Molecular Detection of Mycotoxigenic Fungi in Foods: The Case for Using PCR-DGGE

References

• Abalunan, A. J. F., F. G. Teves, and M. R. S. B. Madamba. 2013. Isolation of fungal species and aflatoxin detection in fermented products. International Research Journal of Biological Sciences 2 (4):51–54.
   Google Scholar
• Abe, M., N. Takaoka, Y. Idemoto, C. Takagi, T. Imai, and K. Nakasaki. 2008. Characteristic fungi observed in the fermentation process for Puer tea. International Journal of Food Microbiology 124:199–203. doi:10.1016/j.ijfoodmicro.2008.03.016.
   PubMed Web of Science ®Google Scholar
• Adegoke, G. O., and P. Letuma. 2013. Strategies for the prevention and reduction of mycotoxins in developing countries. In Mycotoxin and food safety in developing countries, ed. H. Makun, 123–136. Rijeka: InTech.
   Google Scholar
• Adeyeye, S. A. O. 2016. Fungal mycotoxins in foods: A review. Cogent Food & Agriculture 2(1): Article ID 1213127. doi:10.1080/23311932.2016.1213127.
   Google Scholar
• Adil, E. 2015. Corrective measures of denaturing gradient gel electrophoresis limitations. Environmental Science & Technology 8:1–12. doi:10.3923/jest.2015.1.12.
   Google Scholar
• Agodi, A., M. Barchitta, M. Ferrante, S. Sciacca, and L. Niessen. 2005. Detection of trichothecene producing Fusarium spp. by PCR: Adaptation, validation and application to fast food. Italian Journal of Public Health 2 (1). doi: 10.2427/5990.
   Google Scholar
• Al-Awadhi, H., N. Dashti, M. Khanafer, D. Al-Mailem, N. Ali, and S. Radwan. 2013. Bias problems in culture-independent analysis of environmental bacterial communities: a representative study on hydrocarbonoclastic bacteria. Springerplus 2:369. doi: 10.1186/2193-1801-2-369.
   PubMedGoogle Scholar
• Amoah, B. K., M. V. MacDonald, H. N. Rezanoor, and P. Nicholson. 1996. The use of random amplified polymorphic DNA technique to identify mating groups in the Fusarium section. Liseola Plant Pathol 45:115–125. doi:10.1046/j.1365-3059.1996.d01-95.x.
   Web of Science ®Google Scholar
• Anderson, P. D. 2012. Bioterrorism: Toxins as weapons. Journal of Pharmacy Practice 25 (2):121–129. doi:10.1177/0897190012442351.
   PubMedGoogle Scholar
• Arcuri, E. F., A. F. El Sheikha, T. Rychlik, I. Métayer, and D. Montet. 2013. Determination of cheese origin by using 16S rDNA fingerprinting of bacteria communities by PCR-DGGE: Preliminary application to traditional Minas cheese. Food Control 30 (1):1–6. doi:10.1016/j.foodcont.2012.07.007.
   Web of Science ®Google Scholar
• Atanda, S. A., J. A. Aina, S. A. Agoda, O. E. Usanga, and P. O. Pessu. 2012. Mycotoxin management in agriculture: A review. Journal of Animal Science Advances 2:250–260.
   Google Scholar
• Bagnara, A., Z. Mayer, and R. Geisen. 2000. Quantification of Aspergillus flavus BFE96 by SYBR green Q-PCR in black pepper. Mycotoxin Research 16 (Supplement 2):244–247. doi:10.1007/BF02940049.
   PubMedGoogle Scholar
• Baschien, C., W. Manz, T. R. Neu, and U. Szewzyk. 2001. Fluorescence in situ hybridization of freshwater fungi. International Review of Hydrobiology 86:371–384. doi:10.1002/1522-2632(200107)86:4/5<371::AID-IROH371>3.0.CO;2-P.
   Web of Science ®Google Scholar
• Battilani, P., A. Pietri, T. Bertuzzi, L. Languasco, P. Giorni, and Z. Kozakiewicz. 2003. Occurrence of ochratoxin A producing fungi in grapes grown in Italy. Journal of Food Protection 66 (4):633–636. doi:10.4315/0362-028X-66.4.633.
   PubMed Web of Science ®Google Scholar
• Bayraktar, H., F. S. Dolar, and S. Maden. 2008. Use of RAPD and ISSR markers in detection of genetic variation and population structure among Fusarium oxysporum f. sp. ciceris Isolates on Chickpea in Turkey. Journal of Phytopathology 156:146–154. doi:10.1111/jph.2008.156.issue-3.
   Web of Science ®Google Scholar
• Bernreiter, A. 2017. Molecular diagnostics to identify fungal plant pathogens – A review of current methods. Revista Científca Ecuatoriana 4:26–35.
   Google Scholar
• Bex, V., and F. Squinazi. 2006. Mise en évidence de moisissures des ambiances intérieures par la mesure des (1→3) –β–D–Glucanes. Revue Francaise D Allergologie 46:184–187.
   Google Scholar
• Bhat, R., R. V. Rai, and A. A. Karim. 2010. Mycotoxins in food and feed: Present status and future concerns. Comprehensive Reviews in Food Science and Food Safety 9 (1):57–81.
   PubMed Web of Science ®Google Scholar
• Bieysse, D., M. Bella, B. Mouen, J. P. Ndeumeni, V. Roussel, J. V. Fabre, and D. Berry. 2002. Coffee berry disease: A potential threat to Arabica coffee growing worldwide. In Recherche et caféiculture/research and coffee growing, ed. D. Berry, 153–156. Montpellier: CIRAD.
   Google Scholar
• Bigot, C., J. –. C. Meile, A. Kapitan, and D. Montet. 2015. Discriminating organic and conventional foods by analysis of their microbial ecology: An application on fruits. Food Control 48:123–129. doi:10.1016/j.foodcont.2014.03.035.
   Web of Science ®Google Scholar
• Binder, E. M. 2007. Managing the risk of mycotoxins in modern feed production. Animal Feed Science and Technology 133:149–166. doi:10.1016/j.anifeedsci.2006.08.008.
   Web of Science ®Google Scholar
• Bluhm, B. H., J. E. Flaherty, M. A. Cousin, and C. P. Woloshuk. 2002. Multiplex polymerase chain reaction assay for the differential detection of trichothecene- and fumonisin-producing species of Fusarium in cornmeal. Journal of Food Protection 65:1955–1961. doi:10.4315/0362-028X-65.12.1955.
   PubMed Web of Science ®Google Scholar
• Bosco, F., and C. Mollea. 2012. Mycotoxins in food. In Food industrial processes - Methods and equipment, ed. B. Valdez, 169–200. Rijeka: InTech.
   Google Scholar
• Brown, D. W., S. P. McCormick, N. J. Alexander, R. H. Proctor, and A. E. Desjardins. 2001. A genetic and biochemical approach to study trichothecene diversity in Fusarium sporotrichioides and Fusarium graminearum. Fungal Genetics and Biology 32:121–133. doi:10.1006/fgbi.2001.1255.
   PubMed Web of Science ®Google Scholar
• Burnett, J. 2003. Fungal populations and species. New York: Oxford University Press Inc.
   Google Scholar
• Cabañes, F. J., F. Accensi, M. R. Bragulat, M. L. Abarca, G. Castellá, S. Minguez, and A. Pons. 2002. What is the source of ochratoxin A in wine? International Journal of Food Microbiology 79:213–215. doi:10.1016/S0168-1605(02)00087-9.
   PubMed Web of Science ®Google Scholar
• Camu, N., T. De Winter, K. Verbrugghe, I. Cleenwerck, P. Vandamme, J. S. Takrama, M. Vancanneyt, and L. De Vuyst. 2007. Dynamics and biodiversity of populations of lactic acid bacteria and acetic acid bacteria involved in spontaneous heap fermentation of cocoa beans in Ghana. Applied and Environmental Microbiology 73:1809–1824. doi:10.1128/AEM.02189-06.
   PubMed Web of Science ®Google Scholar
• Capote, N., A. M. Pastrana, A. Aguado, and P. Sánchez-Torres. 2012. Molecular tools for detection of plant pathogenic fungi and fungicide resistance. In Plant pathology, ed. C. J. Cumagun, 151–202. Rijeka: InTech.
   Google Scholar
• Carbonnelle, E., P. Grohs, H. Jacquier, N. Day, S. Tenza, A. Dewailly, O. Vissouarn, M. Rottman, J. L. Herrmann, I. Podglajen, et al. 2012. Robustness of two MALDI-TOF mass spectrometry systems for bacterial identification. Journal of Microbiological Methods 89 (2):133–136. doi:10.1016/j.mimet.2012.03.003.
   PubMed Web of Science ®Google Scholar
• Carter, J. P., H. N. Rezanoor, D. Holden, A. E. Desjardins, R. D. Plattner, and P. Nicholson. 2002. Variation in pathogenicity associated with the genetic diversity of Fusarium graminearum. European Journal of Plant Pathology / European Foundation for Plant Pathology 108:573–583. doi:10.1023/A:1019921203161.
   Web of Science ®Google Scholar
• CAST (2003). Mycotoxins: Risks in plant, animal and human systems Ames, IA: Council for Agricultural Science and Technology, Accessed August 07, 2016. http://www.cast-science.org/cast/pub/Mycotoxins.pdf/.
   Google Scholar
• Chandler, E. A., D. R. Simpson, M. A. Thomsett, and P. Nicholson. 2003. Development of PCR assays to Tri7 and Tri13 trichothecene biosynthetic genes, and characterisation of chemotypes of Fusarium graminearum, Fusarium culmorum and Fusarium cerealis. Physiological and Molecular Plant Pathology 62:355–367. doi:10.1016/S0885-5765(03)00092-4.
   Web of Science ®Google Scholar
• Chang, S., M. P. Carneiro-Leão, B. F. de Oliveira, C. Souza-Motta, N. Lima, C. Santos, and N. T. de Oliveira. 2016. Polyphasic approach including MALDI-TOF MS/MS analysis for identification and characterisation of Fusarium verticillioides in Brazilian corn kernels. Toxins 8 (3):54. doi:10.3390/toxins8030054.
   Web of Science ®Google Scholar
• Chávez, R., F. Fierro, R. O. García-Rico, and F. Laich. 2011. Mold-fermented foods: Penicillium spp. as ripening agents in the elaboration of cheese and meat products. In ed. A. L. Leitão, 73–98. eBook. Sharjah: Bentham Science Publishers, Ltd. http://ebooks.benthamscience.com/book/9781608052233/chapter/52248/
   Google Scholar
• Chen, K., and L. Pachter. 2005. Bioinformatics for whole-genome shotgun sequencing of microbial communities. PLoS Computational Biology 1:24. doi:10.1371/journal.pcbi.0010024.
   Web of Science ®Google Scholar
• Chen, L., Q. Chen, Z. Z. Zhang, and X. C. Wan. 2009. A novel colorimetric determination of free amino acids content in tea infusions with 2,4-dinitrofluorobenzene. Journal of Food Composition and Analysis 22:13–141. doi:10.1016/j.jfca.2008.11.013.
   Web of Science ®Google Scholar
• Chen, R. S., J. G. Tsay, Y. F. Huang, and R. Y. Y. Chiou. 2002. Polymerase chain reaction-mediated characterization of molds belonging to the Aspergillus flavus group and detection of Aspergillus parasiticus in peanut kernels by a multiplex polymerase chain reaction. Journal of Food Protection 65:840–844. doi:10.4315/0362-028X-65.5.840.
   PubMed Web of Science ®Google Scholar
• Chen, T., M. Wang, S. Jiang, S. Xiong, and H. Wei. 2011. The application of polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) method in microbial screening. The African Journal of Mycology and Biotechnology 10 (46):9387–9395. doi:10.5897/AJB10.2092.
   Google Scholar
• Chen, Z. M. 2000. A grand dictionary of Chinese tea. Beijing: China Light Industry Press. in Chinese.
   Google Scholar
• Chiodo, E. P. 2013. Bioterrorism. Indiana: Xlibris LLC.
   Google Scholar
• Corrado, A. P., C. R. Dinis, F. E. Russei, and K. Uraguchi. 1971. Pharmacology and toxicology of naturally occurring toxins. Vol. II. Oxford: Pergamon Press.
   Google Scholar
• Criseo, G., A. Bagnara, and G. Bisignano. 2001. Differentiation of aflatoxin-producing and non-producing strains of Aspergillus flavus group. Letters in Applied Microbiology 33:291–295.
   PubMed Web of Science ®Google Scholar
• Da Veiga Moreira, I. M., M. G. Da Cruz Pedrozo Miguel, W. F. Duarte, D. R. Dias, and R. F. Schwan. 2013. Microbial succession and the dynamics of metabolites and sugars during the fermentation of three different cocoa (Theobroma cacao L.) hybrids. Food Research International (Ottawa, Ont.) 54 (1):9–17. doi:10.1016/j.foodres.2013.06.001.
   Web of Science ®Google Scholar
• Dao, H. P., F. Mathieu, and A. Lebrihi. 2005. Two primer pairs to detect OTA producers by PCR method. International Journal of Food Microbiology 104:61–67. doi:10.1016/j.ijfoodmicro.2005.02.004.
   PubMed Web of Science ®Google Scholar
• Dawidziuk, A., G. Koczyk, D. Popiel, J. Kaczmarek, and M. Buśko. 2014. Molecular diagnostics on the toxigenic potential of Fusarium spp. plant pathogens. Journal of Applied Microbiology 116 (6):1607–1620. doi:10.1111/jam.2014.116.issue-6.
   PubMed Web of Science ®Google Scholar
• Deepthi, B. V., A. P. Gnanaprakash, and M. Y. Sreenivasa. 2017. Effect of γ-irradiation on fumonisin producing Fusarium associated with animal and poultry feed mixtures. 3 Biotech 7 (1):57. doi:10.1007/s13205-017-0693-x.
   PubMedGoogle Scholar
• Demeke, T., R. M. Clear, S. K. Patrick, and D. Gaba. 2005. Species-specific PCR-based assays for the detection of Fusarium species and a comparison with the whole seed agar plate method and trichothecene analysis. International Journal of Food Microbiology 103 (3):271–284. doi:10.1016/j.ijfoodmicro.2004.12.026.
   PubMed Web of Science ®Google Scholar
• Denschlag, C., J. Rieder, R. F. Vogel, and L. Niessen. 2014. Real-time loop-mediated isothermal amplification (LAMP) assay for group specific detection of important trichothecene producing Fusarium species in wheat. International Journal of Food Microbiology 177:117–127. doi:10.1016/j.ijfoodmicro.2014.02.010.
   PubMed Web of Science ®Google Scholar
• Deshpande, S. S. 2000. Grain legumes, seeds and nuts: Rationale for fermentation. In Fermented grain legumes, seeds and nuts: A global perspective, ed. S. Deshpande, S. D. K. Salunkhe, O. B. Oywole, S. Azam-Ali, M. Battcock, and R. Bressani, 1–32. Rome: FAO Agriculture Services Bulletin 142.
   Google Scholar
• Desjardins, A. E. 2006. Fusarium mycotoxins: Chemistry, genetics and biology. Minnesota: APS Press, American Phytopathological Society.
   Google Scholar
• Di Maro, E., D. Ercolini, and S. Coppola. 2007. Yeast dynamics during spontaneous wine fermentation of the Catalanesca grape. International Journal of Food Microbiology 117:201–210. doi:10.1016/j.ijfoodmicro.2007.04.007.
   PubMed Web of Science ®Google Scholar
• Dickinson, J. H., R. G. Kroll, and K. A. Grant. 1995. The direct application of the polymerase chain reaction to DNA extracted from foods. Letters in Applied Microbiology 20:212–216. doi:10.1111/j.1472-765X.1995.tb00430.x.
   PubMed Web of Science ®Google Scholar
• Diguta, C. F., B. Vincent, M. Guilloux-Benatier, H. Alexandre, and S. Rousseaux (2011). PCR ITS-RFLP: A useful method for identifying filamentous fungi isolates doi: 10.1016/j.fm.2011.03.006.
   Google Scholar
• Dong, H., M. Marchetti-Deschmann, W. Winkler, H. Lohninger, and G. Allmaier. 2009b. Intact cell/spore mass spectrometry of Fusarium macro conidia for fast isolate and species differentiation. In Detection of biological agents for the prevention of bioterrorism, J. Banoub ed., 2009. 47–63. Springer: Dordrecht, The Netherlands. (NATO Science for Peace and Security Series—A: Chemistry and Biology).
   Google Scholar
• Dong, H., J. Kemptner, M. Marchetti-Deschmann, C. P. Kubicek, and G. Allmaier. 2009a. Development of a MALDI two-layer volume sample preparation technique for analysis of colored conidia spores of Fusarium by MALDI linear TOF mass spectrometry. Analytical and Bioanalytical Chemistry 395 (5):1373–1383. doi:10.1007/s00216-009-3067-3.
   PubMed Web of Science ®Google Scholar
• Doohan, F. M., G. Weston, H. N. Rezanoor, D. W. Parry, and P. Nicholson. 1999. Development and use of a reverse transcription-PCR assay to study expression of Tri5 by Fusarium species in vitro and. Planta Applied and Environmental Microbiology 65:3850–3854.
   PubMed Web of Science ®Google Scholar
• Duh, P. D., G. C. Yen, W. J. Yen, B. S. Wang, and L. W. Chang. 2004. Effects of Pu-erh tea on oxidative damage and nitric oxide scavenging. Journal of Agricultural and Food Chemistry 52:8169–8176. doi:10.1021/jf0490551.
   PubMed Web of Science ®Google Scholar
• Durand, N. (2012). Dynamics of microbial populations during coffee post-harvest treatment and interspectific relations between ochratoxinogenic fungal strains. PhD Thesis. University of Montpellier 2, Montpellier, France.
   Google Scholar
• Durand, N., A. F. El Sheikha, M. L. Suarez-Quiroz, O. González-Rios, N. D. Nganou, A. Fontana-Tachon, and D. Montet. 2013. Application of PCR-DGGE to the study of dynamics and biodiversity of yeasts and potentially OTA producing fungi during coffee processing. Food Control 34:466–471. doi:10.1016/j.foodcont.2013.05.017.
   Web of Science ®Google Scholar
• Edwards, S. G., J. O’Callaghan, and A. D. W. Dobson. 2002. PCR-based detection and quantification of mycotoxigenic fungi. Mycological Research 106:1005–1025. doi:10.1017/S0953756202006354.
   Web of Science ®Google Scholar
• Edwards, S. G., S. R. Pirgozlievm, M. C. Hare, and P. Jenkinson. 2001. Quantification of trichothecene-producing Fusarium species in harvested grain by competitive PCR to determine efficacies of fungicides against Fusarium head blight of winter wheat. Applied and Environmental Microbiology 67:1575–1580. doi:10.1128/AEM.67.4.1575-1580.2001.
   PubMed Web of Science ®Google Scholar
• Eicher, S. D., I. V. Wesley, V. K. Sharma, and T. R. Johnson. 2010. Yeast cell-wall products containing β-glucan plus ascorbic acid affect neonatal Bos taurus calf leukocytes and growth after a transport stressor. Journal of Animal Science 88 (3):1195–1203.
   Google Scholar
• El Sheikha, A. F. (2010a). Determination of geographical origin of Shea tree and Physalis fruits by using the genetic fingerprints of the microbial community by PCR/DGGE. Analysis of biological properties of some fruit extracts. PhD Thesis. University of Montpellier 2, Montpellier, France.
   Google Scholar
• El Sheikha, A. F. 2010b. Determination of the geographical origin of fruits by using 26S rDNA fingerprinting of yeast communities by PCR-DGGE: An application to Shea tree fruits. Journal of Life Science 4 (6):9–15.
   Google Scholar
• El Sheikha, A. F., and R. C. Ray. 2014. Is PCR-DGGE an innovative molecular tool for the detection of microbial plant pathogens? In Biological controls for preventing food deterioration: strategies for pre- and postharvest management, ed. N. Sharma, 409–433. Chichester: John Wiley & Sons, Ltd.
   Google Scholar
• El Sheikha, A. F., and Y. Mahmoud. 2015. Bread fungal contamination: Risk of mycotoxins, protection of anti-fungal and need to fungal identification. In Bread and its fortification for nutrition and health benefits, ed. C. M. Rosell, J. Bajerska, and A. F. El Sheikha, 150–162. Florida: Science Publishers, Inc., CRC Press.
   Google Scholar
• El Sheikha, A. F. 2015a. Food safety issues in Saudi Arabia. Nutrition and Food Technology 1:1–4.
   Google Scholar
• El Sheikha, A. F. 2015b. New strategies for tracing foodstuffs: Biological barcodes utilizing PCR-DGGE. Advances in Food Technology and Nutritional Sciences – Open Journal 1 (1):1–7. doi:10.17140/AFTNSOJ-SE-1-101.
   Google Scholar
• El Sheikha, A. F. 2017. Traceability and inspection: For safer food supply. Asia-Pacific Journal of Food Safety and Security 3:1–2.
   Google Scholar
• El Sheikha, A. F., and N. D. Nganou. 2018. Molecular characterization of ochratoxigenic fungal flora as an innovative tool to certify the coffee origin. In Molecular techniques in food biology: Safety, biotechnology, authenticity & traceability, ed. A. F. El Sheikha, R. E. Levin, and J. Xu, 47–69. 1st ed. Chichester: John Wiley & Sons, Ltd.
   Google Scholar
• El Sheikha, A. F., and J. Xu. 2018. Molecular techniques and foodstuffs: Innovative fingerprints, then what? In Molecular techniques in food biology: Safety, biotechnology, authenticity & traceability, ed. A. F. El Sheikha, R. E. Levin, and J. Xu, 423–434. 1st ed. Chichester: John Wiley & Sons, Ltd.
   Google Scholar
• El Sheikha, A. F. 2018a. How to determine the geographical origin of foods. In Molecular techniques in food biology: safety, biotechnology, authenticity & traceability, ed. A. F. El Sheikha, R. E. Levin, and J. Xu, 285–308. 1st ed. Chichester: John Wiley & Sons, Ltd.
   Google Scholar
• El Sheikha, A. F. 2018b. Molecular techniques and lactic acid-fermented fruits & vegetables: Why and how? In Molecular techniques in food biology: safety, biotechnology, authenticity & traceability, ed. A. F. El Sheikha, R. E. Levin, and J. Xu, 285–308. 1st ed. Chichester: John Wiley & Sons, Ltd.
   Google Scholar
• El Sheikha, A. F., A. Condur, I. Métayer, D. D. Le Nguyen, G. Loiseau, and D. Montet. 2009. Determination of fruit origin by using 26S rDNA fingerprinting of yeast communities by PCR-DGGE: Preliminary application to Physalis fruits from Egypt. Yeast 26 (10):567–573. doi:10.1002/yea.v26:10.
   PubMed Web of Science ®Google Scholar
• El Sheikha, A. F., and D. Montet. 2011. Determination of fruit origin by using 28S rDNA fingerprinting of fungi communities by PCR-DGGE: An application to Physalis fruits from Egypt, Uganda and Colombia. Fruits 66 (2):79–89. doi:10.1051/fruits/2011001.
   Web of Science ®Google Scholar
• El Sheikha, A. F., and D. Montet. 2016. How to determine the geographical origin of seafood? Critical Reviews in Food Science and Nutrition 56 (2):306–317. doi:10.1080/10408398.2012.745478.
   PubMed Web of Science ®Google Scholar
• El Sheikha, A. F., I. Métayer, and D. Montet. 2011b. A Biological bar-code for determining the geographical origin of fruit by using 28S rDNA fingerprinting of fungi communities by PCR-DGGE: An application to Physalis fruits from Egypt. Food Biotechnology 25 (2):115–129. doi:10.1080/08905436.2011.576556.
   Web of Science ®Google Scholar
• El Sheikha, A. F., and J. Xu. 2017. Traceability as a key of seafood safety: Reassessment and possible applications. Reviews in Fisheries Science and Aquaculture 25:158–170. doi:10.1080/23308249.2016.1254158.
   Web of Science ®Google Scholar
• El Sheikha, A. F., J. –. M. Bouvet, and D. Montet. 2011a. Biological barcode for the determination of geographical origin of fruits by using 28S rDNA fingerprinting of fungal communities by PCR-DGGE: An application to Shea tree fruits. Quality Assurance and Safety of Crops & Foods 3:40–47. doi:10.1111/j.1757-837X.2010.00090.x.
   Web of Science ®Google Scholar
• El Sheikha, A. F., N. Durand, S. Sarter, J. B. L. Okullo, and D. Montet. 2012. Study of the microbial discrimination of fruits by PCR-DGGE: Application to the determination of the geographical origin of Physalis fruits from Colombia, Egypt, Uganda and Madagascar. Food Control 24 (1–2):57–63. doi:10.1016/j.foodcont.2011.09.003.
   Web of Science ®Google Scholar
• El Sheikha, A. F., and P. Menozzi. 2019. Potential geo-tracing tool for migrant insects by using 16S rDNA fingerprinting of bacterial communities by PCR-DGGE. International Journal of Tropical Insect Science. doi:10.1007/s42690-019-00002-z.
   Google Scholar
• Enwall, K., and S. Hallin. 2009. Comparison of T-RFLP and DGGE techniques to assess denitrifier community composition in soil. Letters in Applied Microbiology 48:145–148. doi:10.1111/j.1472-765X.2008.02498.x.
   PubMed Web of Science ®Google Scholar
• Ercolini, D. 2004. PCR-DGGE fingerprinting: Novel strategies for detection of microbes in food. Journal of Microbiological Methods 56:297–314.
   PubMed Web of Science ®Google Scholar
• Ercolini, D. 2013. High-throughput sequencing and metagenomics: Moving forward in the culture-independent analysis of food microbial ecology. Applied and Environmental Microbiology 79 (10):3148–3155. doi:10.1128/AEM.00256-13.
   PubMed Web of Science ®Google Scholar
• Fakruddin, M., and K. S. Bin Mannan. 2013. Methods for analyzing diversity of microbial communities in natural environments. Ceylon Journal of Science 42 (1):19–33. doi:10.4038/cjsbs.v42i1.5896.
   Google Scholar
• Fekete, C., A. Logrieco, G. Giczey, and L. Hornok. 1997. Screening of fungi for the presence of trichodiene synthase encoding sequence by hybridization to the Tri5 gene cloned from. Fusarium poae. Mycopathogia 138 (2):91–97.
   PubMed Web of Science ®Google Scholar
• Fischer, S. G., and L. S. Lerman. 1983. DNA fragments differing by single base-pair substitutions are separated in denaturing electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Proceedings of the National Academy of Sciences of the United States of America 80 (6):1579–1583.
   PubMed Web of Science ®Google Scholar
• Flórez, A. B., and B. Mayo. 2006. Microbial diversity and succession during the ´ manufacture and ripening of traditional, Spanish, blue-veined Cabrales cheese, as determined by PCR-DGGE. International Journal of Food Microbiology 110:165–171. doi:10.1016/j.ijfoodmicro.2006.04.016.
   PubMed Web of Science ®Google Scholar
• Food and Agriculture Organization (FAO). (2004). Worldwide regulations for mycotoxins in food and feed in 2003. Food Quality and Standards Service (ESNS), FAO Food and Nutrition, pp. 81. Rome. Accessed March 17, 2018. http://www.fao.org/docrep/007/y5499e/y5499e00.htm
   Google Scholar
• Food and Agriculture Organization Statistical (FAOSTAT). (2016). FAOSTAT-Data-Crops-Visualized-Tea. Latest update: November 2016, Retrieved from Accessed March 17, 2018.http://www.fao.org/faostat/en/#data/QC/visualize
   Google Scholar
• Friere, F. C. O., Z. Kozakiewicz, and R. R. M. Paterson. 1999. Preliminary study of mycoflora and mycotoxins from Brazilian cashews. Mycopathologia 145:95–103. doi:10.1023/A:1007081319685.
   PubMed Web of Science ®Google Scholar
• Friere, F. C. O., Z. Kozakiewicz, and R. R. M. Paterson. 2000. Mycoflora and mycotoxins in Brazilian black pepper, white pepper and Brazil nuts. Mycopathologia 149:13–19. doi:10.1023/A:1007241827937.
   PubMed Web of Science ®Google Scholar
• Frisvad, J. C., and R. A. Samson. 1991. Filamentous fungi in foods and feeds: Ecology, spoilage, and mycotoxins production. In Handbook of applied mycology: Volume 3: foods and feeds, ed. D. K. Arora, K. G. Mukerji, and E. H. Marth, 31–68. New York: Marcel Dekker, Inc.
   Google Scholar
• Frisvad, J. C., J. Smedsgaard, R. A. Samson, T. O. Larsen, and U. Thrane. 2007. Fumonisin B-2 production by Aspergillus niger. Journal of Agricultural and Food Chemistry 55:9727–9732. doi:10.1021/jf0718906.
   PubMed Web of Science ®Google Scholar
• Fungaro, M. H. P., and D. Sartori. 2009. An overview on molecular markers for detection of ochratoxigenic fungi in coffee beans. Brazilian Archives of Biology and Technology 52:1–9. doi:10.1590/S1516-89132009000700001.
   Web of Science ®Google Scholar
• Geisen, R. 1996. Multiplex polymerase chain reaction for the detection of potential aflatoxin and sterigmatocystin producing fungi. Systematic and Applied Microbiology 19:388–392. doi:10.1016/S0723-2020(96)80067-1.
   Web of Science ®Google Scholar
• Geisen, R., S. Mulfinger, and L. Niessen. 1998. Detection of Aspergillus flavus in wheat by PCR. Journal of Food Mycology 1:211–218.
   Google Scholar
• Geisen, R., Z. Mayer, A. Karolewiez, and P. F. Färber. 2004. Development of a real time PCR system for detection of Penicillium nordicum and for monitoring ochratoxin A production in foods by targeting the ochratoxin polyketide synthase gene. Systematic and Applied Microbiology 27:501–507. doi:10.1078/0723202041438419.
   PubMed Web of Science ®Google Scholar
• Gil-Serna, J., C. Vázquez, N. Sardiñas, M. T. González-Jaén, and B. Patiño. 2009. Discrimination of the main Ochratoxin A-producing species in Aspergillus section Circumdati by specific PCR assays. International Journal of Food Microbiology 136 (1):83–87. doi:10.1016/j.ijfoodmicro.2009.09.005.
   PubMed Web of Science ®Google Scholar
• Glass, L., and G. C. Donaldson. 1995. Development of primer sets designed for use with the PCR to amplify conserved genes from filamentous ascomycetes. Applied and Environmental Microbiology 61:1323–1330.
   PubMed Web of Science ®Google Scholar
• González-Jaén, M. T., S. Mirete, B. Patiño, E. López-Errasquín, and C. Vázquez. 2004. Genetic markers for the analysis of variability and for production of specific diagnostic sequences in fumonisin-producing strains of Fusarium verticillioides. European Journal of Plant Pathology / European Foundation for Plant Pathology 110:525–532. doi:10.1023/B:EJPP.0000032392.20106.81.
   Web of Science ®Google Scholar
• González-Salgado, A., M. T. González-Jaén, C. Vázquez, and B. Patiño. 2008. Highly sensitive PCR-based detection method specific to Aspergillus flavus in wheat flour. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 25 (6):758–764. doi:10.1080/02652030701765715.
   PubMed Web of Science ®Google Scholar
• González-Toril, E., D. Lara-Astiaso, R. Amils, and A. Aguilera. 2012. Electrophoretic techniques in microbial ecology. In Gel electrophoresis - principles and basics, ed. S. Magdeldin, 257–268. Rijeka: InTech.
   Google Scholar
• Grimm, C., and R. Geisen. 1998. A PCR-ELISA for the detection of potential fumonisin producing Fusarium species. Letters in Applied Microbiology 26:456–462.
   PubMed Web of Science ®Google Scholar
• Güldener, U., K. –. Y. Seong, J. Boddu, S. Cho, F. Trail, J. –. R. Xu, G. Adam, H. –. W. Mewes, G. J. Muehlbauer, and H. C. Kistler. 2006. Development of a Fusarium graminearum Affymetrix GeneChip for profiling fungal gene expression in vitro and in Planta. Fungal Genetics and Biology : FG & B 43:316–325. doi:10.1016/j.fgb.2006.01.005.
   PubMed Web of Science ®Google Scholar
• Gurjar, G., M. Barve, A. Giri, and V. Gupta. 2009. Identification of Indian pathogenic races of Fusarium oxysporum f.sp. ciceris with gene specific, ITS and random markers. Mycologia 101:480–491. doi:10.3852/08-085.
   Web of Science ®Google Scholar
• Hamdouche, Y., J. –. C. Meile, N. D. Nganou, N. Durand, C. Teyssier, and D. Montet. 2016. Discrimination of post-harvest coffee processing methods by microbial ecology analyses. Food Control 65:112–120. doi:10.1016/j.foodcont.2016.01.022.
   Web of Science ®Google Scholar
• Hamdouche, Y., T. Guehi, N. Durand, K. B. D. Kedjebo, D. Montet, and J. –. C. Meile. 2015. Dynamics of microbial ecology during cocoa fermentation and drying: Towards the identification of molecular markers. Food Control 48:117–122. doi:10.1016/j.foodcont.2014.05.031.
   Web of Science ®Google Scholar
• Haruta, S., S. Ueno, I. Egawa, K. Hashiguchi, A. Fujii, M. Nagano, M. Ishii, and Y. Igarashi. 2006. Succession of bacterial and fungal communities during a traditional pot fermentation of rice vinegar assessed by PCR-mediated denaturing gradient gel electrophoresis. International Journal of Food Microbiology 109:79–87. doi:10.1016/j.ijfoodmicro.2006.01.015.
   PubMed Web of Science ®Google Scholar
• Heuer, H., K. Hartung, G. Wieland, I. Kramer, and K. Smalla. 1999. Polynucleotide probes that target a hypervariable region of 16S rRNA genes to identify bacterial isolates corresponding to bands of community fingerprints. Applied and Environmental Microbiology 65:1045–1049.
   PubMed Web of Science ®Google Scholar
• Horžić, D., A. R. Jambrak, A. Belščak-Cvitanović, D. Komes, and V. Lelas. 2012. Comparison of conventional and ultrasound assisted extraction techniques of yellow tea and bioactive composition of obtained extracts. Food and Bioprocess Technology 5:2858–2870. doi:10.1007/s11947-012-0791-z.
   Web of Science ®Google Scholar
• Hymery, N., V. Vasseur, M. Coton, J. Mounier, J. –. L. Jany, G. Barbier, and E. Coton. 2014. Filamentous fungi and mycotoxins in cheese: A review. Comprehensive Reviews in Food Science and Food Safety 13 (4):437–456. doi:10.1111/1541-4337.12069.
   PubMed Web of Science ®Google Scholar
• Iheshiulor, O. O. M., B. O. Esonu, O. K. Chuwuka, A. A. Omede, I. C. Okoli, and I. P. Ogbuewu. 2011. Effects of mycotoxins in animal nutrition: A review. Asian-Australasian Journal of Animal Sciences 5:19–33. doi:10.3923/ajas.2011.19.33.
   Google Scholar
• Jamali, M., M. A. Ebrahimi, M. Karimipour, M. Shams-Ghahfarokhi, N. Dinparast-Djadid, S. Kalantari, Y. Pilehvar-Soltanahmadi, A. Amani, and M. Razzaghi-Abyaneh. 2012. An insight into the distribution, genetic diversity, and mycotoxin production of Aspergillus section Flavi in soils of pistachio orchards. Folia Microbiologica 57 (1):27–36. doi:10.1007/s12223-011-0090-5.
   PubMed Web of Science ®Google Scholar
• Jennings, P., and G. Humphries (2009). Monitoring risks of mycotoxin contamination caused by Fusarium head blight pathogens in winter wheat. HGCA (Project RD-2004-3134) which formed part of the defra-funded CropMonitor project, Project Report No. 459. Accessed March 17, 2018. https://cereals.ahdb.org.uk/media/267716/pr459.pdf
   Google Scholar
• Jennings, P., M. E. Coates, J. A. Turner, E. A. Chandler, and P. Nicholson. 2004. Determination of deoxynivalenol and nivalenol chemotypes of Fusarium culmorum isolates from England and Wales by PCR assay. Plant Pathol 53:182–190. doi:10.1111/j.0032-0862.2004.00985.x.
   Web of Science ®Google Scholar
• Jie, G., Z. Lin, L. Zhang, H. Lv, P. He, and B. Zhao. 2006. Free radical scavenging effect of Pu-erh tea extracts and their protective effect on oxidative damage in human fibroblast cells. Journal of Agricultural and Food Chemistry 54:8058–8064. doi:10.1021/jf061663o.
   PubMed Web of Science ®Google Scholar
• Jurado, M., C. Vázquez, S. Marín, V. Sanchis, and M. T. González-Jaén. 2006. PCR-based strategy to detect contamination with mycotoxigenic Fusarium species in maize. Systematic and Applied Microbiology 29 (8):681–689. doi:10.1016/j.syapm.2006.01.014.
   PubMed Web of Science ®Google Scholar
• Karakousis, A., L. Tan, D. Ellis, H. Alexiou, and P. J. Wormald. 2006. An assessment of the efficiency of fungal DNA extraction methods for maximizing the detection of medically important fungi using PCR. Journal of Microbiological Methods 65:38–48. doi:10.1016/j.mimet.2005.07.009.
   PubMed Web of Science ®Google Scholar
• Kemptner, J., M. Marchetti-Deschmann, R. Mach, I. S. Druzhinina, C. P. Kubicek, and G. Allmaier. 2009. Evaluation of matrix-assisted laser desorption/ionization (MALDI) preparation techniques for surface characterization of intact Fusarium spores by MALDI linear time-of-flight mass spectrometry. Rapid Communications in Mass Spectrometry : RCM 23 (6):877–884. doi:10.1002/rcm.v23:6.
   PubMed Web of Science ®Google Scholar
• Kondo, T., M. Sakurada, S. Okamoto, M. Ono, H. Tsukigi, A. Suzuki, H. Nagasawa, and S. Sakuda. 2001. Effects of aflastatin A, an inhibitor of aflatoxin production, on aflatoxin biosynthetic pathway and glucose metabolism. Aspergillus Parasiticus Journal of Antibiotics 54:650–657. doi:10.7164/antibiotics.54.650.
   PubMed Web of Science ®Google Scholar
• Konietzny, U., and R. Greiner. 2003. The application of PCR in the detection of mycotoxigenic fungi in foods. Brazilian Journal of Microbiology : [Publication of the Brazilian Society for Microbiology] 34:283–300. doi:10.1590/S1517-83822003000400001.
   Web of Science ®Google Scholar
• Kouakou, A. C., K. F. N’Guessan, N. Durand, D. A. Thomas, D. Montet, and M. K. Dje. 2012. Molecular bacterial characterization and free amino acids composition in Ivorian traditional fermented fish produced by two methods. Fisheries Science : FS 78:1125–1136. doi:10.1007/s12562-012-0526-0.
   Web of Science ®Google Scholar
• Kuo, K. L., M. S. Weng, C. T. Chiang, Y. J. Tsai, S. Y. Lin-Shiau, and J. K. Lin. 2005. Comparative studies on the hypolipidemic and growth suppressive effects of oolong, black, Pu-erh, and green tea leaves in rats. Journal of Agricultural and Food Chemistry 53:480–489. doi:10.1021/jf049375k.
   PubMed Web of Science ®Google Scholar
• Kuske, C. R., and B. D. Lindahl. 2013. Metagenomics for study of fungal ecology. In Ecological genomics of the fungi, ed. F. Martin, 281–303. Hoboken: Wiley-Blackwell.
   Google Scholar
• La Guerche, S., C. Garcia, P. Darriet, D. Dubourdieu, and J. Labarère. 2004. Characterization of Penicillium species isolated from grape berries by their internal transcribed spacer (ITS1) sequences and by gas chromatography mass spectrometry analysis of geosmin production. Current Microbiology 48:405–411. doi:10.1007/s00284-003-4176-4.
   PubMed Web of Science ®Google Scholar
• Laforgue, R., L. Guérin, J. J. Pernelle, C. Monnet, J. Dupont, and M. Bouix. 2009. Evaluation of PCR-DGGE methodology to monitor fungal communities on grapes. Journal of Applied Microbiology 107:1208–1218. doi:10.1111/j.1365-2672.2009.04309.x.
   PubMed Web of Science ®Google Scholar
• Lawley, R., L. Curtis, and J. Davis. 2012. Food Safety Hazard Guidebook, 2nd Edition. Cambridge: Royal Society of Chemistry Publishing.
   Google Scholar
• Le Nguyen, D. D. (2008). Determination of geographical origin of fish by DNA fingerprinting of their bacterial community by PCR-DGGE technique (Polymerase Chain Reaction-Denaturing Gradient Gel Electrophoresis). PhD Thesis. Montpellier University 2, Montpellier, France.
   Google Scholar
• Le Nguyen, D. D., H. H. Ngoc, D. Dijoux, G. Loiseau, and D. Montet. 2008. Determination of fish origin by using 16S rDNA fingerprinting of bacterial communities by PCR-DGGE: An application on Pangasius fish from Vietnam. Food Control 19:454–460. doi:10.1016/j.foodcont.2007.05.006.
   Web of Science ®Google Scholar
• Lee, T., D. W. Oh, H. S. Kim, J. Lee, Y. H. Kim, S. H. Yun, and Y. W. Lee. 2001. Identification of deoxynivalenol and nivalenol-producing chemotypes of Gibberella zeae by using PCR. Applied and Environmental Microbiology 67:2966–2972. doi:10.1128/AEM.67.7.2966-2972.2001.
   PubMed Web of Science ®Google Scholar
• Leesing, R. (2005). Identification and validation of specific markers for traceability of aquaculture fish for import/export. Ph.D. Thesis. Montpellier University 2, Montpellier, France.
   Google Scholar
• Leong, S. L., L. T. Hien, T. V. An, N. T. Trang, A. D. Hocking, and E. S. Scott. 2007. Ochratoxin A-producing Aspergilli in Vietnamese green coffee beans. Letters in Applied Microbiology 45:301–306. doi:10.1111/lam.2007.45.issue-3.
   PubMed Web of Science ®Google Scholar
• Lezar, S., and E. Barros. 2010. Oligonucleotide microarray for the identification of potential mycotoxigenic fungi. BMC Microbiology 10:87. doi:10.1186/1471-2180-10-87.
   PubMed Web of Science ®Google Scholar
• Li, S., D. Cullen, M. Hjort, R. Spear, and J. H. Andrews. 1996. Development of an oligonucleotide probe for Aureobasidium pullulans based on the small-subunit rRNA gene. Applied and Environmental Microbiology 62 (5):1514–1518.
   PubMed Web of Science ®Google Scholar
• Lindahl, B. D., R. H. Nilsson, L. Tedersoo, K. Abarenkov, T. Carlsen, R. Kjøller, U. Kõljalg, T. Pennanen, S. Rosendahl, J. Stenlid, et al. 2013. Fungal community analysis by high-throughput sequencing of amplified markers – A user’s guide. The New Phytologist 199:288–299. doi:10.1111/nph.12243.
   PubMed Web of Science ®Google Scholar
• Ling, T. J., X. C. Wan, W. W. Ling, Z. Z. Zhang, T. Xia, D. X. Li, and R. Y. Hou. 2010. New triterpenoids and other constituents from a special microbial-fermented tea — Fuzhuan brick-tea. Journal of Agricultural and Food Chemistry 58:4945–4950. doi:10.1021/jf9043524.
   PubMed Web of Science ®Google Scholar
• Louws, F. J., J. L. W. Rademaker, and F. J. Brujin. 1999. The three Ds of PCR-based genomic analysis of phytobacteria: Diversity, detection, and disease diagnosis. Annual Review of Phytopathology 37:81–125. doi:10.1146/annurev.phyto.37.1.81.
   PubMed Web of Science ®Google Scholar
• Ly, F. D. (2007). Denaturing gradient gel electrophoresis (DGGE): An overview. The Science Creative Quarterly, Accessed March 17, 2018. http://www.scq.ubc.ca/denaturing-gradient-gel-electrophoresis-dgge-an-overview/
   Google Scholar
• Madigan, M. T., J. M. Martinko, P. V. Dunlap, and D. P. Clark. 2009. Brock biology of microorganisms. 12th ed. California: Pearson Education Inc.
   Google Scholar
• Maheshwar, P. K., S. A. Moharram, and G. R. Janardhana. 2009. Detection of fumonisin producing Fusarium verticillioides in paddy (Oryza sativa L.) using polymerase chain reaction (PCR). Brazilian Journal of Microbiology : [Publication of the Brazilian Society for Microbiology] 40 (1):134–138. doi:10.1590/S1517-83822009000100023.
   PubMed Web of Science ®Google Scholar
• Martins, M. L., H. M. Martins, and A. Gimeno. 2003. Incidence of microflora and of ochratoxin A in green coffee beans (Coffea arabica). Food Additives and Contaminants 20:1127–1131. doi:10.1080/02652030310001620405.
   PubMed Web of Science ®Google Scholar
• Mayer, Z., A. Bagnara, P. Färber, and R. Geisen. 2003. Quantification of the copy number of nor-1, a gene of the aflatoxin biosynthetic pathway by real-time PCR, and its correlation to the cfu of Aspergillus flavus in foods. International Journal of Food Microbiology 82:143–151.
   PubMed Web of Science ®Google Scholar
• McArthur, F. A., M. O. Bärlocher, N. A. B. McLean, M. D. Hiltz, and F. Bärlocher. 2001. Asking probing questions: Can fluorescent in situ hybridization identify and localize aquatic hyphomycetes on leaf litter?. International Review of Hydrobiology 86:429–438. doi:10.1002/1522-2632(200107)86:4/5<429::AID-IROH429>3.0.CO;2-9.
   Web of Science ®Google Scholar
• McCracken, V. J., J. M. Simpson, R. I. Mackie, and H. R. Gaskins. 2001. Molecular ecological analysis of dietary and antibiotic-induced alterations of the mouse intestinal microbiota. The Journal of Nutrition 131:1862–1870. doi:10.1093/jn/131.6.1862.
   PubMed Web of Science ®Google Scholar
• Midorikawa, G. E. O., R. N. G. Miller, and D. M. C. Bittencourt. 2018. Molecular identification and detection of food and feed-borne mycotoxigenic fungi. In Molecular techniques in food biology: safety, biotechnology, authenticity & traceability, ed. A. F. El Sheikha, R. E. Levin, and J. Xu, 385–407. 1st ed. Chichester: John Wiley & Sons, Ltd.
   Google Scholar
• Miller, D. J., and L. H. Trenholm. 1994. Mycotoxins in grain: Compounds other than aflatoxin. Minnesota: Eagan Press.
   Google Scholar
• Mo, H. Z., H. Zhang, Y. Q. Li, and Y. Zhu. 2008a. Antimicrobial activity of the indigenously microbial fermented Fuzhuan brick-tea. Journal of Biotechnology 136:S722. doi:10.1016/j.jbiotec.2008.07.1719.
   Web of Science ®Google Scholar
• Mo, H. Z., Y. Zhu, and Z. M. Chen. 2008b. Microbial fermented tea — A potential source of natural food preservatives. Trends in Food Science and Technology 19:124–130. doi:10.1016/j.tifs.2007.10.001.
   Web of Science ®Google Scholar
• Moeseneder, M. M., J. M. Arrieta, G. Muyzer, C. Winter, and G. J. Herndl. 1999. Optimization of terminal restriction fragment length polymorphism analysis for complex marine bacterioplankton communities and comparison with denaturing gradient gel electrophoresis. Applied and Environmental Microbiology 65:3518–3525.
   PubMed Web of Science ®Google Scholar
• Möller, E. M., J. Chelkowski, and H. H. Geiger. 1999. Species-specific PCR assays for the fungal pathogens Fusarium moniliforme and Fusarium subglutinans and their application to diagnose maize ear rot disease. Journal of Phytopathology 147:497–508. doi:10.1111/j.1439-0434.1999.tb03856.x.
   Web of Science ®Google Scholar
• Moretti, A., and A. Susca. 2010. Fusarium. In Molecular detection of foodborne pathogens, ed. D. Liu, 577–592. Boca Raton, Florida: CRC Press.
   Google Scholar
• Moretti, A., C. Waalwijk, and R. Geisen. 2014. Identification of Fusarium spp. and Penicillium verrucosum in the wheat grain chain. In Mycotoxin reduction in grain chains, ed. J. F. Leslie and A. F. Logrieco, 151–168. Oxford: John Wiley & Sons, Inc.
   Google Scholar
• Moretti, A., A. Susca, G. Mulé, A. F. Logrieco, and R. H. Proctor. 2013. Molecular biodiversity of mycotoxigenic fungi that threaten food safety. International Journal of Food Microbiology 167 (1):57–66. doi:10.1016/j.ijfoodmicro.2013.06.033.
   PubMed Web of Science ®Google Scholar
• Mostafa, A. T., A. Armin, P. Hamid, and A. M. Reza. 2012. Rapid detection methods for analysis of fungi and mycotoxins in agriculture products. Research Journal of Recent Sciences 1:90–98.
   Google Scholar
• Munaut, F., F. Van Hove, and A. Moretti. 2011. Molecular identification of mycotoxigenic fungi in food and feed. In Determining mycotoxins and mycotoxigenic fungi in food and feed, ed. S. De Saeger, 298–331. Cambridge: Woodhead Publishing Limited.
   Google Scholar
• Muyzer, G. 1999. DGGE/TGGE a method for identifying genes from natural ecosystems. Current Opinion in Microbiology 2:317–322. doi:10.1016/S1369-5274(99)80044-7.
   PubMed Web of Science ®Google Scholar
• Muyzer, G., T. Brinkoff, U. Nübel, C. Santegoeds, H. Schäfer, and C. Wawer. 2004. Denaturing gradient gel electrophoresis (DGGE) in microbial ecology. In Molecular microbial ecology manual, ed. G. A. Kowalchuk, F. J. de Bruijn, I. M. Head, A. D. L. Akkermans, and J. D. van Elsas, 743–770. 2nd ed. Dordrecht: Kluwer academic publishers.
   Google Scholar
• Muyzer, G., E. C. De Waal, and A. G. Uitterlinden. 1993. Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Applied and Environmental Microbiology 59:695–700.
   PubMed Web of Science ®Google Scholar
• Nagaraj, D., C. R. Adkar-Purushothama, and M. Y. Sreenivasa. 2016a. Multiplex PCR for the early detection of fumonisin producing Fusarium verticillioides. Food Bioscience 13:84–88.
   Web of Science ®Google Scholar
• Nagaraj, D., C. R. Adkar-Purushothama, and M. Y. Sreenivasa. 2016b. Nested PCR method for the early detection of fumonisin producing Fusarium verticillioides in pure cultures, cereal samples and plant parts. Food Biotechnology 30 (1):18–29. doi:10.1080/08905436.2015.1129502.
   Web of Science ®Google Scholar
• Naroei, K., and M. Salari. 2015. Reliable detection of the fungal pathogen, molecular detection and identification. Fusarium oxysporum Biology Forum 7 (2):473–492.
   Google Scholar
• Nelson, K. E. 2003. The future of microbial genomics. Environmental Microbiology 5:1223–1225.
   PubMed Web of Science ®Google Scholar
• Nganou, N. D., N. Durand, N. L. Tatsadjieu, I. Métayer, D. Montet, and C. M. F. Mbufung. 2014. Fungal flora and ochratoxin A associated with coffee in Cameroon. British Microbiology Research Journal 4:1–17. doi:10.9734/BMRJ/2014/4284.
   Google Scholar
• Nganou, N. D., N. Durand, N. L. Tatsadjieu, J.-C. Meile, A. F. El Sheikha, D. Montet, and C. M. Mbufung. 2012. Determination of coffee origin by using 28S rDNA fingerprinting of fungal communities by PCR-DGGE: Application to the Cameroonian coffee. International Journal of Biosciences 2:18–30.
   Google Scholar
• Nicholson, P. 2004. Rapid detection of mycotoxigenic fungi in plants. In Mycotoxins in food: Detection and control, ed. N. Magan and M. Olsen, 111–136. Cambridge: Woodhead Publishing Limited.
   Google Scholar
• Nicholson, P., D. R. Simpson, G. Weston, H. N. Rezanoor, A. K. Lees, D. W. Parry, and D. Joyce. 1998. Detection and quantification of Fusarium culmorum and Fusarium graminearum in cereals using PCR assays. Physiological and Molecular Plant Pathology 53:17–37. doi:10.1006/pmpp.1998.0170.
   Web of Science ®Google Scholar
• Nicolaisen, M., A. F. Justesen, U. Thrane, P. Skouboe, and K. Holmstrøm. 2005. An oligonucleotide microarray for the identification and differentiation of trichothecene producing and non-producing Fusarium species occurring on cereal grain. Journal of Microbiological Methods 62:57–69. doi:10.1016/j.mimet.2005.01.009.
   PubMed Web of Science ®Google Scholar
• Nielsen, K. F., and J. Smedsgaard. 2003. Fungal metabolite screening: Database of 474 mycotoxins and fungal metabolites for dereplication by standardised liquid chromatography–UV–mass spectrometry methodology. Journal of Chromatography A 1002:111–136. doi:10.1016/S0021-9673(03)00490-4.
   PubMed Web of Science ®Google Scholar
• Niessen, L. 2007. Current trends in molecular diagnosis of ochratoxin A producing fungi. In Mycotechnology—Present status and future prospects, ed. M. Rai, 84–105. New Delhi: International Publishing House.
   Google Scholar
• Niessen, L., and R. F. Vogel. 1998. Group specific PCR-detection of potential trichothecene-producing Fusarium-species in pure cultures and cereal samples. Systematic and Applied Microbiology 21:618–631. doi:10.1016/S0723-2020(98)80018-0.
   PubMed Web of Science ®Google Scholar
• Nikolcheva, L. G., and F. Bärlocher. 2005. Seasonal and substrate preferences of fungi colonizing leaves in streams: Traditional versus molecular evidence. Environmental Microbiology 7:270–280. doi:10.1111/j.1462-2920.2005.00757.x.
   PubMed Web of Science ®Google Scholar
• O’Brian, G. R., A. M. Fakhoury, and G. A. Payne. 2003. Identification of genes differentially expressed during aflatoxin biosynthesis in Aspergillus flavus and Aspergillus parasiticus. Fungal Genetics and Biology : FG & B 39:118–127.
   PubMed Web of Science ®Google Scholar
• O’Donnell, K., H. C. Kistler, B. K. Tacke, and H. H. Casper. 2000. Gene genealogies reveal global phylogeographic structure and reproductive isolation among lineages of Fusarium graminearum, the fungus causing wheat scab. Proceedings of the National Academy of Sciences of the United States of America 97:7905–7910. doi:10.1073/pnas.130193297.
   PubMed Web of Science ®Google Scholar
• Ogino, A., H. Koshikawa, T. Nakahara, and H. Uchiyama. 2001. Succession of microbial communities during a biostimulation process as evaluated by DGGE and clone library analyses. Journal of Applied Microbiology 91:625–635. doi:10.1046/j.1365-2672.2001.01424.x.
   PubMed Web of Science ®Google Scholar
• Oulas, A., C. Pavloudi, P. Polymenakou, G. A. Pavlopoulos, N. Papanikolaou, G. Kotoulas, C. Arvanitidis, and I. Iliopoulos. 2015. Metagenomics: Tools and insights for analyzing next-generation sequencing data derived from biodiversity studies. Bioinformatics and Biology Insights 9:75–88. doi:10.4137/BBI.S12462.
   PubMed Web of Science ®Google Scholar
• Parry, D. W., and P. Nicholson. 1996. Development of a PCR assay to detect Fusarium poae in wheat. Plant Pathol 45:383–391. doi:10.1046/j.1365-3059.1996.d01-133.x.
   Web of Science ®Google Scholar
• Paterson, R. R. M. 2006a. Identification and quantification of mycotoxigenic fungi by PCR. Process Biochemistry (Barking, London, England) 41:1467–1474. doi:10.1016/j.procbio.2006.02.019.
   Web of Science ®Google Scholar
• Paterson, R. R. M. 2006b. Primers from the isoepoxydon dehydrogenase gene of the patulin biosynthetic pathway to indicate critical control points for patulin contamination of apples. Food Control 7:741–744. doi:10.1016/j.foodcont.2005.04.016.
   Google Scholar
• Paterson, R. R. M., and N. Lima. 2010. How will climate change affect mycotoxins in food? Food Research International 43:1902–1914.
   Web of Science ®Google Scholar
• Paterson, R. R. M., and N. Lima. 2014. Self mutagens affect detrimentally PCR analysis of food fungi by creating potential mutants. Food Control 35:329–337. doi:10.1016/j.foodcont.2013.07.024.
   Web of Science ®Google Scholar
• Paterson, R. R. M., S. Archer, Z. Kozakiewicz, A. Lea, T. Locke, and E. O´Grady. 2000. A gene probe for the patulin metabolic pathway with potential for use in patulin and novel disease control. Biocontrol Science and Technology 10:509–512. doi:10.1080/09583150050115098.
   Web of Science ®Google Scholar
• Peres, B., N. Barlet, G. Loiseau, and D. Montet. 2007. Review of the current methods of analytical traceability allowing determination of the origin of foodstuffs. Food Control 18:228–235. doi:10.1016/j.foodcont.2005.09.018.
   Web of Science ®Google Scholar
• Phelps, T. J., A. V. Palumbo, and A. S. Beliaev. 2002. Metabolomics and microarrays for improved understanding of phenotype characteristics controlled by both genomics and environmental constraints. Current Opinion in Biotechnology 13:20–24. doi:10.1016/S0958-1669(02)00279-3.
   PubMed Web of Science ®Google Scholar
• Pinotti, L., M. Ottoboni, C. Giromini, V. Dell’Orto, and F. Cheli. 2016. Mycotoxin contamination in the EU feed supply chain: A focus on cereal byproducts. Toxins 8 (2):45. doi:10.3390/toxins8020045.
   PubMed Web of Science ®Google Scholar
• Piterina, A. V., and J. T. Pembroke. 2013. Use of PCR-DGGE based molecular methods to analyse microbial community diversity and stability during the thermophilic stages of an ATAD wastewater sludge treatment process as an aid to performance monitoring. ISRN Biotechnol 2013 Article ID 162645. doi: 10.5402/2013/162645.
   PubMedGoogle Scholar
• Quintero, W. V., and G. Zafra. 2016. Use of molecular tools to monitor microbial communities during the bioremediation of polycyclic aromatic hydrocarbon-contaminated soils. Journal of Industrial Pollution Control 32 (2):534–543.
   Google Scholar
• Ramana, M. V., K. Balakrishna, H. C. S. Murali, and H. V. Batra. 2011. Multiplex PCR-based strategy to detect contamination with mycotoxigenic Fusarium species in rice and fingermillet collected from southern India. Journal of the Science of Food and Agriculture 91:1666–1673. doi:10.1002/jsfa.4365.
   PubMed Web of Science ®Google Scholar
• Rashmi, R., M. V. Ramana, R. Shylaja, S. R. Uppalapati, H. S. Murali, and H. V. Batra. 2013. Evaluation of a multiplex PCR assay for concurrent detection of four major mycotoxigenic fungi from foods. Journal of Applied Microbiology 114 (3):819–827. doi:10.1111/jam.2013.114.issue-3.
   PubMed Web of Science ®Google Scholar
• Reddy, K. R. N., N. I. Farhana, B. Salleh, and C. A. F. Oliveira. 2010. Microbiological control of mycotoxins: Present status and future concerns. In Current research, technology and education topics in applied microbiology and microbial biotechnology, ed. A. Méndez-Vilas, 1078–1086. Badajoz: Formatex Research Center.
   Google Scholar
• Renouf, V. (2006). Description and characterization of microbial diversity during wine-making: Interactions and-balances relationship with wine quality. PhD Thesis. The National Polytechnic Institute, Toulouse, France.
   Google Scholar
• Resanović, R. D., M. Z. Vučićević, J. B. N. Trailović, D. N. Maslić-Strižak, and V. M. Jaćević. 2013. Mycotoxins and their effect on human health. Matica Srpska Journal for Natural Sciences 124:315–324. doi:10.2298/ZMSPN1324315R.
   Google Scholar
• Rettedal, E. A., S. Clay, and V. S. Brözel. 2010. GC-clamp primer batches yield 16S rRNA gene amplicon pools with variable GC clamps, affecting denaturing gradient gel electrophoresis profiles. FEMS Microbiology Letters 312 (1):55–62. doi:10.1111/j.1574-6968.2010.02097.x.
   PubMed Web of Science ®Google Scholar
• Richard, G. –. F., A. Kerrest, and B. Dujon. 2008. Comparative genomics and molecular dynamics of DNA repeats in eukaryotes. Microbiology and Molecular Biology Reviews : MMBR 72:686–727. doi:10.1128/MMBR.00011-08.
   PubMed Web of Science ®Google Scholar
• Riemann, L., and A. Winding. 2001. Community dynamics of free-living and particle associated bacterial assemblages during a freshwater phytoplankton bloom. Microbial Ecology 42:274–285. doi:10.1007/s00248-001-0018-8.
   PubMed Web of Science ®Google Scholar
• Rodrigues, P., C. Santos, A. Venâncio, and N. Lima. 2011. Species identification of Aspergillus section Flavi isolates from Portuguese almonds using phenotypic, including MALDI-TOF ICMS, and molecular approaches. Journal of Applied Microbiology 111 (4):877–892. doi:10.1111/j.1365-2672.2011.05116.x.
   PubMed Web of Science ®Google Scholar
• Rossen, L., P. Nørskov, K. Holmstrøm, and O. F. Rasmussen. 1992. Inhibition of PCR by components of food samples, microbial diagnostic assays and DNA-extraction solutions. International Journal of Food Microbiology 17:37–45. doi:10.1016/0168-1605(92)90017-W.
   PubMed Web of Science ®Google Scholar
• Rychlik, T., A. Szwengiel, M. Bednarek, E. Arcuri, D. Montet, B. Mayo, J. Nowak, and Z. Czarnecki. 2017. Application of the PCR-DGGE technique to the fungal community of traditional Wielkopolska fried ripened curd cheese to determine its PGI authenticity. Food Control 73:1074–1081. doi:10.1016/j.foodcont.2016.10.024.
   Web of Science ®Google Scholar
• Sadhasivam, S., M. Britzi, V. Zakin, M. Kostyukovsky, A. Trostanetsky, E. Quinn, and E. Sionov. 2017. Rapid detection and identification of mycotoxigenic fungi and mycotoxins in stored wheat grain. Toxins 9 (10):E302. doi:10.3390/toxins9100302.
   PubMed Web of Science ®Google Scholar
• Sage, L., D. Garon, and F. Seigle-Murandi. 2004. Fungal microflora and ochratoxin A risk in French vineyards. Journal of Agricultural and Food Chemistry 52:5764–5768. doi:10.1021/jf049497c.
   PubMed Web of Science ®Google Scholar
• Sails, A. D. 2013. Applications in clinical microbiology. In Real-time PCR: Advanced technologies and applications, ed. N. A. Saunders and M. A. Lee, 123–158. Norfolk: Caister Academic Press.
   Google Scholar
• Samsudin, N. I. P., and N. Abdullah. 2013. A preliminary survey on the occurrence of mycotoxigenic fungi and mycotoxins contaminating red rice at consumer level in Selangor, Malaysia. Mycotoxin Research 29 (2):89–96. doi:10.1007/s12550-012-0154-7.
   PubMed Web of Science ®Google Scholar
• Sano, M., Y. Takenaka, R. Kojima, S. Saito, I. Tomita, M. Katou, and S. Shibuya. 1986. Effects of Pu-erh tea on lipid metabolism in rats. Chemical & Pharmaceutical Bulletin 34:221–228. doi:10.1248/cpb.34.221.
   PubMed Web of Science ®Google Scholar
• Sardiñas, N., C. Vázquez, J. Gil-Serna, M. T. González-Jaén, and B. Patiño. 2010. Specific detection of Aspergillus parasiticus in wheat flour using a highly sensitive PCR assay. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 27 (6):853–858. doi:10.1080/02652030903225799.
   PubMed Web of Science ®Google Scholar
• Schmidt, H. (2003). Classification, identification and detection of toxigenic moulds. PhD Thesis. Technischen Universität München, Freising, Germany.
   Google Scholar
• Schmidt, H., M. Ehrmann, R. F. Vogel, M. H. Taniwaki, and L. Niessen. 2003. Molecular typing of Aspergillus ochraceus and construction of species specific SCAR-primers based on AFLP. Systematic and Applied Microbiology 26:138–146. doi:10.1078/072320203322337434.
   PubMed Web of Science ®Google Scholar
• Schnerr, H., R. F. Vogel, and L. Niessen. 2002. Correlation between DNA of trichothecene-producing Fusarium species and deoxynivalenol concentrations in wheat-samples. Letters in Applied Microbiology 35:121–125. doi:10.1046/j.1472-765X.2002.01146.x.
   PubMed Web of Science ®Google Scholar
• Schoch, C. L., K. A. Seifert, S. Huhndorf, V. Robert, J. L. Spouge, C. A. Levesque, and W. Chen. 2012. Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for fungi. Proceedings of the National Academy of Sciences. Fungal Barcoding Consortium. 109:6241–6246. doi:10.1073/pnas.1117018109.
   PubMed Web of Science ®Google Scholar
• Serra, R., A. Braga, and A. Venancio. 2005. Mycotoxin-producing and other fungi isolated from grapes for wine production, with particular emphasis on ochratoxin A. Research in Microbiology 156:515–521. doi:10.1016/j.resmic.2004.09.010.
   PubMed Web of Science ®Google Scholar
• Shapira, R., N. Paster, O. Eyal, M. Menasherov, A. Mett, and R. Salomon. 1996. Detection of aflatoxigenic molds in grains by PCR. Applied and Environmental Microbiology 62:3270–3273.
   PubMed Web of Science ®Google Scholar
• Sheffield, V. C., D. R. Cox, L. S. Lerman, and R. M. Myers. 1989. Attachment of a 40-base-pair G + C-rich sequence (GC-clamp) to genomic DNA fragments by the polymerase chain reaction results in improved detection of single-base changes. Proceedings of the National Academy of Sciences of the United States of America 86:232–236. doi:10.1073/pnas.86.1.232.
   PubMed Web of Science ®Google Scholar
• Sidhu, G. S. 2002. Mycotoxin genetics and gene clusters. European Journal of Plant Pathology / European Foundation for Plant Pathology 108:705–711. doi:10.1023/A:1020613413483.
   Web of Science ®Google Scholar
• Silva, C. F., R. F. Schwan, E. S. Dias, and A. E. Wheals. 2000. Microbial diversity during maturation and natural processing of coffee cherries of Coffea arabica in Brazil. International Journal of Food Microbiology 60:251–260. doi:10.1016/S0168-1605(00)00315-9.
   PubMed Web of Science ®Google Scholar
• Simpson, J. M., V. J. McCracken, B. A. White, H. R. Gaskins, and R. I. Mackie. 1999. Application of denaturant gradient gel electrophoresis for the analysis of the porcine gastrointestinal microbiota. Journal of Microbiological Methods 36:167–179. doi:10.1016/S0167-7012(99)00029-9.
   PubMed Web of Science ®Google Scholar
• Simpson, J. M., V. J. McCracken, H. R. Gaskins, and R. I. Mackie. 2000. Denaturing gradient gel electrophoresis analysis of 16S ribosomal DNA amplicons to monitor changes in fecal bacterial populations of weaning pigs after introduction of Lactobacillus reuterii strain MM53. Applied and Environmental Microbiology 66:4705–4714. doi:10.1128/AEM.66.11.4705-4714.2000.
   PubMed Web of Science ®Google Scholar
• Singhal, N., M. Kumar, P. K. Kanaujia, and J. S. Virdi. 2015. MALDI-TOF mass spectrometry: An emerging technology for microbial identification and diagnosis. Frontiers in Microbiology 6:791. doi:10.3389/fmicb.2015.00791.
   PubMed Web of Science ®Google Scholar
• Smit, S., J. Widmann, and R. Knight. 2007. Evolutionary rates vary among rRNA structural elements. Nucleic Acids Research 35 (10):3339–3354. doi:10.1093/nar/gkm101.
   PubMed Web of Science ®Google Scholar
• Sodeko, O. O., Y. S. Izuagbe, and M. E. Ukhun. 1987. Effect of different preservative treatment on the microbial population of Nigerian orange juice. Microbios 51:133–143.
   PubMedGoogle Scholar
• Spadaro, D., S. Patharajan, A. Lorè, A. Garibaldi, and M. L. Gullino. 2012. Ochratoxigenic black species of Aspergilli in grape fruits of northern Italy identified by an improved PCR-RFLP procedure. Toxins 4 (2):42–54. doi:10.3390/toxins4020042.
   PubMed Web of Science ®Google Scholar
• Sreenivasa, M. Y., M. T. González-Jaen, R. S. Dass, A. P. C. Raj, and G. R. Janardhana. 2010. A PCR-based assay for the detection and differentiation of potential fumonisin producing Fusarium verticillioides isolated from Indian Maize Kernels. Food Biotechnology 22:160–170. doi:10.1080/08905430802043206.
   Web of Science ®Google Scholar
• Stark, A. –. A. 2010. Molecular mechanism of detection of aflatoxins and other mycotoxins. In Mycotoxins in food, feed and bioweapons, ed. M. Rai and A. Varma, 21–37. Heidelberg: Springer‐Verlag.
   Google Scholar
• Storari, M., R. von Rohr, I. Pertot, C. Gessler, and G. A. Broggini. 2013. Identification of ochratoxin A producing Aspergillus carbonarius and A. niger clade isolated from grapes using the loop-mediated isothermal amplification (LAMP) reaction. Journal of Applied Microbiology 114 (4):1193–1200. doi:10.1111/jam.12139.
   PubMed Web of Science ®Google Scholar
• Suarez-Quiroz, M. L., O. González-Rios, M. Barel, B. Guyot, S. Schorr-Galindo, and J. P. Guiraud. 2004. Effect of chemical and environmental factors on Aspergillus ochraceus growth and toxigenesis in non-ripe coffee. Food Microbiology 21:629–634. doi:10.1016/j.fm.2004.03.005.
   Web of Science ®Google Scholar
• Suttajit, M. 1989. Prevention and control of mycotoxins. In Mycotoxin prevention and control in food grains. Regional Training Course on Mycotoxin Prevention and Control in Foodgrains sponsored by the Bangkok-based UNDP/FAO Regional Network for Inter-Country Cooperation on Postharvest Technology and Quality Control of FoodGrains (REGNET) and the ASEAN Grain Postharvest Programme (AGPP). ed. R. L. Semple, A. S. Frio, P. A. Hicks, and J. V. Lozare. Rome: FAO. http://www.fao.org/docrep/X5036E/x5036E0q.htm#Prevention%20and%20control%20of%20mycotoxins/.
   Google Scholar
• Suzuki, F., A. Koba, and T. Nakajima. 2010. Simultaneous identification of species and trichothecene chemotypes of Fusarium asiaticum and F. graminearum sensu stricto by multiplex PCR. Journal of General Plant Pathology 76:31–36. doi:10.1007/s10327-009-0206-9.
   Web of Science ®Google Scholar
• Sweeney, M. J., and A. D. W. Dobson. 1998. Mycotoxin production by Aspergillus, Fusarium and Penicillium species. International Journal of Food Microbiology 43:141–158. doi:10.1016/S0168-1605(98)00112-3.
   PubMed Web of Science ®Google Scholar
• Talaam, K. K. (2015). Mycotoxigenic fungi and mycotoxin contamination of traditionally fermented milk (Mursik) in soliat location kericho county, Kenya. MSc Thesis. Jomo Kenyatta University of Agriculture and Technology, Kenya.
   Google Scholar
• Temmerman, R., I. Scheirlinck, G. Huys, and J. Swings. 2003. Culture-independent analysis of probiotic products by denaturing gradient gel electrophoresis. Applied and Environmental Microbiology 69:220–226. doi:10.1128/AEM.69.1.220-226.2003.
   PubMed Web of Science ®Google Scholar
• Theron, J., and T. E. Cloete. 2000. Molecular techniques for determining microbial diversity and community structure in natural environments. Critical Reviews in Microbiology 26:37–57. doi:10.1080/10408410091154174.
   PubMed Web of Science ®Google Scholar
• Tsui, C. K. M., J. Woodhall, W. Chen, C. A. Lévesque, A. Lau, D. Cor, C. D. Schoen, C. Baschien, M. J. Najafzadeh, and G. S. de Hoog. 2011. Molecular techniques for pathogen identification and fungus detection in the environment. IMA fungus 2 (2):177–189. doi:10.5598/imafungus.2011.02.02.09.
   PubMed Web of Science ®Google Scholar
• Turner, A. S., A. K. Lees, H. N. Rezanoor, and P. Nicholson. 1998. Refinement of PCR-detection of Fusarium avenaceum and evidence from DNA marker studies for phenetic relatedness to. Fusarium tricinctum Plant pathology 47:278–288. doi:10.1046/j.1365-3059.1998.00250.x.
   Web of Science ®Google Scholar
• Umemura, M., H. Koike, N. Nagano, T. Ishii, J. Kawano, N. Yamane, I. Kozone, K. Horimoto, K. Shin-Ya, K. Asai, et al. 2013. MIDDAS-M: Motif-independent de novo detection of secondary metabolite gene clusters through the integration of genome sequencing and transcriptome data. PloS one 8(12): Article ID e84028. doi:10.1371/journal.pone.0084028.
   Web of Science ®Google Scholar
• United States Department of Agriculture (USDA) (2006). Grain fungal diseases and mycotoxin reference. Grain Inspection, Packers and Stockyards Administration. Federal Grain Inspection Service. September 2006, Washington, D.C. Accessed March 17, 2018. https://www.gipsa.usda.gov/fgis/publication/ref/mycobook.pdf
   Google Scholar
• Urban, Z., and M. Svrček. 1988. Czech mycology. Prague: Academia.
   Google Scholar
• van der Wolf, J. M., J. R. C. M. Van Beckhoven, P. J. M. Bonants, and C. D. Schoen. 2001. New technologies for sensitive and specific routine detection of plant pathogenic bacteria. In Plant pathogenic bacteria, ed. S. H. De Boer, 75–77. Dordrecht: Springer.
   Google Scholar
• Vegi, A., and C. E. Wolf-Hall. 2013. Multiplex real-time PCR method for detection and quantification of mycotoxigenic fungi belonging to three different genera. Journal of Food Science 78 (1):1–7. doi:10.1111/1750-3841.12027.
   Web of Science ®Google Scholar
• von Wintzingerode, F. V., U. B. Gobel, and E. Stackebrandt. 1997. Determination of microbial diversity in environmental samples: Pitfalls of PCR-based rRNA analysis. FEMS Microbiology Reviews 21:213–229. doi:10.1111/j.1574-6976.1997.tb00351.x.
   PubMed Web of Science ®Google Scholar
• Wang, J. H., H. P. Li, B. Qu, J. B. Zhang, T. Huang, F. F. Chen, and Y. C. Liao. 2008. Development of a generic PCR Detection of 3-acetyldeoxy-nivalenol-, 15-acetyldeoxynivalenol- and Nivalenol-chemotypes of Fusarium graminearum Clade. International Journal of Molecular Sciences 9:2495–2504. doi:10.3390/ijms9061008.
   PubMed Web of Science ®Google Scholar
• Wheeler, Q. D. 2004. Taxonomic triage and the poverty of phylogeny. Philosophical Transactions of the Royal Society London B: Biological Sciences 359 (1444):571–583. doi:10.1098/rstb.2003.1452.
   PubMed Web of Science ®Google Scholar
• White, T. J., T. Bruns, S. Lees, and J. Taylor. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In PCR Protocols: A guide to methods and applications, ed. D. H. Gelfland, M. A. Innis, J. J. Sninsky, and T. J. White, 315–322. San Diego: Academic Press.
   Google Scholar
• World Health Organization (WHO). (October 2011). Mycotoxins. Children’s Health and the Environment. WHO Training Package for the Health Sector. World Health Organization (WHO), pp. 1–42. Accessed March 17, 2018 http://www.who.int/ceh/capacity/mycotoxins.pdf.
   Google Scholar
• Xu, A., Y. Wang, J. Wen, P. Liu, Z. Liu, and Z. Li. 2011. Fungal community associated with fermentation and storage of Fuzhuan brick-tea. International Journal of Food Microbiology 146 (1):14–22. doi:10.1016/j.ijfoodmicro.2011.01.024.
   PubMed Web of Science ®Google Scholar
• Yoo, K., T. K. Lee, E. J. Choi, J. Yang, S. K. Shukla, S. Hwang, and J. Park. 2016. Approach of molecular methods for the detection and monitoring of microbial communities in bioaerosols: A review. Journal of Environmental Sciences 51:234–247. doi:10.1016/j.jes.2016.07.002.
   Web of Science ®Google Scholar
• Yu, J., Q. Feng, S. H. Wong, D. Zhang, Q. Y. Liang, Y. Qin, L. Tang, H. Zhao, J. Stenvang, Y. Li, et al. 2015. Metagenomic analysis of faecal microbiome as a tool towards targeted non-invasive biomarkers for colorectal cancer. Gut. doi:10.1136/gutjnl-2015-309800.
   Web of Science ®Google Scholar
• Zhang, L., Z. Z. Zhang, Y. B. Zhou, T. J. Ling, and X. C. Wan. 2013. Chinese dark teas: Post fermentation, chemistry and biological activities. Food Research International (Ottawa, Ont.) 53:600–607. doi:10.1016/j.foodres.2013.01.016.
   Web of Science ®Google Scholar