685
Views
10
CrossRef citations to date
0
Altmetric
Genomics

Genome sequence and comparative analyses of atoxigenic Aspergillus flavus WRRL 1519

ORCID Icon, , , , , & show all
Pages 482-493 | Received 24 Sep 2017, Accepted 19 Apr 2018, Published online: 03 Jul 2018

LITERATURE CITED

  • Abbas HK, Weaver MA, Horn BW, Carbone I, Monacell JT, Shier WT. 2011a. Selection of Aspergillus flavus isolates for biological control of aflatoxins in corn. Toxin Reviews 30(2–3):59–70.
  • Abbas HK, Zablotowicz RM, Bruns HA, Abel CA. 2006. Biocontrol of aflatoxin in corn by inoculation with non-aflatoxigenic Aspergillus flavus isolates. Biocontrol Science and Technology 16:437–449.
  • Abbas HK, Zablotowicz R, Horn B, Phillips N, Johnson B, Jin X, Abel C. 2011b. Comparison of major biocontrol strains of non-aflatoxigenic Aspergillus flavus for the reduction of aflatoxins and cyclopiazonic acid in maize. Food Additives and Contaminants 28:198–208.
  • Adhikari BN, Bandyopadhyay R, Cotty PJ. 2016. Degeneration of aflatoxin gene clusters in Aspergillus flavus from Africa and North America. AMB Express 6:62.
  • Alshannaq A, Yu J-H. 2017. Occurrence, toxicity, and analysis of major mycotoxins in food. International Journal of Environmental Research and Public Health 14:632.
  • Andersen MR, Salazar MP, Schaap PJ, van de Vondervoort PJ, Culley D, Thykaer J, Frisvad JC, Nielsen KF, Albang R, Albermann K. 2011. Comparative genomics of citric-acid-producing Aspergillus niger ATCC 1015 versus enzyme-producing CBS 513.88. Genome Research 21:885–897.
  • Atehnkeng J, Ojiambo P, Cotty P, Bandyopadhyay R. 2014. Field efficacy of a mixture of atoxigenic Aspergillus flavus Link: Fr vegetative compatibility groups in preventing aflatoxin contamination in maize (Zea mays L.). Biological Control 72:62–70.
  • Atehnkeng J, Ojiambo P, Ikotun T, Sikora R, Cotty P, Bandyopadhyay R. 2008. Evaluation of atoxigenic isolates of Aspergillus flavus as potential biocontrol agents for aflatoxin in maize. Food Additives and Contaminants 25:1264–1271.
  • Ayalew A, Kimanya M, Matumba L, Bandyopadhyay R, Menkir A, Cotty P. 2017. Controlling aflatoxins in maize in Africa: strategies, challenges and opportunities for improvement. Cambridge, UK: Burleigh Dodds Science Publishing. 24 p.
  • Bandyopadhyay R, Ortega-Beltran A, Akande A, Mutegi C, Atehnkeng J, Kaptoge L, Senghor A, Adhikari B, Cotty P. 2016. Biological control of aflatoxins in Africa: current status and potential challenges in the face of climate change. World Mycotoxin Journal 9:771–789.
  • Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, Lesin VM, Nikolenko SI, Pham S, Prjibelski AD. 2012. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. Journal of Computational Biology 19:455–477.
  • Bennett JW, Klich M. 2003. Mycotoxins. Clinical Microbiology Reviews 16:497–516.
  • Bhatnagar D, Rajasekaran K, Payne G, Brown R, Yu J, Cleveland T. 2008. The ‘omics’ tools: genomics, proteomics, metabolomics and their potential for solving the aflatoxin contamination problem. World Mycotoxin Journal 1:3–12.
  • Blin K, Medema MH, Kazempour D, Fischbach MA, Breitling R, Takano E, Weber T. 2013. antiSMASH 2.0—a versatile platform for genome mining of secondary metabolite producers. Nucleic Acids Research 41(Web server issue): W204–W212.
  • Brown RL, Cotty PJ, Cleveland TE. 1991. Reduction in aflatoxin content of maize by atoxigenic strains of Aspergillus flavus. Journal of Food Protection 54:623–626.
  • Cantarel BL, Korf I, Robb SM, Parra G, Ross E, Moore B, Holt C, Alvarado AS, Yandell M. 2008. MAKER: an easy-to-use annotation pipeline designed for emerging model organism genomes. Genome Research 18:188–196.
  • Chalivendra SC, DeRobertis C, Chang P-K, Damann KE. 2017. Cyclopiazonic acid is a pathogenicity factor for Aspergillus flavus and a promising target for screening germplasm for ear rot resistance. Molecular Plant-Microbe Interactions 30:361–373.
  • Chang P-K, Bhatnagar D, Cleveland TE, Bennett JW. 1995. Sequence variability in homologs of the aflatoxin pathway gene aflR distinguishes species in Aspergillus section Flavi. Applied and Environmental Microbiology 61:40–43.
  • Chang P-K, Ehrlich KC, Fujii I. 2009. Cyclopiazonic acid biosynthesis of Aspergillus flavus and Aspergillus oryzae. Toxins 1:74–99.
  • Chang P-K, Horn BW, Dorner JW. 2005. Sequence breakpoints in the aflatoxin biosynthesis gene cluster and flanking regions in nonaflatoxigenic Aspergillus flavus isolates. Fungal Genetics and Biology 42:914–923.
  • Chen H, Boutros PC. 2011. VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R. BMC Bioinformatics 12:35.
  • Chet I, Inbar J. 1994. Biological control of fungal pathogens. Applied Biochemistry and Biotechnology 48:37–43.
  • Cleveland T, Cotty P. 1991. Invasiveness of Aspergillus flavus isolates in wounded cotton bolls is associated with production of a specific fungal polygalacturonase. Phytopathology 81:155–158.
  • Cleveland TE, Yu J, Fedorova N, Bhatnagar D, Payne GA, Nierman WC, Bennett JW. 2009. Potential of Aspergillus flavus genomics for applications in biotechnology. Trends in Biotechnology 27:151–157.
  • Conesa A, Götz S, García-Gómez JM, Terol J, Talón M, Robles M. 2005. Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 21:3674–3676.
  • Cotty P. 1989. Virulence and cultural characteristics of two Aspergillus flavus strains pathogenic on cotton. Phytopathology 79:808–814.
  • Cotty P. 1994. Influence of field application of an atoxigenic strain of Aspergillus flavus on the populations of A. flavus infecting cotton bolls and on the aflatoxin content of cottonseed. Phytopathology 84:1270–1277.
  • Cotty P, Bayman P. 1993. Competitive exclusion of a toxigenic strain of Aspergillus flavus by an atoxigenic strain. Phytopathology 83:1283–1287.
  • Cotty PJ, Bhatnagar D. 1994. Variability among atoxigenic Aspergillus flavus strains in ability to prevent aflatoxin contamination and production of aflatoxin biosynthetic pathway enzymes. Applied and Environmental Microbiology 60:2248–2251.
  • Dales RE, Miller JD. 2002. Airborne microorganisms and disease-residential buildings-related illness: epidemiologic and case-related evidence. In: Flannigan B, Samson RA, Miller JD, eds. Microorganisms in home and indoor work environments. London, UK: CRC Press. p. 83–99.
  • Diener UL, Cole RJ, Sanders T, Payne GA, Lee LS, Klich MA. 1987. Epidemiology of aflatoxin formation by Aspergillus flavus. Annual Review of Phytopathology 25:249–270.
  • Dorner JW, Cole RJ. 2002. Effect of application of nontoxigenic strains of Aspergillus flavus and A. parasiticus on subsequent aflatoxin contamination of peanuts in storage. Journal of Stored Products Research 38:329–339.
  • Dorner JW, Cole RJ, Wicklow DT. 1999. Aflatoxin reduction in corn through field application of competitive fungi. Journal of Food Protection 62:650–656.
  • Eaton DL, Gallagher EP. 1994. Mechanisms of aflatoxin carcinogenesis. Annual Review of Pharmacology and Toxicology 34:135–172.
  • Elzanowski A, Ostell J. 2016. The Genetic Codes. National Center for Biotechnology Information, Bethesda, Maryland. [cited 2017 July 10]. Available from: https://www.ncbi.nlm.nih.gov/Taxonomy/Utils/wprintgc.cgi
  • Faustinelli PC, Wang XM, Palencia ER, Arias RS. 2016. Genome sequences of eight Aspergillus flavus spp. and one A. parasiticus sp., isolated from peanut seeds in Georgia. Genome Announcements 4:e00278–16.
  • Galagan JE, Calvo SE, Cuomo C, Ma L-J, Wortman JR, Batzoglou S, Lee S-I, Baştürkmen M, Spevak CC, Clutterbuck J. 2005. Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae. Nature 438:1105–1115.
  • Gao K, Masuda A, Matsuura T, Ohno K. 2008. Human branch point consensus sequence is yUnAy. Nucleic Acids Research 36:2257–2267.
  • Garber R, Cotty P. 1997. Formation of sclerotia and aflatoxins in developing cotton bolls infected by the S strain of Aspergillus flavus and potential for biocontrol with an atoxigenic strain. Phytopathology 87:940–945.
  • Giacometti J, Tomljanović AB, Josić D. 2013. Application of proteomics and metabolomics for investigation of food toxins. Food Research International 54:1042–1051.
  • Goldblatt L. 1969. Aflatoxin: scientific background, control, and implications. New York: Academic Press. 56 p.
  • Horn BW, Dorner JW. 2009. Effect of nontoxigenic Aspergillus flavus and A. parasiticus on aflatoxin contamination of wounded peanut seeds inoculated with agricultural soil containing natural fungal populations. Biocontrol Science and Technology 19:249–262.
  • Hruska Z, Rajasekaran K, Yao H, Kincaid R, Darlington D, Brown RL, Bhatnagar D, Cleveland TE. 2014. Co-inoculation of aflatoxigenic and non-aflatoxigenic strains of Aspergillus flavus to study fungal invasion, colonization, and competition in maize kernels. Frontiers in Microbiology 5: 1–7.
  • Hsieh D. 1989. Potential human health hazards of mycotoxins. In: Mycotoxins and phycotoxins. Amsterdam: Elsevier. p. 597–610.
  • Hua S-ST. 2004. Application of a yeast, Pichia anomala strain WRL-076 to control Aspergillus flavus for reducing aflatoxin in pistachio and almond. IOBC-WPRS Bulletin 27:291–294.
  • Hua S-ST, Chang P-K, Palumbo J. 2017. Mycotoxins. In: Witczak A, Sikorski Z, eds. Toxins and other harmful compounds in foods. Boca Baton, Florida: CRC Press. p. 153–168.
  • Hua SS, Grosjean OK, Baker J. 1999. Inhibition of aflatoxin biosynthesis by phenolic compounds. Letters in Applied Microbiology 29:289–291.
  • Hua SST, McAlpin CE, Chang P-K, Sarreal SBL. 2012. Characterization of aflatoxigenic and non-aflatoxigenic Aspergillus flavus isolates from pistachio. Mycotoxin Research 28:67–75.
  • Jarvis BB. 2002. Chemistry and toxicology of molds isolated from water-damaged buildings. Advances in Experimental Medicine and Biology 504:43–52.
  • Johnson LS, Eddy SR, Portugaly E. 2010. Hidden Markov model speed heuristic and iterative HMM search procedure. BMC Bioinformatics 11:431.
  • Kim NY, Lee JH, Lee I, Ji GE. 2014. An evaluation of aflatoxin and cyclopiazonic acid production in Aspergillus oryzae. Journal of Food protection 77:1010–1016.
  • King ED, Bassi ABB Jr, Ross DC, Druebbisch B. 2011. Special double issue—Aspergillus, aflatoxins, cyclopiazonic acid and biological control of aflatoxins: an industry perspective on the use of “atoxigenic” strains of Aspergillus flavus as biological control agents and the significance of cyclopiazonic acid. Toxin Reviews 30 (2–3):33–41.
  • Klich M, Pitt J. 1988. Differentiation of Aspergillus flavus from A. parasiticus and other closely related species. Transactions of the British Mycological Society 91:99–108.
  • Klich MA. 2002. Identification of common Aspergillus species. Utrecht, The Netherlands: Centraalbureau voor Schimmelcultures. 116 p.
  • Klich MA. 2007. Aspergillus flavus: the major producer of aflatoxin. Molecular Plant Pathology 8:713–722.
  • Klich MA, Tang S, Denning DW. 2009. Aflatoxin and ochratoxin production by Aspergillus species under ex vivo conditions. Mycopathologia 168:185–191.
  • Linz JE, Wee J, Roze LV. 2014. Aspergillus parasiticus su-1 genome sequence, predicted chromosome structure, and comparative gene expression under aflatoxin-inducing conditions: evidence that differential expression contributes to species phenotype. Eukaryotic Cell 13:1113–1123.
  • Machida M, Asai K, Sano M, Tanaka T, Kumagai T, Terai G, Kusumoto K-I, Arima T, Akita O, Kashiwagi Y. 2005. Genome sequencing and analysis of Aspergillus oryzae. Nature 438:1157–1161.
  • Mellon JE. 2015. Extracellular xylanolytic and pectinolytic hydrolase production by Aspergillus flavus isolates contributes to crop invasion. Toxins 7:3257–3266.
  • Milićević DR, Škrinjar M, Baltić T. 2010. Real and perceived risks for mycotoxin contamination in foods and feeds: challenges for food safety control. Toxins 2:572–592.
  • Molyneux RJ, Mahoney N, Kim JH, Campbell BC. 2007. Mycotoxins in edible tree nuts. International Journal of Food Microbiology 119:72–78.
  • Nierman WC, Pain A, Anderson MJ, Wortman JR, Kim HS, Arroyo J, Berriman M, Abe K, Archer DB, Bermejo C. 2005. Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus. Nature 438:1151–1156.
  • Nierman WC, Yu J, Fedorova-Abrams ND, Losada L, Cleveland TE, Bhatnagar D, Bennett JW, Dean R, Payne GA. 2015. Genome sequence of Aspergillus flavus NRRL 3357, a strain that causes aflatoxin contamination of food and feed. Genome Announcements 3:e00168–15.
  • Palumbo JD, Baker JL, Mahoney NE. 2006. Isolation of bacterial antagonists of Aspergillus flavus from almonds. Microbial Ecology 52:45–52.
  • Payne G, Nierman W, Wortman J, Pritchard B, Brown D, Dean R, Bhatnagar D, Cleveland T, Machida M, Yu J. 2006. Whole genome comparison of Aspergillus flavus and A. oryzae. Medical Mycology 44 (Supplement1): S9–S11.
  • Peterson SW. 2008. Phylogenetic analysis of Aspergillus species using DNA sequences from four loci. Mycologia 100:205–226.
  • Pitt J, Hocking AD, Glenn DR. 1983. An improved medium for the detection of Aspergillus flavus and A. parasiticus. Journal of Applied Microbiology 54:109–114.
  • Rank C, Klejnstrup ML, Petersen LM, Kildgaard S, Frisvad JC, Held Gotfredsen C, Ostenfeld Larsen T. 2012. Comparative chemistry of Aspergillus oryzae (RIB40) and A. flavus (NRRL 3357). Metabolites 2:39–56.
  • Schroeder H, Boller R. 1973. Aflatoxin production of species and strains of the Aspergillus flavus group isolated from field crops. Applied Microbiology 25:885–889.
  • Shieh M-T, Brown RL, Whitehead MP, Cary JW, Cotty PJ, Cleveland TE, Dean RA. 1997. Molecular genetic evidence for the involvement of a specific polygalacturonase, P2c, in the invasion and spread of Aspergillus flavus in cotton bolls. Applied and Environmental Microbiology 63:3548–3552.
  • Shinohara Y, Tokuoka M, Koyama Y. 2011. Functional analysis of the cyclopiazonic acid biosynthesis gene cluster in Aspergillus oryzae RIB 40. Bioscience, Biotechnology, and Biochemistry 75:2249–2252.
  • Sievers F, Wilm A, Dineen D, Gibson TJ, Karplus K, Li W, Lopez R, McWilliam H, Remmert M, Söding J. 2011. Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Molecular Systems Biology 7:539.
  • Song L, Shankar DS, Florea L. 2016. Rascaf: improving genome assembly with RNA sequencing data. The Plant Genome. Available from: https://www.ncbi.nlm.nih.gov/pubmed/27902792
  • Squire RA. 1981. Ranking animal carcinogens: a proposed regulatory approach. Science 214:877–880.
  • Strosnider H, Azziz-Baumgartner E, Banziger M, Bhat RV, Breiman R, Brune MN, DeCock K, Dilley A, Groopman J, Hell K. 2006. Workgroup report: public health strategies for reducing aflatoxin exposure in developing countries. Environmental Health Perspectives 114:1898–1903.
  • Sullivan MJ, Petty NK, Beatson SA. 2011. Easyfig: a genome comparison visualizer. Bioinformatics 27:1009–1010.
  • Takahashi T, Chang P-K, Matsushima K, Yu J, Abe K, Bhatnagar D, Cleveland TE, Koyama Y. 2002. Nonfunctionality of Aspergillus sojae aflR in a strain of Aspergillus parasiticus with a disrupted aflR gene. Applied and Environmental Microbiology 68:3737–3743.
  • Ter-Hovhannisyan V, Lomsadze A, Chernoff YO, Borodovsky M. 2008. Gene prediction in novel fungal genomes using an ab initio algorithm with unsupervised training. Genome Research 18:1979–1990.
  • Tominaga M, Lee Y-H, Hayashi R, Suzuki Y, Yamada O, Sakamoto K, Gotoh K, Akita O. 2006. Molecular analysis of an inactive aflatoxin biosynthesis gene cluster in Aspergillus oryzae RIB strains. Applied and Environmental Microbiology 72:484–490.
  • Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, Van Baren MJ, Salzberg SL, Wold BJ, Pachter L. 2010. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nature Biotechnology 28:511–515.
  • US Food and Drug Administration. 2000. Guidance for industry: action levels for poisonous or deleterious substances in human food and animal feed. Washington, DC: US Food and Drug Administration. Available from: https://www.fda.gov/Food/GuidanceRegulation/GuidanceDocumentsRegulatoryInformation/ChemicalContaminantsMetalsNaturalToxinsPesticides/ucm07796
  • Whitehead M, Shieh M, Cleveland T, Cary J, Dean R. 1995. Isolation and characterization of polygalacturonase genes (pecA and pecB) from Aspergillus flavus. Applied and Environmental Microbiology 61:3316–3322.
  • Wickham H. 2016. ggplot2: elegant graphics for data analysis. Springer. 260 p.
  • Wild CP, Miller JD, Groopman JD. 2015. Mycotoxin control in low-and middle-income countries. Lyon, France: International Agency for Research on Cancer. Available from: https://www.researchgate.net/profile/J_Miller10/publication/320193880_Mycotoxin_control_in_low-_and_middle-income_countries/links/5a022159a6fdcc55a159d290/Mycotoxin-control-in-low-and-middle-income-countries.pdf
  • Wright GD, Thompson PR. 1999. Aminoglycoside phosphotransferases: proteins, structure, and mechanism. Frontiers in Bioscience 4:D9–D21.
  • Wu F. 2010. The global burden of disease caused by foodborne aflatoxin. WHO Commissioned Report, Foodborne Disease Burden Epidemiology Reference Group (FERG). Geneva, Switzerland: World Health Organization. 17 p. Available from: http://apps.who.int/iris/bitstream/handle/10665/199350/9789241565165_eng.pdf;jsessionid=34E19934AC79947CF4A110839D81A5CE?sequence=1
  • Yu J, Bhatnagar D, Cleveland TE. 2004a. Completed sequence of aflatoxin pathway gene cluster in Aspergillus parasiticus. FEBS Letters 564:126–130.
  • Yu J, Chang P-K, Ehrlich KC, Cary JW, Bhatnagar D, Cleveland TE, Payne GA, Linz JE, Woloshuk CP, Bennett JW. 2004b. Clustered pathway genes in aflatoxin biosynthesis. Applied and Environmental Microbiology 70:1253–1262.
  • Zanon A, Chiotta M, Giaj-Merlera G, Barros G, Chulze S. 2013. Evaluation of potential biocontrol agent for aflatoxin in Argentinean peanuts. International Journal of Food Microbiology 162:220–225.
  • Zeng Z, Zhao F, Hsiang T, Yu Z. 2010. Comparison of genomes between Aspergillus nidulans and 30 filamentous ascomycetes. Yi chuan= Hereditas 32:1195–1202.

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.