DNA barcoding, MALDI-TOF, and AFLP data support Fusarium ficicrescens as a distinct species within the Fusarium fujikuroi species complex

Fungal Biology

Volumn 120, Issue 2, 2016, Pages 265-278

  Al Hatmi, Abdullah M S ^a,b,c   Mirabolfathy, Mansoureh ^d   Hagen, Ferry ^e,f   Normand, Anne Cécile ^g   Stielow, J Benjamin ^a   Karami Osbo, Rouhollah ^d   van Diepeningen, Anne D ^a   Meis, Jacques F ^e,f,h   de Hoog, G Sybren ^a,b,i,j  

^a CBS KNAW FUNGAL BIODIVERSITY CENTRE   (Netherlands)

^b UNIVERSITY OF AMSTERDAM   (Netherlands)

^c MINISTRY OF HEALTH   (Oman)

^d IRANIAN RESEARCH INSTITUTE OF PLANT PROTECTION   (Iran)

^e CANISIUS WILHELMINA HOSPITAL   (Netherlands)

^f ERASMUS MEDICAL CENTER   (Netherlands)

^g TIMONE HOSPITAL   (France)

^h RADBOUD UNIVERSITY MEDICAL CENTER   (Netherlands)

ⁱ FEDERAL UNIVERSITY OF PARANÁ   (Brazil)

^j KING ABDULAZIZ UNIVERSITY   (Saudi Arabia)

more..

Author keywords

Ecology; Fumonisin; Phylogeny; Taxonomy; Translation elongation factor 1 ; tubulin

Indexed keywords

DNA FINGERPRINTING; FUNGUS; GENE EXPRESSION; NEW TAXON; PHYLOGENY; TAXONOMY;

FUNGI; FUSARIUM; FUSARIUM ANDIYAZI; FUSARIUM LACTIS; FUSARIUM NAPIFORME; FUSARIUM RAMIGENUM; GIBBERELLA FUJIKUROI;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM; CLASSIFICATION; DNA BARCODING; FICUS; FRUIT; FUSARIOSIS; FUSARIUM; GENETICS; HUMAN; ISOLATION AND PURIFICATION; MATRIX-ASSISTED LASER DESORPTION-IONIZATION MASS SPECTROMETRY; MICROBIOLOGY; MOLECULAR GENETICS; PHYLOGENY; PROCEDURES;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM ANALYSIS; DNA BARCODING, TAXONOMIC; FICUS; FRUIT; FUSARIOSIS; FUSARIUM; HUMANS; MOLECULAR SEQUENCE DATA; PHYLOGENY; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION;

EID: 84954384706     PISSN: 18786146     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.funbio.2015.08.001     Document Type: Article

References (49)

1. Al-Hatmi A.M., Bonifaz A., de Hoog G.S., Vazquez-Maya L., Garcia-Carmona K., Meis J.F., van Diepeningen A. Keratitis by Fusarium temperatum, a novel opportunist. BMC Infectious Diseases 2014, 14:588. 10.1186/s12879-014-0588-y.
2. Al-Hatmi A.M., van Diepeningen A., Curfs-Breuker I., de Hoog G.S., Meis J.F. Specific antifungal susceptibility profiles of opportunists in the Fusarium fujikuroi complex. Journal of Antimicrobial Chemotherapy 2015, 70:1068-1071.
3. Al-Hatmi A.M., Normand A.C., van Diepeningen A.D., Hendrickx M., de Hoog G.S., Piarroux R. Rapid species-level identification of opportunists in the Fusarium fujikuroi species complex using MALDI-TOF mass spectrometry. Future Microbiology 2015, 10.2217/FMB.15.108.
4. Al-Hatmi A.M.S., Gerrits Van Den Ende A.H.G., Stielow B., Van Diepeningen A.D., Seifert K.A., Mccormick W., Assabgui R., Gräfenhan T., Sybren De Hoog G., André Levesque C. Evaluation of two novel barcodes for species recognition of opportunistic pathogens in Fusarium. Fungal Biology 2016, 120(2):231-245.
5. Cantrell S.A., Dianese J.C., Fell J., Gunde-Cimerman N., Zalar P. Unusual fungal niches. Mycologia 2011, 103:1161-1174.
6. Clinical Laboratory Standard Institute Reference Method for Broth Dilution Antifungal Susceptibility Testing of Filamentous Fungi 2008, Approved standard. CLSI document M38-A2, Clinical and Laboratory Standards Institute, Wayne, PA. 2nd edn.
7. de Hoog G.S., Guarro J., Gené J., Figueras M.J. Atlas of Clinical Fungi 2011, Centraalbureau voor Schimmelcultures, Utrecht, Netherlands. 3rd edn.
8. Drummond A.J., Rambaut A. BEAST: bayesian evolutionary analysis by sampling trees. BMC Evolutionary Biology 2007, 7:214.
9. Geiser D.M., Jimenez-Gasco M.D., Kang S.C., Makalowska I., Veeraraghavan N., Ward T.J., Zhang N., Kuldau G.A., O'Donnell K. FUSARIUM-ID v. 1.0: a DNA sequence database for identifying Fusarium. European Journal of Plant Pathology 2004, 110:473-479.
10. Glass N.L., Donaldson G. Development of primer sets designed for use with PCR to amplify conserved genes from filamentous ascomycetes. Applied and Environmental Microbiology 1995, 61:1323-1330.
11. Heperkan D., Moretti A., Dikmen C.D., Logrieco A.F. Toxigenic fungi and mycotoxin associated with figs in the Mediterranean area. Phytopathologia Mediterranea 2012, 51:119-130.
12. Hopple J.S., Vilgalys R. Phylogenetic relationships in the mushroom genus Coprinus and dark-spored allies based on sequence data from the nuclear gene coding for the large ribosomal subunit RNA: divergent domains, outgroups and monophyly. Molecular Biology and Evolution 1999, 13:1-19.
13. Hyde K.D., Chomnunti P., Crous P.W., Groenewald J.Z., Damm U., Ko Ko T.W., Shivas R.G., Summerell B.A., Tan Y.P. A case for re-inventory of Australia's plant pathogens. Persoonia 2010, 25:50-60.
14. Klittich C.J.R., Leslie J.F. Multi-well plates for complementation tests of Fusarium. Fungal Genetics Reports 1988, 35:21-22.
15. Kosoglu I., Aksoy U., Pehlivan R., Kosoglu A., Aksoy U., Pehlivan R. Fumonisin B-1 and B-2 occurrence in dried fig fruits (Ficus carica L.) under Meander Valley's climatic conditions and relationship with fruit quality. Food Additives and Contaminants 2011, 28:1569-1577.
16. Kvas M., Marasas W.F.O., Wingfield B.D., Wingfield M.J., Steenkamp E.T. Diversity and evolution of Fusarium species in the Gibberella fujikuroi complex. Fungal Diversity 2009, 34:1-21.
17. Lackner M., Hagen F., Meis J.F., Gerrits van den Ende A.H., Vu D., Robert V., Fritz J., Moussa T.A., de Hoog G.S. Susceptibility and diversity in the therapy-refractory genus Scedosporium. Antimicrobial Agents and Chemotherapy 2014, 58:5877-5885.
18. Leslie J.F. Gibberella fujikuroi: available populations and variable traits. Canadian Journal of Botany 1995, 73:S282-S291.
19. Leslie J.F., Summerell B.A. The Fusarium Laboratory Manual 2006, Oxford, Blackwell PublisCng Ltd, Ames.
20. Marasas W.F.O., Rheeder J.P., Lamprecht S.C., Zeller K.A., Leslie J.F. Fusarium andiyazi sp.nov., a new species from sorghum. Mycologia 2001, 93:1203-1210.
21. Marinach-Patrice C., Lethuillier A., Marly A., Brossas J.Y., Gené J., Symoens F., Datry A., Guarro J., Mazier D., Hennequin C. Use of mass spectrometry to identify clinical Fusarium isolates. Clinical Microbiology and Infection 2009, 15:634-642.
22. Mirabolfathy M., Karami-Osbo R. Fumonisin B1 contamination of Golestan corn product. Iranian Journal of Plant Pathology 2006, 42:359-374.
23. Moretti A., Ferracane L., Somma S., Ricci V., Mule G., Susca A., Ritieni A., Logrieco A. Identification, mycotoxin risk and pathogenicity of Fusarium species associated to fig endosepsis in Apulia. Food Additives and Contaminants 2010, 27:718-728.
24. Nirenberg H.I., O'Donnell K. New Fusarium species and combinations within the Gibberella fujikuroi species complex. Mycologia 1998, 90:434-458.
25. Nucci M., Marr K.A., Vehreschild M.J., de Souza C.A., Velasco E., Cappellano P., Carlesse F., Queiroz-Telles F., Sheppard D.C., Kindo A., Cesaro S., Hamerschlak N., Solza C., Heinz W.J., Schaller M., Atalla A., Arikan-Akdagli S., Bertz H., Galvão Castro C., Herbrecht R., Hoenigl M., Härter G., Hermansen N.E., Josting A., Pagano L., Salles M.J., Mossad S.B., Ogunc D., Pasqualotto A.C., Araujo V., Troke P.F., Lortholary O., Cornely O.A., Anaissie E. Improvement in the outcome of invasive fusariosis in the last decade. Clinical Microbiology and Infection 2014, 20:580-585.
26. O'Donnell K., Cigelnik E. Two divergent intragenomic rDNA ITS2 types within a monophyletic lineage of the fungus Fusarium are nonorthologous. Molecular Phylogenetics and Evolution 1997, 7:103-116.
27. O'Donnell K., Cigelnik E., Nirenberg H.I. Molecular systematics and phylogeography of the Gibberella fujikuroi species complex. Mycologia 1998, 90:465-495.
28. O'Donnell K., Kistler H.C., Tacke B.K., Casper H.H. 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, USA 2000, 97:7905-7910.
29. O'Donnell K., Sarver B.A., Brandt M., Chang D.C., Noble-Wang J., Park B.J., Sutton D.A., Benjamin L., Lindsleyn M., Padhye A., Geiser D.M., Ward T.J. Phylogenetic diversity and microsphere array-based genotyping of human pathogenic Fusaria, including isolates from the multistate contact lens-associated U.S. keratitis outbreaks of 2005 and 2006. Journal of Clinical Microbiology 2007, 45:2235-2248.
30. O'Donnell K., Sutton D.A., Rinaldi M.G., Sarver B.A.J., Balajee S.A., Schroers H.-J., Summerbell R.C., Robert V.A., Crous P.W., Zhang N., Aoki T., Jung K., Park J., Lee Y.-H., Kang S., Park B., Geiser D.M. An internet-accessible DNA sequence database for identifying fusaria from human and animal infections. Journal of Clinical Microbiology 2010, 48:3708-3718.
31. O'Donnell K., Humber R.A., Geiser D.M., Kang S., Park B., Robert V.A.R.G., Crous P.W., Johnston P.R., Aoki T., Rooney A.P., Rehner S.A. Phylogenetic diversity of insecticolous fusaria inferred from multilocus DNA sequence data and their molecular identification via FUSARIUM-ID and FUSARIUM MLST. Mycologia 2012, 104:427-445.
32. O'Donnell K., Rooney A.P., Proctor R.H., Brown D.W., McCormick S.P., Ward T.J., Frandsen R.J.N., Lysøe E., Rehner S.A., Aoki T., Robert V.A., Crous P.W., Kang S., Geiser D.M. RPB1 and RPB2 phylogeny supports an early Cretaceous origin and a strongly supported clade comprising all agriculturally and medically important fusaria. Fungal Genetics and Biology 2013, 52:20-31.
33. Phan H.T., Burgess L.W., Summerell B.A., Bullock S., Liew E.C.Y., Smith-White J.L., Clarkson J.R. Gibberella gaditjirri (Fusarium gaditjirri) sp. nov., a new species from tropical grasses in Australia. Studies in Mycology 2004, 50:261-272.
34. Proctor R.H., van Hove F., Susca A., Stea G., Busman M., van der Lee T., Waalwijk C., Moretti A., Ward T.J. Birth, death and horizontal transfer of the fumonisin biosynthetic gene cluster during the evolutionary diversification of Fusarium. Molecular Microbiology 2013, 90:290-306.
35. Ranque S., Normand A.C., Cassagne C., Murat J.B., Bourgeois N., Dalle F., Gari-Toussaint M., Fourquet P., Hendrickx M., Piarroux R. MALDI-TOF mass spectrometry identification of filamentous fungi in the clinical laboratory. Mycoses 2014, 57:135-140.
36. Reeb V., Lutzoni F., Roux C. Contribution of RPB2 to multilocus phylogenetic studies of the euascomycetes (Pezizomycotina, Fungi) with special emphasis on the lichen-forming Acarosporaceae and evolution of polyspory. Molecular Phylogenetics and Evolution 2004, 32:1036-1060.
37. Ronquist F., Huelsenbeck J.P. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 2003, 19:1572-1574.
38. Scauflaire J., Gourgue M., Munaut F. Fusarium temperatum sp. nov.from maize, an emergent species closely related to Fusarium subglutinans. Mycologia 2011, 103:586-597.
39. Schmale D.G., Munkvold G.P. Mycotoxins in crops: a threat to human and domestic animal health. Plant Health Instructor 2009, 10.1094/PHI-I-2009-0715-01.
40. Sharon A., Shlezinger N. Fungi infecting plants and animals: killers, non-killers, and cell death. PLoS Pathogens 2013, 9:e1003517.
41. Short D.P., O'Donnell K., Thrane U., Nielsen K.F., Zhang N., Juba J.H., Geiser D.M. Phylogenetic relationships among members of the Fusarium solani species complex in human infections and the descriptions of F. keratoplasticum sp. nov. and F. petroliphilum sp. nov. Fungal Genetics and Biology 2013, 53:59-70.
42. Smith S.N. An overview of ecological and habitat aspects in the genus Fusarium with special emphasis on the soil-borne pathogenic forms. Plant Pathology Bulletin 2007, 16:97-120.
43. Steenkamp E.T., Wingfield B.D., Coutinho T.A., Zeller K.A., Wingfield M.J., Marasas W.F.O., Leslie J.F. PCR-based identification of MAT-1 and MAT-2 in the Gibberella fujikuroi species complex. Applied and Environmental Microbiology 2000, 66:4378-4382.
44. Subbarao K.V., Michailides T.J. Virulence of Fusarium species causing fig endosepsis in cultivated and wild capri figs. Phytopathology 1993, 83:527-533.
45. Triest D., Stubbe D., De Cremer K., Piérard D., Normand A.-C., Piarroux R., Detandt M., Hendrickx M. Use of matrix-assisted laser desorption ionization-time of flight mass spectrometry for identification of molds of the Fusarium genus. Journal of Clinical Microbiology 2015, 53:465-476.
46. Triest D., Stubbe D., De Cremer K., Piérard D., Detandt M., Hendrickx M. Banana infecting fungus, Fusarium musae, is also an opportunistic human pathogen: are bananas potential carriers and source of fusariosis?. Mycologia 2015, 107:46-53.
47. van Hove F., Waalwijk C., Logrieco A., Munaut F., Moretti A. Gibberella musae (Fusarium musae) sp. nov., a recently discovered species from banana is sister to F. verticillioides. Mycologia 2011, 103:570-585.
48. White T.J., Bruns T., Lee S., Taylor J. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. PCR Protocols: a guide to methods and applications 1990, 315-322. Academic, USA. M.A. Innis, D.H. Gelfand, J. Sninsky, T.J. White (Eds.).
49. Zhang N., O'Donnell K., Sutton D.A., Nalim F.A., Summerbell R.C., Padhye A.A., Geiser D.M. Members of the Fusarium solani species complex that cause infections in both humans and plants are common in the environment. Journal of Clinical Microbiology 2006, 44:2186-2190.