Advances in Studies on Genomics of Toxogenic Fungi

doi:10.13560/j.cnki.biotech.bull.1985.2015.02.004

Abstract

Abstract: Mycotoxins, a group of toxins structurally related to secondary metabolites are produced by some fungal strains. It is mainly produced by filamentous fungi, including Trichoderma, Aspergillus, Chaetomium, Penicillium and Rhizopus, existed in agricultural products. Illustrating the genome sequence information of the pathogenic microorganisms in agricultural products, is essential to reveal fungal specific genetic traits. Until to December 2013, a total of 204 species in Ascomycetes and 62 species in Basidiomycete genomic information had been sequenced or published, genomes size from approximately 30 Mb to 40 Mb. This review here provides an overview of available genomic information of toxin-producing fungal or virulent fungus, summarizes the recent development in genome sequencing strategies and main fungal produced mycotoxin, and proposes the future direction of the comparative genomics research on fungi.

Key words: fungi, mycotoxin, agricultural products, genome, comparative genomics

Wang Yan, Liu Yang, Liu Yining. Advances in Studies on Genomics of Toxogenic Fungi[J]. Biotechnology Bulletin, 2015, 31(2): 26-34.

References

[1]Bennett JWKM. Mycotoxins[J]. Clin Microbiol Rev, 2003, 16：497-516.
[2]Hussein HS, Brasel JM. Toxicity, metabolism, and impact of mycotoxins on humans and animals[J]. Toxicology, 2001, 167：101-134.
[3]Chiang YM, Szewczyk E, Davidson AD, et al. A gene cluster containing two fungal polyketide synthases encodes the biosynthetic pathway for apolyketide, asperfuranone, in Aspergillus nidulans[J]. Journal of the American Chemical Society, 2009, 131：2965-2970.
[4]Pel HJ, De Winde JH, Archer DB, et al. Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88[J]. Nature Biotechnology, 2007, 25：221-231.
[5]孙健冬, 高通量测序技术在农作物全基因组序列测定中的应用概览[J]. 生物技术进展, 2012, 2（1）：11-15.
[6]王龑, 许文涛, 赵维薇, 等. 组学技术及其在食品科学中应用的研究进展[J]. 生物技术通报, 2011（11）：005.
[7]刘岩, 吴秉铨. 第三代测序技术：单分子即时测序[J]. 中华病理学杂志, 2011, 40（10）：718-720.
[8]Galagan JE, Calvo SE, Borkovich KA, et al. The genome sequence of the filamentous fungus Neurospora crassa[J]. Nature, 2003, 422：859-868.
[9]Wood V, Gwilliam R, Rajandream MA, et al. The genome sequence of Schizosaccharomyces pombe[J]. Nature, 2002, 415：871-880.
[10]余知和, 高元钢, 曾昭清, 等. 真菌基因组学研究进展[J]. 菌物学报, 2008, 27（5）：778-787.
[11]Nierman WC, Pain A, Anderson MJ, et al. Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus[J]. Nature, 2005, 438：1151-1156.
[12]Machida M, Asai K, Sano M, et al. Genome sequencing and analysis of Aspergillus oryzae[J]. Nature, 2005, 438：1157-1161.
[13]Galagan JE, Calvo SE, Cuomo C, et al. Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae[J]. Nature, 2005, 438：1105-1115.
[14]Van den Berg MA, Albang R, Albermann K, et al. Genome sequencing and analysis of the filamentous fungus Penicillium chrysogenum[J]. Nature Biotechnology, 2008, 26：1161-1168.
[15]Andersen MR, Salazar MP, Schaap PJ, et al. Comparative genomics of citric-acid-producing Aspergillus niger ATCC 1015 versus enzyme-producing CBS 513.88[J]. Genome Research, 2011, 21：885-897.
[16]Ma LJ, Van Der Does HC, Borkovich KA, et al. Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium[J]. Nature, 2010, 464：367-373.
[17]Fedorova ND, Khaldi N, Joardar VS, et al. Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatus[J]. Plos Genetics, 2008, 4：e1000046.
[18]Wilkinson B, Micklefield J. Mining and engineering natural-product biosynthetic pathways[J]. Nature Chemical Biology, 2007, 3：379-386.
[19] Gross H. Genomic mining-a concept for the discovery of new bioactive natural products[J]. Current Opinion In Drug Discovery & Development, 2009, 12：207-219.
[20] Bergmann S, Schümann J, Scherlach K, et al. Genomics-driven discovery of PKS-NRPS hybrid metabolites from Aspergillus nidulans[J]. Nature Chemical Biology, 2007, 3：213-217.
[21] Gallo A, Knox BP, Bruno KS, et al. Identification and characteriz-ation of the polyketide synthase involved in ochratoxin A biosynthe-sis in Aspergillus carbonarius[J]. International Journal of Food Microbiology, 2014, 179：10-17.
[22] Yu J. Current understanding on aflatoxin biosynthesis and future perspective in reducing aflatoxin contamination[J]. Toxins, 2012, 4：1024-1057.
[23] Brakhage AA, Schroeckh V. Fungal secondary metabolites strategies to activate silent gene clusters[J]. Fungal Genetics and Biology, 2011, 48：15-22.
[24] O’Callaghan J, Coghlan A, Abbas A, et al. Functional characterization of the polyketide synthase gene required for ochratoxin A biosynthesis in Penicillium verrucosum[J]. International Journal of Food Microbiology, 2013, 161：172-181.
[25] Atoui A, Phong Dao H, Mathieu F, et al. Amplification and diversity analysis of ketosynthase domains of putative polyketide synthase genes in Aspergillus ochraceus and Aspergillus carbonarius producers of ochratoxin A[J]. Molecular Nutrition & Food Research, 2006, 50：488-493.
[26] Bhatnagar D, Rajasekaran K, Payne G, et al. The ‘omics’ tools：genomics, proteomics, metabolomics and their potential for solving the aflatoxin contamination problem[J]. World Mycotoxin Journal, 2008, 1：3-12.
[27] Yu J, Ronning CM, Wilkinson JR, et al. Gene profiling for studying the mechanism of aflatoxin biosynthesis in Aspergillus flavus and A. parasiticus[J]. Food Additives and Contaminants, 2007, 24：1035-1042.
[28] Yu J, Fedorova ND, Montalbano BG, et al. Tight control of mycotoxin biosynthesis gene expression in Aspergillus flavus by temperature as revealed by RNA-Seq[J]. FEMS Microbiology Letters, 2011, 322：145-149.