M, Andrade MJ, Córdoba JJ. Development of a multiplex real-time PCR to quantify aflatoxin, ochratoxin A and patulin producing molds in foods. Int J Food Microbiol 2012; 155:10-8. [PMID: 22326179 DOI: 10.1016/j.ijfoodmicro.2012.01.007] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2011] [Revised: 01/05/2012] [Accepted: 01/12/2012] [Indexed: 11/30/2022]
Abstract
A multiplex real-time PCR (qPCR) method to quantify aflatoxin, ochratoxin A (OTA) and patulin producing molds in foods was developed. For this, the primer pairs F/R-omt, F/R-npstr and F/R-idhtrb and the TaqMan probes, OMTprobe, NPSprobe and IDHprobe targeting the omt-1, otanpsPN and idh genes involved in aflatoxin, OTA and patulin biosynthesis, respectively, were used. The functionality of the developed qPCR method was demonstrated by the high linear relationship of the standard curves constructed with the omt-1, otanpsPN and idh gene copies and threshold cycle (Ct) values for the respective producing molds tested to quantify aflatoxin, OTA and patulin producing molds. The ability of the optimized qPCR protocol to quantify producing molds was evaluated in different artificially inoculated foods (fruits, nuts, cereals and dry-ripened meat and cheese products). Efficiency values ranged from 81 to 110% in all inoculated foods. The detection limit was between 3 and 1logcfu/g for aflatoxin, OTA and patulin producing molds. The developed multiplex qPCR was shown be an appropriate tool for sensitive quantification of growth of toxigenic fungi in foods throughout the incubation time. Thus, the multiplex qPCR is a useful, rapid and efficient method to quantify simultaneously aflatoxin, OTA and patulin producing molds in food products.
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Affiliation(s)
- Alicia Rodríguez
- Food Hygiene and Safety, Faculty of Veterinary Science, University of Extremadura, Avda. de la Universidad s/n., Cáceres, Spain
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45
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Atoui A, El Khoury A, Kallassy M, Lebrihi A. Quantification of Fusarium graminearum and Fusarium culmorum by real-time PCR system and zearalenone assessment in maize. Int J Food Microbiol 2011; 154:59-65. [PMID: 22240058 DOI: 10.1016/j.ijfoodmicro.2011.12.022] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2011] [Revised: 12/05/2011] [Accepted: 12/12/2011] [Indexed: 11/24/2022]
Abstract
Zearalenone (ZEA) is a mycotoxin produced by some species of Fusarium, especially by Fusarium graminearum and F. culmorum. ZEA induces hyperoestrogenic responses in mammals and can result in reproductive disorders in farm animals. In the present study, a real-time PCR (qPCR) assay has been successfully developed for the detection and quantification of Fusarium graminearum based on primers targeting the gene PKS13 involved in ZEA biosynthesis. A standard curve was developed by plotting the logarithm of known concentrations of F. graminearum DNA against the cycle threshold (Ct) value. The developed real time PCR system was also used to analyze the occurrence of zearalenone producing F. graminearum strains on maize. In this context, DNA extractions were performed from thirty-two maize samples, and subjected to real time PCR. Maize samples also were analyzed for zearalenone content by HPLC. F. graminearum DNA content (pg DNA/ mg of maize) was then plotted against ZEA content (ppb) in maize samples. The regression curve showed a positive and good correlation (R²=0.760) allowing for the estimation of the potential risk from ZEA contamination. Consequently, this work offers a quick alternative to conventional methods of ZEA quantification and mycological detection and quantification of F. graminearum in maize.
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Affiliation(s)
- Ali Atoui
- Laboratory of Microorganisms and Food Irradiation, Lebanese Atomic Energy Commission-CNRS, P.O. Box 11-8281, Riad El Solh, 11072260 Beirut, Lebanon.
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46
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Rodríguez A, Córdoba JJ, Werning ML, Andrade MJ, Rodríguez M. Duplex real-time PCR method with internal amplification control for quantification of verrucosidin producing molds in dry-ripened foods. Int J Food Microbiol 2011; 153:85-91. [PMID: 22119450 DOI: 10.1016/j.ijfoodmicro.2011.10.020] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2011] [Revised: 10/06/2011] [Accepted: 10/25/2011] [Indexed: 11/28/2022]
Abstract
Verrucosidin, which is a tremorgenic mycotoxin responsible for neurological diseases, has been detected in different dry-ripened foods as consequence of the growth of toxigenic molds. To improve food safety, the presence of verrucosidin producing molds in these kind foods should be quantified. The aim of this study was to design a duplex real-time PCR (qPCR) protocol based on TaqMan methodology with an internal amplification control (IAC). Eleven verrucosidin producing and 11 non producing strains belonging to different species often reported in food products were used. Verrucosidin production was tested by micellar electrokinetic capillary electrophoresis (MECE) and high-pressure liquid chromatography-mass spectrometry (HPLC-MS). A primer pair (VerF1/VerR1) and a TaqMan probe (Verprobe) were designed from the SVr1 probe sequence of a verrucosidin producing Penicillium polonicum. The conserved regions of the β-tubulin gene were used to design primers (TubF1/TubR1) and probe (Tubprobe) of the non-competitive IAC. The functionality of the developed method was demonstrated by the high linear relationship of the standard curves which relating Ct values and DNA template of the tested verrucosidin producers using the verrucosidin and IAC primers. The ability to quantify verrucosidin producers of the developed TaqMan assay in all artificially inoculated food samples was successful, with a minimum detection limit of 1 log cfu per gram of food. This qPCR protocol including an IAC could be very useful to quantify verrucosidin producing molds in dry-ripened foods avoiding false negative results. This method should be proposed to monitor the target molds in HACCP programs to prevent the risk of verrucosidin formation and consequently avoid its presence in the food chain.
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Affiliation(s)
- Alicia Rodríguez
- Food Hygiene and Safety, Faculty of Veterinary Science, University of Extremadura, Avda. de Universidad, s/n. 10003-Cáceres, Spain
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Rodríguez A, Rodríguez M, Luque MI, Justesen AF, Córdoba JJ. Quantification of ochratoxin A-producing molds in food products by SYBR Green and TaqMan real-time PCR methods. Int J Food Microbiol 2011; 149:226-35. [DOI: 10.1016/j.ijfoodmicro.2011.06.019] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2010] [Revised: 06/17/2011] [Accepted: 06/29/2011] [Indexed: 12/01/2022]
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Rodríguez A, Luque MI, Andrade MJ, Rodríguez M, Asensio MA, Córdoba JJ. Development of real-time PCR methods to quantify patulin-producing molds in food products. Food Microbiol 2011; 28:1190-9. [PMID: 21645819 DOI: 10.1016/j.fm.2011.04.004] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2010] [Revised: 01/22/2011] [Accepted: 04/14/2011] [Indexed: 10/18/2022]
Abstract
Patulin is a mycotoxin produced by different Penicillium and Aspergillus strains isolated from food products. To improve food safety, the presence of patulin-producing molds in foods should be quantified. In the present work, two real-time (RTi) PCR protocols based on SYBR Green and TaqMan were developed. Thirty four patulin producers and 28 non-producers strains belonging to different species usually reported in food products were used. The patulin production was tested by mycellar electrokinetic capillary electrophoresis (MECE) and high-pressure liquid chromatography-mass spectrometry (HPLC-MS). A primer pair F-idhtrb/R-idhtrb and the probe IDHprobe were designed from the isoepoxydon dehydrogenase (idh) gene, involved in patulin biosynthesis. The functionality of the developed method was demonstrated by the high linear relationship of the standard curves constructed with the idh gene copy number and Ct values for the different patulin producers tested. The ability to quantify patulin producers of the developed SYBR Green and TaqMan assays in artificially inoculated food samples was successful, with a minimum threshold of 10 conidia g(-1) per reaction. The developed methods quantified with high efficiency fungal load in foods. These RTi-PCR protocols, are proposed to be used to quantify patulin-producing molds in food products and to prevent patulin from entering the food chain.
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Affiliation(s)
- Alicia Rodríguez
- Higiene y Seguridad Alimentaria, Facultad de Veterinaria, Universidad de Extremadura, Avda. de la Universidad s/n, 10003-Cáceres, Spain
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Dineen SM, Aranda R, Anders DL, Robertson JM. An evaluation of commercial DNA extraction kits for the isolation of bacterial spore DNA from soil. J Appl Microbiol 2011; 109:1886-96. [PMID: 20666869 DOI: 10.1111/j.1365-2672.2010.04816.x] [Citation(s) in RCA: 92] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Abstract
AIMS To evaluate six commercial DNA extraction kits for their ability to isolate PCR-quality DNA from Bacillus spores in various soil samples. METHODS AND RESULTS Three soils were inoculated with various amounts of Bacillus cereus spores to simulate an outbreak or intentional release of the threat agent Bacillus anthracis. DNA was isolated from soil samples using six commercial DNA extraction kits. Extraction and purification efficiencies were assessed using a duplex real-time PCR assay that included an internal positive control. The FastDNA(®) SPIN kit for Soil showed the highest DNA extraction yield, while the E.Z.N.A.(®) Soil DNA and PowerSoil(®) DNA Isolation kits showed the highest efficiencies in removing PCR inhibitors from loam soil extracts. CONCLUSIONS The results of this study suggest that commercially available extraction kits can be used to extract PCR-quality DNA from bacterial spores in soil. The selection of an appropriate extraction kit should depend on the characteristics of the soil sample and the intended downstream application. SIGNIFICANCE AND IMPACT OF THE STUDY The results of this study aid in the selection of an appropriate DNA extraction kit for a given soil sample. Its application could expedite sample processing for real-time PCR detection of a pathogen in soil.
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Affiliation(s)
- S M Dineen
- Federal Bureau of Investigation Laboratory, Quantico, VA, USA
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Marín P, Jurado M, Magan N, Vázquez C, González-Jaén MT. Effect of solute stress and temperature on growth rate and TRI5 gene expression using real time RT–PCR in Fusarium graminearum from Spanish wheat. Int J Food Microbiol 2010; 140:169-74. [DOI: 10.1016/j.ijfoodmicro.2010.03.041] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2009] [Revised: 03/16/2010] [Accepted: 03/31/2010] [Indexed: 12/28/2022]
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