Forestry and Agricultural Biotechnology Institute (FABI) · University of Pretoria
Email: tuan.duong@fabi.up.ac.za
Google Scholar: https://scholar.google.com/citations?user=hN07n1wAAAAJ&hl=en · ResearchGate: https://www.researchgate.net/profile/Tuan_Duong
Research groups: DST/NRF Centre of Excellence in Plant Health Biotechnology · Tree Protection Co-operative Programme
Prof Tuan Duong
Professor
About
My research focuses on different aspects of plant pathogenic fungi including taxonomy, population biology, genetics and genomics. I mainly work with species and genera in the Ophiostoatales and Microascales (Ceratocystidaceae) and use these as the systems for pursuing various research questions such as species boundary and speciation, evolution of biological traits, genetics and genomics basis of fungal pathogenicity and host adaptation.
My Publications
Journal Articles (116)
Ndou M, Potts WM, Duong TA, Teske PR, Childs AR, Henriques R (2026) Conspecific scaffold-level genome assembly outperforms heterospecific chromosome-level assemblies for assessing genetic indicators in a threatened marine fish. Evolutionary Applications. 19. doi: 10.1111/eva.70247
Postma A, Klynsmith L, Duong TA, Allison JD, Smidt W, Waterhouse RM, Lesny P, Oeyen JP, Petersen M, Martin S, Liu S, Zhou X, Ziesmann T, Donath A, Mayer C, Misof B, Niehuis O, Peters RS, Podsiadlowski L, Coetzee MPA, Joubert F, Slippers B (2026) Genome and transcriptome-based identification and expression profiling of chemosensory gene families across developmental stages and tissues in Sirex noctilio (Hymenoptera: Siricidae). Insect Molecular Biology. doi: 10.1111/imb.70029
van Heerden A, Pham NQ, Duong TA, Wingfield MJ, Wingfield BD (2026) Draft genome sequence of Ganoderma philippii, a serious root rot pathogen of Eucalyptus in Southeast Asia. Australasian Plant Pathology. 55. doi: 10.1007/s13313-026-01159-1
Comparative analysis of mitochondrial genomes in the Ceratocystidaceae reveals highly conserved gene organization despite substantial genome size variation.
BMC Genomics.
doi: 10.1186/s12864-026-12755-2
Six DL, Marincowitz S, Duong TA (2026)Ophiostoma ipsi-confusi sp. nov. Six, Marinc. & Duong, a consistent symbiotic fungus of the pinyon ips bark beetle, Ips confusus LeConte. Symbiosis. doi: 10.1007/s13199-026-01135-9
Nickles GR, Stokes CK, Narh DL, Lynn KMT, Fuqua SR, Bryan C, Allen BM, Bivins CP, Bok JW, Brewer JS, Buthelezi ST, Clark JPRM, Coon KL, Corby LR, Coetzee MPA, Dewing C, Duong TA, Harris MA, Keller NP, Kopotsa K, Lane FA, Nichols HL, Nieuwoudt A, Nuñez MA, Medina Munoz ME, Park SC, Pham NQ, Ryan KT, Solís M, Vilgalys R, Wallace JM, Wang YW, Wingfield BD, Wingfield MJ, Worley TK, Zallek TA, Zamanian M, Hoeksma JD, Drott M, Pringle A (2026) Equipped for success: Genomes and metabolites of the European Amanita muscaria are conserved in its novel South African range. New Phytologist. doi: 10.1111/nph.71064
Pham NQ, Wingfield MJ, Duong TA, Wingfield BD (2026) Draft genome sequence of Elsinoe masingae: the causal agent of Eucalyptus scab in South Africa. Australasian Plant Pathology. 55. doi: 10.1007/s13313-026-01082-5
Liu QL, Wingfield MJ, Duong TA, Wingfield BD, Crous PW (2026) Taxonomy, distribution and dispersal of Calonectria species: Important pathogens of forestry, agricultural and horticultural crops. Current Forestry Reports. 12. doi: 10.1007/s40725-025-00262-8
Prabhu AS, Naicker P, Duong TA, Govender IS, Engelbrecht J, Backer R, Stoychev SH, van den Berg N (2025) Phosphite inhibits Phytophthora cinnamomi by downregulating oxidoreductases and disrupting energy metabolism. Frontiers in Microbiology. 16. doi: 10.3389/fmicb.2025.1632726
Pham HTL, Tran TV, Duong TA, Tran LD, Tran ATT, Nguyen VTH, Nguyen SV (2025) Classification of Nostoc-like cyanobacteria isolated from paddy soil into Aliinostoc, Aulosira, and Desmonostoc. Frontiers in Microbiology. doi: 10.3389/fmicb.2025.1581725
Wilson AM, Wingfield MJ, Duong TA, Wingfield BD (2025) Thermotolerance and post-fire growth in Rhizina undulata is associated with the expansion of heat stress-related protein families. BMC Genomics. 26. doi: 10.1186/s12864-025-11902-5
Shaw PL, Slippers B, Wingfield BD, Laurent B, Penaud B, Wingfield MJ, Crous PW, Bihon W, Duong TA (2025) Chromosome-level genome assemblies for the latent pine pathogen, Diplodia sapinea, reveal two accessory chromosomes with distinct genomic features and evolutionary dynamics. G3 Genes|Genomes|Genetics. doi: 10.1093/g3journal/jkaf239
Pham NQ, Liu FF, Duong TA, Wingfield BD, Chen SF, Wingfield MJ (2025) Genetic diversity of Calonectria reteaudii isolates from infected Eucalyptus leaves and associated soils indicates a phyllosphere origin of the pathogen. Forest Pathology. 55. doi: 10.1111/efp.70037
Nel WJ, Duong TA, Fell S, Herron DA, Paap T, Wingfield MJ, de Beer ZW, Hulcr J, Johnson AJ (2025) A checklist of South African bark and ambrosia beetles (Coleoptera: Curculionidae: Scolytinae, Platypodinae). Zootaxa. 5648. doi: 10.11646/zootaxa.5648.1.1
Wilson A, van Dijk A, Marx B, du Plessis D, Terblanche G, Bornman S, Wilken PM, Duong TA, De Fine Licht HH, Wingfield BD (2025) Extracting Protoplasts from Filamentous Fungi Using Extralyse, An Enzyme Used in the Wine Industry. Current Protocols. 5. doi: 10.1002/cpz1.70122
Lötter A, Bruna T, Duong TA, Barry K, Lipzen A, Daum C, Yoshinaga Y, Grimwood J, Jenkins JW, Talag J, Borevitz J, Lovell JT, Schmutz J, Wegrzyn JL, Myburg AA (2025) A haplotype-resolved reference genome for Eucalyptus grandis. G3 Genes|Genomes|Genetics. doi: 10.1093/g3journal/jkaf112
Wingfield MJ, Slippers B, Barnes I, Duong AT, Wingfield BD (2025) The Pine pathogen Diplodia sapinea: Expanding frontiers. Current Forestry Reports. 11. doi: 10.1007/s40725-024-00236-2
Li WW, Liu FF, Chen SF, Wingfield MJ, Duong TA (2025) High genetic diversity and limited regional population differentiation in populations of Calonectria pseudoreteaudii from Eucalyptus plantations. Phytopathology. doi: 10.1094/PHYTO-05-24-0154-R
Morrison EW, Duong TA, Garnas JR (2024) A high-quality draft genome sequence of Neonectria faginata, causative agent of beech bark disease of Fagus grandifolia. Microbiology Resource Announcements. doi: 10.1128/mra.01048-23
Ashmore JS, Slippers B, Duong TA, Dittrich-Schröder G (2024) Understanding the genetics of sex determination in insects and its relevance to genetic pest management. Insect Molecular Biology. doi: 10.1111/imb.12982
Liu QL, Wingfield MJ, Duong TA, Wingfield BD, Chen SF (2024) Diversity of Calonectria species from leaves and soils in diseased southern China Eucalyptus plantation. Fungal Biology. 128. doi: 10.1016/j.funbio.2024.07.007
Visagie CM, Cruywagen EM, Duong TA (2024) A new Paecilomyces from wooden utility poles in South Africa. Fungal Systematics and Evolution. 13. doi: 10.3114/fuse.2024.13.10
Aylward J, Wilson AM, Visagie CM, Spraker J, Barnes I, Buitendag C, Ceriani C, Del Mar Angel L, du Plessis D, Fuchs T, Gasser, K, Krämer D, Li W, Munsamy K, Piso A, Price J-L, Sonnekus B, Thomas C, van der Nest A, van Dijk A, van Heerden A, van Vuuren N, Yilmaz N, Duong TA, van der Merwe NA, Wingfield MJ, Wingfield BD (2024) IMA Genome – F19: A genome assembly and annotation guide to empower mycologists, including annotated draft genome sequences of Ceratocystis pirilliformis, Diaporthe australafricana, Fusarium ophioides, Paecilomyces lecythidis, and Sporothrix stenoceras. IMA Fungus. 15. doi: 10.1186/s43008-024-00142-z
Marais I, Buitendag C, Duong TA, Crampton BG, Theron J, Kidanemarium D, Berger DK (2024) Double-stranded RNA uptake for the control of the maize pathogen Cercospora zeina. Plant Pathology. 73. doi: 10.1111/ppa.13909
Pham NQ, Suzuki H, Duong TA, Wingfield BD, Barnes I, Duran A, Wingfield MJ (2024) Cryptic sexual reproduction in an emerging Eucalyptus shoot and foliar pathogen. Plant Pathology. doi: 10.1111/ppa.13876
Wingfield MJ, Pham NQ, Marincowitz S, Duong TA, Wingfield BD, Wilson AM (2024) Blast from the past: a study of decades-old fungal cultures resolves a long-standing tree disease mystery. Journal of Plant Pathology. 106. doi: 10.1007/s42161-023-01502-1
Osborn RK, Castro J, Duong TA, Hulcr J, Li Y, Martínez M, Cognato AI (2023) Symbiotic Fungi Associated With Xyleborine Ambrosia Beetles (Coleoptera: Curculionidae: Scolytinae) and the Imperative of Global Collaboration. Annals of the Entomological Society of America. 116. doi: 10.1093/aesa/saac024
Chang J, Duong TA, Schoeman C, Ma X, Roodt D, Barker N, Li Z, Van de Peer V, Mizrachi E (2023) The Genome of the King Protea, Protea cynaroides. The Plant Journal. 113. doi: 10.1111/tpj.16044
Pham NQ, Duong TA, Wingfield BD, Barnes I, Duran A, Wingfield MJ (2023) Characterisation of the mating-type loci in species of Elsinoe causing scab diseases. Fungal Biology. 127. doi: 10.1016/j.funbio.2023.11.003
Visagie CM, Magistà D, Ferrara M, Balocchi F, Duong TA, Eichmeier A, Gramaje D, Aylward J, Baker SE, Barnes I, Calhoun S, De Angelis M, Frisvad JC, Hakalova E, Hayes RD, Houbraken J, Grigoriev IV, LaButti K, Leal C, Lipzen C, Ng V, Pangilinan J, Pecenka J, Perrone G, Piso A, Savage E, Spetik E, Wingfield MJ, Zhang Y, Wingfield BD (2023) IMA genome-F18 - The reidentification of Penicillium genomes available in the NCBI and draft genomes for Penicillium species from dry cured meat, Penicillium biforme, P. brevicompactum, P. solitum, and P. cvjetkovicii, Pewenomyces kutranfy, Pew. lalenivora, Pew. tapulicola, Pew. kalosus, Teratosphaeria carnegiei, and Trichoderma atroviridae SC1. IMA Fungus. 14. doi: 10.1186/s43008-023-00121-w
Welgemoed T, Duong TA, Barnes I, Stukenbrock EH, Berger DK (2023) Population genomic analyses suggest recent dispersal events of the pathogen Cercospora zeina into East and Southern African maize cropping systems. G3 Genes|Genomes|Genetics. doi: 10.1093/g3journal/jkad214
Anneri Lötter, Tuan A Duong, Julia Candotti, Eshschar Mizrachi, Jill L Wegrzyn, Alexander A Myburg (2023) Haplogenome assembly reveals structural variation in Eucalyptus interspecific hybrids. GigaScience. 12. doi: 10.1093/gigascience/giad064
Li WW, Chen SF, Wingfield MJ, Duong TA (2023)Calonectria species associated with diseased leaves and soils in southern China Eucalyptus plantations. Phytopathology Research. 5. doi: 10.1186/s42483-023-00183-z
Macharia TN, Duong TA, Moleleki LN (2023) n silico secretome analyses of the polyphagous root-knot nematode Meloidogyne javanica: a resource for studying M. javanica secreted proteins. BMC Genomics. 24. doi: 10.1186/s12864-023-09366-6
Liu QL, Wingfield MJ, Duong TA, Wingfield BD (2023) Leaf blight in a Eucalyptus plantation caused by Calonectria spp. originating from both leaves and soils. Research Square. doi: 10.21203/rs.3.rs-2529138/v1
Candotti J, Christie N, Ployet R, Mostert-O’Neill MM, Reynolds SM, Neves LG, Naidoo S, Mizrachi E, Duong TA, Myburg AA (2023) Haplotype mining panel for genetic dissection and breeding in Eucalyptus. The Plant Journal. 113. doi: 10.1111/tpj.16026
Li WW, Chen SF, Wingfield MJ, Duong TA (2023)Calonectria queenslandica: Causal agent of Eucalyptus leaf blight in Southern China. Plant Disease. 107. doi: 10.1094/PDIS-01-22-0196-RE
Ngo TT, Nguyen B-LT, Duong TA, Nguyen T-HT, Nguyen TL, Kieu KT, Do M-HT, Nguyen SV, Thang ND, Pham HTL (2022) Polyphasic evaluation and cytotoxic investigation of isolated cyanobacteria with an emphasis on potent activities of a Scytonema strain. Frontiers in Microbiology. 13. doi: 10.3389/fmicb.2022.1025755
Araújo JPM, Li U, Duong TA, Smith ME, Adams A, Hulcr J (2022) Four new species of Harringtonia: unravelling the laurel wilt fungal genus. Journal of Fungi. 8. doi: 10.3390/jof8060613
Wingfield, Brenda D., Berger, Dave K., Coetzee, Martin P. A., Duong, Tuan A., Martin, Anke, Pham, Nam Q., van den Berg, Noelani, Wilken, P. Markus, Arun-Chinnappa, Kiruba Shankari, Barnes, Irene, Buthelezi, Sikelela, Dahanayaka, Buddhika Amarasinghe, Durán, Alvaro, Engelbrecht, Juanita, Feurtey, Alice, Fourie, Arista, Fourie, Gerda, Hartley, Jesse, Kabwe, Eugene N. K., Maphosa, Mkhululi, Narh Mensah, Deborah L., Nsibo, David L., Potgieter, Lizel, Poudel, Barsha, Stukenbrock, Eva H., Thomas, Chanel, Vaghefi, Niloofar, Welgemoed, Tanya, Wingfield, Michael J. (2022) IMA genome‑F17 Draft genome sequences of an Armillaria species from Zimbabwe, Ceratocystis colombiana, Elsinoë necatrix, Rosellinia necatrix, two genomes of Sclerotinia minor, short‑read genome assemblies and annotations of four Pyrenophora teres isolates from barley grass, and a long-read genome assembly of Cercospora zeina. 13. doi: 10.1186/s43008-022-00104-3
Liu QL, Wingfield MJ, Doung TA, Wingfield BD, Chen SF (2022) Diversity and distribution of Calonectria species from plantation and forest soils in FuJian Province, China. Journal of Fungi. 8. doi: 10.3390/jof8080811
Maphosa MN, Steenkamp ET, Kanzi AM, Van Wyk S, De Vos L, Santana QC, Duong TA, Wingfield BD (2022) Intra-Species genomic variation in the pine pathogen Fusarium circinatum. Journal of Fungi. 8. doi: 10.3390/jof8070657
Maphosa M, Steenkamp ET, Kanzi A, van Wyk S, De Vos L, Santana QC, Duong AT, Wingfield BD (2022) Intra-species genomic variation in the pine pathogen Fusarium circinatum. Preprints. 2022040298. doi: 10.20944/preprints202204.0298.v1
Wingfield BD, Wingfield MJ, Duong TA (2022) Molecular basis of cycloheximide resistance in the Ophiostomatales revealed. Current Genetics. doi: 10.1007/s00294-022-01235-1
De Beer ZW, Procter M, Wingfield MJ, Marincowitz S, Duong TA (2022) Generic boundaries in the Ophiostomatales reconsidered and revised. Studies in Mycology. 101. doi: 10.3114/sim.2022.101.02
Wingfield BD, De Vos L, Wilson AM, Duong AT, Vaghefi N, Botes A, Kharwar RN, Chand R, Poudel B, Aliyu H, Barbetti MJ, Chen S, de Maayer P, Liu F, Navathe S, Sinha S, Steenkamp ET, Suzuki H, Tshisekedi KA, van der Nest MA, Wingfield MJ (2022) Draft genome assemblies of Fusarium marasasianum, Huntiella abstrusa, two Immersiporthe knoxdaviesiana isolates, Macrophomina pseudophaseolina, Macrophomina phaseolina, Naganishia randhawae, and Pseudocercospora cruenta. IMA Fungus. 13. doi: 10.1186/s43008-022-00089-z
Engelbrecht, J, Duong TA, Paap T, Hulbert JM, Hanneman J, Van den Berg N (2022) Population genetic analyses of Phytophthora cinnamomi reveals three lineages and movement between natural vegetation and avocado orchards in South Africa. doi: 10.1094/PHYTO-10-21-0414-R
Swart Z, Duong T, Wingfield BD, Postma A, Slippers B (2022) The relevance of studying insect–nematode interactions for human disease. Pathogens and Global Health. 116. doi: 10.1080/20477724.2021.1996796
Duong AT, Aylward J, Ametrano CG, Poudel E, Santana QC, Wilken PM, Martin A, Arun-Chinnappa KS, De Vos L, DiStefano I, Grewe F, Huhndorf S, Lumbsch HT, Rakoma JR, Steenkamp ET, Sun Y, van der Nest MA, Wingfield MJ, Yilmaz N, Wingfield BD (2021) Draft genome assembly of Fusarium pilosicola, Meredithiella fracta, Niebla homalea, Pyrenophora teres hybrid WAC10721, and Teratosphaeria viscida. IMA Fungus. 12. doi: 10.1186/s43008-021-00077-9
McTaggart AR, James TY, Shivas RG, Drenth A, Wingfield BD, Summerell BA, Duong TA (2021) Population genomics reveals historical and ongoing recombination in the Fusarium oxysporum species complex. Studies in Mycology. 99. doi: 10.1016/j.simyco.2021.100132
Chang R, Wingfield MJ, Marincowitz S, De Beer ZW, Zhou X, Duong TA (2021) Ophiostomatoid fungi including a new species associated with Asian larch bark beetle Ips subelongatus, in Heilongjiang (Northeast China). Fungal Systematics and Evolution. 8. doi: 10.3114/fuse.2021.08.12
Liu FF, Duong TA, Barnes I, Wingfield MJ, Chen SF (2021) Population diversity and genetic structure reveal patterns of host association and anthropogenic impact for the globally important fungal tree pathogen Ceratocystis manginecans. Journal of Fungi. 7. doi: 10.3390/jof7090759
Nel WJ, De Beer ZW, Wingfield MJ, Poulsen M, Aanen DK, Wingfield BD, Duong TA (2021) Phylogenetic and phylogenomic analyses reveal two new genera and three new species of ophiostomatalean fungi from termite fungus combs. Mycologia. 113. doi: 10.1080/00275514.2021.1950455
Linnakoski R, Lasarov I, Veteli P, Tikkanen O-P, Viiri H, Jyske T, Kasanen R, Duong TA, Wingfield MJ (2021) Filamentous fungi and yeasts associated with mites phoretic on Ips typographus in Eastern Finland. Forests. 12. doi: 10.3390/f12060743
Engelbrecht J, Duong TA, Prabhu AS, Seedat M, van den Berg N (2021) Genome of the destructive oomycete Phytophthora cinnamomi provides insights into its pathogenicity and adaptive potential. BMC Genomics. 22. doi: 10.1186/s12864-021-07552-y
Crous PW, Hernández-Restrepo M, Schumacher RK, Cowan DA, Maggs-Kölling G, Marais E, Wingfield MJ, Yilmaz N, Adan OCG, Akulov A, Álvarez Duarte E, Berraf-Tebbal A, Bulgakov TS, Carnegie AJ, de Beer ZW, Decock C, Dijksterhuis C, Duong TA, Eichmeier A, Hien LT, Houbraken JAMP, Khanh TN, Liem NV, Lombard L, Lutzoni FM, Miadlikowska JM, Nel WJ, Pascoe IG, Roets F, Roux J, Samson RA, Shen M, Spetik M, Thangavel R, Thanh HM, Thao LD, van Nieuwenhuijzen EJ, Zhang JQ, Zhang Y, Zhao LL, Groenewald JZ (2021) New and Interesting Fungi. 4. Fungal Systematics and Evolution. 7. doi: 10.3114/fuse.2021.07.13
Linnakoski, Riikka, Sutela, Suvi, Coetzee, Martin P. A., Duong, Tuan A., Pavlov, Igor N., Litovka, Yulia A., Hantula, Jarkko, Wingfield, Brenda D., Vainio, Eeva J. (2021) Armillaria root rot fungi host single-stranded RNA viruses. 11. doi: 10.1038/s41598-021-86343-7
Phasha, M.M., Wingfield, M.J., Wingfield, B.D., Coetzee, M.P.A., Hallen-Adams, H., Fru, F., Swalarsk-Parry, B.S., Yilmaz, N., Duong, T.A., Steenkamp, E.T. (2021) Ras2 is important for growth and pathogenicity in Fusarium circinatum. 150. doi: 10.1016/j.fgb.2021.103541
van der Nest MA, Chávez R, De Vos L, Duong TA, Gil-Durán C, Ferreira MA, Lane FA, Levicán G, Santana QC, Steenkamp ET, Suzuki H, Tello M, Rakoma JR, Vaca I, Valdés N, Wilken PM, Wingfield MJ, Wingfield BD (2021) Draft genome sequences of Penicillium roqueforti, Fusarium sororula, Chrysoporthe puriensis, and Chalaropsis populi. IMA Fungus. 12. doi: 10.1186/s43008-021-00055-1
Nel WJ, Wingfield MJ, De Beer ZW, Duong TA (2021) Ophiostomatalean fungi associated with wood boring beetles in South Africa including two new species. Antonie van Leeuwenhoek. 114. doi: 10.1007/s10482-021-01548-0
Pham NQ, Marincowitz S, Solís M, Duong TA, Wingfield BD, Barnes I, Slippers B, Muro Abad JI, Durán A, Wingfield MJ (2021) Eucalyptus scab and shoot malformation: A new and serious foliar disease of Eucalyptus caused by Elsinoe necatrix sp. nov.. Plant Pathology. 70. doi: 10.1111/ppa.13348
Chang R, Duong TA, Taerum SJ, Wingfield MJ, Zhou XD, De Beer ZW (2020) Ophiostomatoid fungi associated with mites phoretic on bark beetles in Qinghai, China. IMA Fungus. doi: 10.1186/s43008-020-00037-9
Wilken PM, Aylward J, Chand R, Grewe F, Lane FA, Sinha S, Ametrano C, Distefano I, Divakur PK, Duong TA, Huhndorf S, Kharwar RN, Lumbsch HT, Navathe S, Pérez CA, Ramírez-Berrutti N, Sharma R, Sun Y, Wingfield BD, Wingfield MJ (2020) Draft genome sequences of Ambrosiella cleistominuta, Cercospora brassicicola, C. citrullina, Physcia stellaris and Teratosphaeria pseudoeucalypti.. IMA Fungus. 11. doi: 10.1186/s43008-020-00039-7
Liu QL, Li JQ, Wingfield MJ, Duong TA, Wingfield BD, Crous PW, Chen SF (2020) Reconsideration of species boundaries and proposed DNA barcodes for Calonectria. Studies in Mycology. doi: 10.1016/j.simyco.2020.08.001
Nel WJ, De Beer ZW, Wingfield MJ, Duong TA (2020) The granulate ambrosia beetle, Xylosandrus crassiusculus (Coleoptera: Curculionidae, Scolytinae), and its fungal symbiont found in South Africa. Zootaxa. 4838. doi: 10.11646/zootaxa.4838.3.7
Marincowitz S, Duong TA, Stephen SJ, De Beer ZW, Wingfield MJ (2020) Fungal associates of an invasive pine-infesting bark beetle, Dendroctonus valens including seven new Ophiostomatalean fungi. Persoonia. 45. doi: 10.3767/persoonia.2020.45.07
Fourie A, de Jonge R, van der Nest MA, Duong TA, Wingfield MJ, Wingfield BD, Barnes I (2020) Genome comparisons suggest an association between Ceratocystis host adaptations and effector clusters in unique transposable element families. 143. doi: 10.1016/j.fgb.2020.103433
Hulcr J, Barnes I, De Beer ZW, Duong TA, Gazis R, Johnson AJ, Jusino MA, Kasson MT, Li Y, Lynch S, Mayers C, Musvuugwa T, Roets F, Seltmann KC, Six D, Vanderpool D, Villari C (2020) Bark beetle mycobiome: collaboratively defined research priorities on a widespread insect-fungus symbiosis. Symbiosis. 81. doi: 10.1007/s13199-020-00686-9
Havenga M, Wingfield BD, Wingfield MJ, Roets F, Dreyer LL, Tatham CT, Duong TA, Wilken PM, Chen S, Aylward J (2020) Mating strategy and mating type distribution in six global populations of the Eucalyptus foliar pathogen Teratosphaeria destructans. Fungal Genetics and Biology. 137. doi: 10.1016/j.fgb.2020.103350
Musvuugwa T, De Beer ZW, Dreyer LL, Duong T, Marincowitz S, Oberlander KC, Roets F (2020) New ophiostomatoid fungi from wounds on storm-damaged trees in Afromontane forests of the Cape Floristic Region. Mycological Progress. 19. doi: 10.1007/s11557-019-01545-8
Liu FF, Chen SF, Ferreira MA, Chang RL, Sayari M, Kanzi AM, Wingfield BD, Wingfield MJ, Pizarro D, Crespo A, Divakar PK, de Beer ZW, Duong TA (2019) Draft genome sequences of five Calonectria species from Eucalyptus plantations in China, Celoiporthe dispersa, Sporothrix phasma and Alectoria sarmentosa. IMA Fungus. 10. doi: 10.1186/s43008-019-0023-5
Wingfield BD, Fourie A, Simpson MC, Bushula-Njah VS, Aylward J, Barnes I, Coetzee MPA, Dreyer LL, Duong TA, Geiser DM, Roets F, Steenkamp ET, van der Nest MA, van Heerden CJ, Wingfield MJ (2019) Draft genome sequences of Fusarium xylarioides, Teratosphaeria gauchensis and T. zuluensis and genome annotation for Ceratocystis fimbriata. IMA Fungus. 10. doi: 10.1186/s43008-019-0013-7
Nel WJ, Duong TA, De Beer ZW, Wingfield MJ (2019) Black root rot: A long known but little understood disease. Plant Pathology. 68. doi: 10.1111/ppa.13011
van der Nest MA, Steenkamp ET, Roodt D, Soal NA, Palmer M, Chan W-Y, Wilken PM, Dong TA, Naidoo K, Santana QC, Trollip C, De Vos L, Van Wyk S, McTaggart AR, Wingfield MJ, Wingfield BD (2019) Genomic analysis of the aggressive tree pathogen Ceratocystis albifundus. Fungal Biology. doi: 10.1016/j.funbio.2019.02.002
Chang R, Duong, T. A., Taerum, S. J., Wingfield, M.J., Zhou, X.D., Yin M, De Beer, Z.W. (2019) Ophiostomatoid fungi associated with the spruce bark beetle Ips typographus, including 11 new species from China. Persoonia. 42. doi: 10.3767/persoonia.2019.42.03
Wingfield BD, Liu M, Nguyen HDT, Lane FA, Morgan SW, De Vos L, Wilken PM, Doung TA, Aylward J, Coetzee MPA, Dadej K, De Beer ZW, Findlay W, Havenga M, Kolarik M, Menzies JG, Naidoo K, Pochopski O, Shoukouhi P, Santana QC, Seifert KA, Soal NA, Steenkamp ET, Tatham CT, Van der Nest MA, Wingfield MJ (2018) Nine draft genome sequences of Claviceps purpurea s.lat., including C. arundinis, C. humidiphila, and C. cf. spartinae, pseudomolecules for the pitch canker pathogen Fusarium circinatum, draft genome of Davidsoniella eucalypti, Grosmannia galeiformis, Quambalaria eucalypti, and Teratosphaeria destructans. IMA Fungus. 9. doi: 10.5598/imafungus.2018.09.02.10
McTaggart AR, Duong TA, Le VQ, Shuey LS, Smidt W, Naidoo S, Wingfield MJ, Wingfield BD (2018) Chromium sequencing: the doors open for genomics of obligate plant pathogens. BioTechniques. 65. doi: 10.2144/btn-2018-0019
Nel WJ, Duong TA, Wingfield MJ, Wingfield BD, Hammerbacher A, De Beer ZW (2018) Heterothallism revealed in the root rot fungi Berkeleyomyces basicola and B. rouxiae. Fungal Biology. 122. doi: 10.1016/j.funbio.2018.08.006
Wingfield BD, Bills GF, Dong Y, Huang W, Nel WJ, Swalarsk-Parry BS, Vaghefi N, Wilken PM, An Z, de Beer ZW, De Vos L, Chen L, Duong TA, Gao Y, Hammerbacher A, Kikkert JR, Li Y, Li H, Li K, Li Q, Liu X, Ma X, Naidoo K, Pethybridge SJ, Sun J, Steenkamp ET, van der Nest M, van Wyk S, Wingfield MJ, Xiong C, Yue Q, Zhang X (2018) IMA Genome-F 9 Draft genome sequence of Annulohypoxylon stygium, Aspergillus mulundensis, Berkeleyomyces basicola (syn. Thielaviopsis basicola), Ceratocystis smalleyi, two Cercospora beticola strains, Coleophoma cylindrospora, Fusarium fracticaudum, Phialophora cf. hyalina, and Morchella septimelata. IMA Fungus. 9. doi: 10.5598/imafungus.2018.09.01.13
De Beer, Z. Wilhelm, Marincowitz, Seonju, Duong, Tuan A., Wingfield, Michael J. (2018) (2592) Proposal to conserve Endoconidiophora fagacearum (Bretziella fagacearum, Ceratocystis fagacearum) against Chalara quercina (Thielaviopsis quercina) (Ascomycota: Sordariomycetes: Microascales). Taxon. 67. doi: 10.12705/672.14
Nel WJ, Duong TA, Wingfield BD, Wingfield MJ, De Beer ZW (2018) A new genus and species for the globally important, multi-host root pathogen Thielaviopsis basicola. Plant Pathology. 67. doi: 10.1111/ppa.12803
Pham, Hang T.L., Nguyen, Lien T.T., Duong, Tuan A., Bui, Dung T.T., Doan, Que T., Nguyen, Ha T.T., Mundt, Sabine (2017) Diversity and bioactivities of nostocacean cyanobacteria isolated from paddy soil in Vietnam. Systematic and Applied Microbiology. 40. doi: 10.1016/j.syapm.2017.08.001
Chang R, Duong TA, Taerum SJ, Wingfield MJ, Zhou X, De Beer ZW (2017) Ophiostomatoid fungi associated with conifer-infesting beetles and their phoretic mites in Yunnan, China. MycoKeys. 28. doi: 10.3897/mycokeys.28.21758
Engelbrecht J, Duong TA, van den Berg N (2017) New microsatellite markers for population studies of Phytophthora cinnamomi, an important global pathogen. Scientific Reports. 7. doi: 10.1038/s41598-017-17799-9
Wingfield BD, Berger DK, Steenkamp ET, Lim H-J, Duong TA, Bluhm BH, De Beer ZW, De Vos L, Fourie G, Naidoo, K, Olivier NA, Lin, Y-C, Van der Peer Y, Joubert F, Crampton BG, Swart V, Soal N, Tatham C, Van der Nest MA, Van der Merwe NA, Van Wyk S, Wilken PM, Wingfield MJ (2017) IMA Genome-F 8 Draft genome of Cercospora zeina, Fusarium pininemorale, Hawksworthiomyces lignivorus, Huntiella decipiens and Ophiostoma ips. IMA Fungus. 8. doi: 10.5598/imafungus.2017.08.02.10
De Beer ZW, Marincowitz S, Duong TA, Wingfield MJ (2017)Bretziella, a new genus to accommodate the oak wilt fungus, Ceratocystis fagacearum (Microascales, Ascomycota). MycoKeys. 27. doi: 10.3897/mycokeys.27.20657
Marincowitz S, Duong TA, Heiniger U, Wingfield BD, Wingfield MJ, De Beer ZW (2017) A new Leptographium species from the roots of declining Pinus sylvestris in Switzerland. Forest Pathology. 47. doi: 10.1111/efp.12346
Taerum SJ, Hoareau TB, Duong TA, De Beer ZW, Jankowiak R, Wingfield MJ (2017) Putative origins of the fungus Leptographium procerum. Fungal Biology. 121. doi: 10.1016/j.funbio.2016.09.007
Duong TA, De Beer ZW, Wingfield BD, Wingfield MJ (2016) Mating type markers reveal high levels of heterothallism in Leptographium sensu lato. Fungal Biology. 120. doi: 10.1016/j.funbio.2016.01.001
Wingfield BD, Duong TA, Hammerbacher A, van der Nest MA, Wilson A, Chang R, de Beer ZW, Steenkamp ET, Wilken PM, Naidoo K, Wingfield MJ (2016) IMA Genome-F 7 Draft genome sequences for Ceratocystis fagacearum, C. harringtonii, Grosmannia penicillata, and Huntiella bhutanensis. IMA Fungus. 7. doi: 10.5598/imafungus.2016.07.02.11
Hernández-Restrepo M, Schumacher RK, Wingfield MJ, Ahmad I, Cai L, Duong TA, Edwards J, Gené J, Groenewald JZ, Jabeen S, Khalid AN, Lombard L, Madrid H, Marin-Felix Y, Marincowitz S, Miller AN, Rajeshkumar K-C, Rashid A, Sarwar S, Stchigel AM, Taylor PWJ, Zhou N, Crous PW (2016) Fungal Systematics and Evolution: FUSE 2. Sydowia. 68.
De Beer ZW, Duong TA, Wingfield MJ (2016) The divorce of Sporothrix and Ophiostoma: solution to a problematic relationship. Studies in Mycology. 83. doi: 10.1016/j.simyco.2016.07.001
De Beer ZW, Marincowitz S, Duong TA, Kim JJ, Rodrigues A, Wingfield MJ (2016)Hawksworthiomyces gen. nov. (Ophiostomatales), illustrates the urgency for a decision on how to name novel taxa known only from environmental nucleic acid sequences (ENAS). Fungal Biology. 120. doi: 10.1016/j.funbio.2016.07.004
Wingfield BD, Ambler JM, Coetzee MPA, De Beer ZW, Duong TA, Joubert F, Hammerbacher A, McTaggart AR, Naidoo K, Nguyen HDT, Ponomareva E, Santana QS, Seifert KA, Steenkamp ET, Trollip C, Van der Nest MA, Visagie CM, Wilken PM, Wingfield MJ, Yilmaz N (2016) IMA Genome-F 6: Draft genome sequences of Armillaria fuscipes, Ceratocystiopsis minuta, Ceratocystis adiposa, Endoconidiophora laricicola, E. polonica and Penicillium freii DAOMC 242723. IMA Fungus. 7. doi: 10.5598/imafungus.2016.07.01.11
Musvuugwa T, de Beer ZW, Duong TA, Dreyer LL, Oberlander K, Roets F (2016) Wounds on Rapanea melanophloeos provide habitat for a large diversity of Ophiostomatales including four new species. Antonie van Leeuwenhoek. 109. doi: 10.1007/s10482-016-0687-4
Duong TA, De Beer ZW, Wingfield BD, Eckhardt LG, Wingfield MJ (2015) Microsatellite and mating type markers reveal unexpected patterns of genetic diversity in the pine root-infecting fungus Grosmannia alacris. Plant Pathology. 64. doi: 10.1111/ppa.12231
Crous PW, Wingfield MJ, Le Roux JJ, Richardson DM, Strasberg D, Shivas RG, Alvarado P, Edwards J, Moreno G, Sharma R, Sonawane M.S., Tan YP, Altés A, Barasubiye T, Barnes CW, Blanchette RA, Boertmann D, Bogo A, Carlavilla JR, Cheewangkoon R, Daniel R, de Beer ZW, de Jesús Yáñez-Morales M, Duong TA, Fernández-Vicente J, Geering ADW, Guest DI, Held BW, Heykoop M, Hubka V, Ismail AM, Kajale SC, Khemmuk W, Kolařík M, Kurli R, Lebeuf R, Lévesque CA, Lombard L, Magista D, Manjón JL, Marincowitz S, et al (2015) Fungal Planet description sheets: 371–399. Persoonia. 35. doi: 10.3767/003158515X690269
Wingfield BD, Barnes I, De Beer ZW, De Vos L, Duong TA, Kanzi AM, Naidoo K, Nguyen HDT, Santana QC, Sayari M, Seifert KA, Steenkamp ET, Trollip C, Van der Merwe, NA, Van der Nest MA, Wilken PM, Wingfield MJ (2015) Draft genome sequences of Ceratocystis eucalypticola, Chrysoporthe cubensis, C. deuterocubensis, Davidsoniella virescens, Fusarium temperatum, Graphilbum fragrans, Penicillium nordicum, and Thielaviopsis musarum. IMA Fungus. 6. doi: 10.5598/imafungus.2015.06.02.13
Stielow JB, Lévesque CA, Seifert KA, Meyer W, Irinyi L, Smits D, Renfurm R, Verkley GJM, Groenewald M, Chaduli D, Lomascolo A, Welti S, Lesage-Meessen L, Favel A, Al-Hatmi AMS, Damm U, Yilmaz N, Houbraken J, Lombard L, Quaedvlieg W, Binder M, Vaas LAI, Vu D, Yurkov A, Begerow D, Roehl O, Guerreiro M, Fonseca A, Samerpitak K, Van Diepeningen AD, Dolatabadi S, Moreno LF, Casaregola S, Mallet S, Jacques N, Roscini L, Egidi E, Bizet C, Garcia-Hermoso D, Martín MP, Deng S, Groenewald JZ, Boekhout T, De Beer ZW, Barnes I, Duong TA, Wingfield MJ, De Hoog GS, Crous PW, Lewis CT, Hambleton S, Moussa TAA, Al-Zahrani HS, Almaghrabi OA, Louis-Seize G, Assabgui R, McCormick W, Omer G, Dukik K, Cardinali G, Eberhardt U, De Vries M, Robert V (2015) One fungus, which genes? Development and assessment of universal primers for potential secondary fungal DNA barcodes. Persoonia. 35. doi: 10.3767/003158515X689135
Musvuugwa T, De Beer ZW, Duong T, Dreyer L, Oberlander K, Roets F (2015) New species of Ophiostomatales from Scolytinae and Platypodinae beetles in the Cape Floristic Region, including the discovery of the sexual state of Raffaelea. Antonie van Leeuwenhoek. 108. doi: 10.1007/s10482-015-0547-7
Wingfield BD, Ades PK, Al-Naemi FA, Beirn LA, Bihon W, Crouch JA, De Beer ZW, De Vos L, Duong TA, Fields CJ, Fourie G, Kanzi AM, Malapi-Wight M, Pethybridge SJ, Radwan O, Rendon G, Slippers B, Santana QC, Steenkamp ET, Taylor PWJ, Vaghefi N, Van der Merwe NA, Veltri D, Wingfield MJ (2015) IMA Genome-F 4. Draft genome sequences of Chrysoporthe austroafricana, Diplodia scrobiculata, Fusarium nygamai, Leptographium lundbergii, Limonomyces culmigenus, Stagonosporopsis tanaceti, and Thielaviopsis punctulata. IMA Fungus. 6. doi: 10.5598/imafungus.2015.06.01.15
Marincowitz S, Duong TA, De Beer ZW, Wingfield MJ (2015)Cornuvesica: A little known mycophilic genus with a unique biology and unexpected new species. Fungal Biology. 119. doi: 10.1016/j.funbio.2015.03.007
Yin, Mingliang, Duong, Tuan A, Wingfield, Michael J, Zhou, XuDong, De Beer, Z. Wilhelm (2015) Taxonomy and phylogeny of the Leptographium procerum complex, including L. sinense sp. nov. and L. longiconidiophorum sp. nov. Antonie van Leeuwenhoek. 107. doi: 10.1007/s10482-014-0351-9
De Beer ZW, Duong TA, Barnes I, Wingfield BD, Wingfield MJ (2014) Redefining Ceratocystis and allied genera. Studies in Mycology. 79. doi: 10.1016/j.simyco.2014.10.001
Crous, P.W., Shivas, R.G., Quaedvlieg, W., van der Bank, M. , Zhang, Y., Summerell, B.A., Guarro, J., Wingfield, M.J., Wood, A.R., Alfenas, A.C., Braun, U., Cano-Lira, J.F., García, D., Marin-Felix, Y., Alvarado, P., Andrade, J.P., Armengol, J., Assefa, A., Breeÿen, A. den, Camele, I., Cheewangkoon, R., Souza, J.T. De, Duong, T.A., Esteve-Raventós, F., Fournier, J., Frisullo, S., García-Jiménez, J., Gardiennet, A., Gené, J., Hernández-Restrepo, M., Hirooka, Y., Hospenthal, D.R., King, A., Lechat, C., Lombard, L., Mang, S.M., Marbach, P.A.S., Marincowitz, S., Marin-Felix, Y., Montaño-Mata, N.J., Moreno, G., Perez, C.A., Sierra, A.M. Pérez, Robertson, J.L., Roux, J., et al (2014) Fungal Planet description sheets: 214–280. Persoonia. 32. doi: 10.3767/003158514X682395
Romón P, De Beer ZW, Zhou XD, Duong TA, Wingfield BD, Wingfield MJ (2014) Multigene phylogenies of Ophiostomataceae associated with Monterey pine bark beetles in Spain reveal three new fungal species. Mycologia. 106. doi: 10.3852/13-073
Bihon, Wubetu, Wingfield, Michael J., Slippers, Bernard, Duong, Tuan A., Wingfield, Brenda D. (2014) MAT gene idiomorphs suggest a heterothallic sexual cycle in a predominantly asexual and important pine pathogen. Fungal Genetics and Biology. 62. doi: 10.1016/j.fgb.2013.10.013
Duong, Tuan A., De Beer, Z. Wilhelm, Wingfield, Brenda D., Wingfield MJ (2013) Characterization of the mating-type genes in Leptographium procerum and Leptographium profanum. Fungal Biology. 117. doi: 10.1016/j.funbio.2013.04.005
Engelbrecht J, Duong TA, van den Berg N (2013) Development of a Nested Quantitative Real-Time PCR for Detecting Phytophthora cinnamomi in Persea americana Rootstocks. Plant Disease. 97. doi: 10.1094/PDIS-11-12-1007-RE
Taerum, Stephen J., Duong, Tuan A., De Beer, Z. Wilhelm, Gillette, Nancy, Sun, Jiang-Hua, Owen, Donald R., Wingfield, Michael J. (2013) Large shift in symbiont assemblage in the invasive red turpentine beetle. PLoS ONE. 8. doi: 10.1371/journal.pone.0078126
Duong, Tuan A., De Beer, Z. Wilhelm, Wingfield, Brenda D., Wingfield, Mike J. (2012) Phylogeny and taxonomy of species in the Grosmannia serpens complex. Mycologia. 104. doi: 10.3852/11-109
Duong, T. A., de Beer, Z. W., Zanzot, J. W., Wingfield, M. J., Wingfield, B. D. (2012) Microsatellite markers for Grosmannia alacris (Ophiostomataceae, Ascomycota) and other species in the G. serpens complex. American Journal of Botany. 99. doi: 10.3732/ajb.1100527
Schoch, C. L., Seifert, K. A., Huhndorf, S., Robert, V., Spouge, J. L., Levesque, C. A., Chen, W., Bolchacova, E., Voigt, K., Crous, P. W., Miller, A. N., Wingfield, M. J., Aime, M. C., An, K. D., Bai, F. Y., Barreto, R. W., Begerow, D., Bergeron, M. J., Blackwell, M., Boekhout, T., Bogale, M., Boonyuen, N., Burgaz, A. R., Buyck, B., Cai, L., Cai, Q., Cardinali, G., Chaverri, P., Coppins, B. J., Crespo, A., Cubas, P., Cummings, C., Damm, U., de Beer, Z. W., de Hoog, G. S., Del-Prado, R., Dentinger, B., Dieguez-Uribeondo, J., Divakar, P. K., Douglas, B., Duenas, M., Duong, T. A., et al (2012) Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. Proceedings of the National Academy of Sciences of the United States of America. 109. doi: 10.1073/pnas.1117018109
Linnakoski, R., De Beer, Z.W., Duong, T.A., Niemelä, P., Pappinen, A., Wingfield, M.J. (2012)Grosmannia and Leptographium spp. associated with conifer-infesting bark beetles in Finland and Russia, including Leptographium taigense sp. nov. Antonie van Leeuwenhoek. 102. doi: 10.1007/s10482-012-9747-6
Six, Diana, De Beer, Z.W., Duong, Tuan A., Carroll, Allan, Wingfield, Michael J. (2011) Fungal associates of the lodgepole pine beetle, Dendroctonus murrayanae. Antonie van Leeuwenhoek. 100. doi: 10.1007/s10482-011-9582-1
Thanh, VN, Mai, LT, Duong TA (2008) Microbial diversity of traditional Vietnamese alcohol fermentation starters (banh men) as determined by PCR-mediated DGGE. International Journal of Food Microbiology. 128. doi: 10.1016/j.ijfoodmicro.2008.08.020
My Publications
Ndou M, Potts WM, Duong TA, Teske PR, Childs AR, Henriques R. (2026) Conspecific scaffold-level genome assembly outperforms heterospecific chromosome-level assemblies for assessing genetic indicators in a threatened marine fish. Evolutionary Applications 10.1111/eva.70247
Postma A, Klynsmith L, Duong TA, Allison JD, Smidt W, Waterhouse RM, Lesny P, Oeyen JP, Petersen M, Martin S, Liu S, Zhou X, Ziesmann T, Donath A, Mayer C, Misof B, Niehuis O, Peters RS, Podsiadlowski L, Coetzee MPA, Joubert F, Slippers B. (2026) Genome and transcriptome-based identification and expression profiling of chemosensory gene families across developmental stages and tissues in Sirex noctilio (Hymenoptera: Siricidae). Insect Molecular Biology 10.1111/imb.70029
Viljoen A, Duong TA, Kanzi AM, Wingfield BD. (2026) Comparative analysis of mitochondrial genomes in the Ceratocystidaceae reveals highly conserved gene organization despite substantial genome size variation. BMC Genomics 10.1186/s12864-026-12755-2
Six DL, Marincowitz S, Duong TA. (2026) Ophiostoma ipsi-confusi sp. nov. Six, Marinc. & Duong, a consistent symbiotic fungus of the pinyon ips bark beetle, Ips confusus LeConte. Symbiosis 10.1007/s13199-026-01135-9
Nickles GR, Stokes CK, Narh DL, Lynn KMT, Fuqua SR, Bryan C, Allen BM, Bivins CP, Bok JW, Brewer JS, Buthelezi ST, Clark JPRM, Coon KL, Corby LR, Coetzee MPA, Dewing C, Duong TA, Harris MA, Keller NP, Kopotsa K, Lane FA, Nichols HL, Nieuwoudt A, Nuñez MA, Medina Munoz ME, Park SC, Pham NQ, Ryan KT, Solís M, Vilgalys R, Wallace JM, Wang YW, Wingfield BD, Wingfield MJ, Worley TK, Zallek TA, Zamanian M, Hoeksma JD, Drott M, Pringle A. (2026) Equipped for success: Genomes and metabolites of the European Amanita muscaria are conserved in its novel South African range. New Phytologist 10.1111/nph.71064
Liu QL, Wingfield MJ, Duong TA, Wingfield BD, Crous PW. (2026) Taxonomy, distribution and dispersal of Calonectria species: Important pathogens of forestry, agricultural and horticultural crops. Current Forestry Reports 10.1007/s40725-025-00262-8
Prabhu AS, Naicker P, Duong TA, Govender IS, Engelbrecht J, Backer R, Stoychev SH, van den Berg N. (2025) Phosphite inhibits Phytophthora cinnamomi by downregulating oxidoreductases and disrupting energy metabolism. Frontiers in Microbiology 10.3389/fmicb.2025.1632726
Pham HTL, Tran TV, Duong TA, Tran LD, Tran ATT, Nguyen VTH, Nguyen SV. (2025) Classification of Nostoc-like cyanobacteria isolated from paddy soil into Aliinostoc, Aulosira, and Desmonostoc. Frontiers in Microbiology 10.3389/fmicb.2025.1581725
