A two-locus DNA sequence database for typing plant and human pathogens within the Fusarium oxysporum species complex

K. O'Donnell; C. Gueidan; S. Sink; P.R. Johnston; P.W. Crous; A. Glenn; R. Riley; N.C. Zitomer; P. Colyer; C. Waalwijk; T. van der Lee; A. Moretti; S. Kang; H.S. Kim; D.M. Geiser; J.H. Juba; R.P. Baayen; M.G. Cromey; S. Bithel; D.A. Sutton; K. Skovgaard; R. Ploetz; H.C. Kistler; M. Elliot; M. Davis; B.A.J. Sarver

doi:10.1016/j.fgb.2009.08.006

A two-locus DNA sequence database for typing plant and human pathogens within the Fusarium oxysporum species complex

K. O'Donnell, C. Gueidan, S. Sink, P.R. Johnston, P.W. Crous, A. Glenn, R. Riley, N.C. Zitomer, P. Colyer, C. Waalwijk, T. van der Lee, A. Moretti, S. Kang, H.S. Kim, D.M. Geiser, J.H. Juba, R.P. Baayen, M.G. Cromey, S. Bithel, D.A. SuttonK. Skovgaard, R. Ploetz, H.C. Kistler, M. Elliot, M. Davis, B.A.J. Sarver

Laboratory of Phytopathology

Research output: Contribution to journal › Article › Academic › peer-review

282 Citations (Scopus)

Abstract

We constructed a two-locus database, comprising partial translation elongation factor (EF-1a) gene sequences and nearly full-length sequences of the nuclear ribosomal intergenic spacer region (IGS rDNA) for 850 isolates spanning the phylogenetic breadth of the Fusarium oxysporum species complex (FOSC). Of the 850 isolates typed, 101 EF-1a, 203 IGS rDNA, and 256 two-locus sequence types (STs) were differentiated. Analysis of the combined dataset suggests that two-thirds of the STs might be associated with a single host plant. This analysis also revealed that the 26 STs associated with human mycoses were genetically diverse, including several which appear to be nosocomial in origin. A congruence analysis, comparing partial EF-1a and IGS rDNA bootstrap consensus, identified a significant number of conflicting relationships dispersed throughout the bipartitions, suggesting that some of the IGS rDNA sequences may be non-orthologous. We also evaluated enniatin, fumonisin and moniliformin mycotoxin production in vitro within a phylogenetic framework.

Original language	English
Pages (from-to)	936-948
Journal	Fungal Genetics and Biology
Volume	46
Issue number	12
DOIs	https://doi.org/10.1016/j.fgb.2009.08.006
Publication status	Published - 2009

Keywords

vegetative compatibility groups
f-sp cubense
fragment-length-polymorphisms
intergenic spacer region
genetic diversity
ribosomal dna
fungus fusarium
discontinuous distribution
phylogenetic diversity
nectria-haematococca

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10.1016/j.fgb.2009.08.006

MYCORED: Novel integrated strategies for worldwide mycotoxin reduction in the food and feed chains
1/04/09 → 30/09/13
Project: EU research project

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O'Donnell, K., Gueidan, C., Sink, S., Johnston, P. R., Crous, P. W., Glenn, A., Riley, R., Zitomer, N. C., Colyer, P., Waalwijk, C., van der Lee, T., Moretti, A., Kang, S., Kim, H. S., Geiser, D. M., Juba, J. H., Baayen, R. P., Cromey, M. G., Bithel, S., ... Sarver, B. A. J. (2009). A two-locus DNA sequence database for typing plant and human pathogens within the Fusarium oxysporum species complex. Fungal Genetics and Biology, 46(12), 936-948. https://doi.org/10.1016/j.fgb.2009.08.006

@article{65c45bc9cef142ccbd7ab79cfd1de810,

title = "A two-locus DNA sequence database for typing plant and human pathogens within the Fusarium oxysporum species complex",

abstract = "We constructed a two-locus database, comprising partial translation elongation factor (EF-1a) gene sequences and nearly full-length sequences of the nuclear ribosomal intergenic spacer region (IGS rDNA) for 850 isolates spanning the phylogenetic breadth of the Fusarium oxysporum species complex (FOSC). Of the 850 isolates typed, 101 EF-1a, 203 IGS rDNA, and 256 two-locus sequence types (STs) were differentiated. Analysis of the combined dataset suggests that two-thirds of the STs might be associated with a single host plant. This analysis also revealed that the 26 STs associated with human mycoses were genetically diverse, including several which appear to be nosocomial in origin. A congruence analysis, comparing partial EF-1a and IGS rDNA bootstrap consensus, identified a significant number of conflicting relationships dispersed throughout the bipartitions, suggesting that some of the IGS rDNA sequences may be non-orthologous. We also evaluated enniatin, fumonisin and moniliformin mycotoxin production in vitro within a phylogenetic framework.",

keywords = "vegetative compatibility groups, f-sp cubense, fragment-length-polymorphisms, intergenic spacer region, genetic diversity, ribosomal dna, fungus fusarium, discontinuous distribution, phylogenetic diversity, nectria-haematococca",

author = "K. O'Donnell and C. Gueidan and S. Sink and P.R. Johnston and P.W. Crous and A. Glenn and R. Riley and N.C. Zitomer and P. Colyer and C. Waalwijk and {van der Lee}, T. and A. Moretti and S. Kang and H.S. Kim and D.M. Geiser and J.H. Juba and R.P. Baayen and M.G. Cromey and S. Bithel and D.A. Sutton and K. Skovgaard and R. Ploetz and H.C. Kistler and M. Elliot and M. Davis and B.A.J. Sarver",

year = "2009",

doi = "10.1016/j.fgb.2009.08.006",

language = "English",

volume = "46",

pages = "936--948",

journal = "Fungal Genetics and Biology",

issn = "1087-1845",

publisher = "Elsevier",

number = "12",

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O'Donnell, K, Gueidan, C, Sink, S, Johnston, PR, Crous, PW, Glenn, A, Riley, R, Zitomer, NC, Colyer, P, Waalwijk, C, van der Lee, T, Moretti, A, Kang, S, Kim, HS, Geiser, DM, Juba, JH, Baayen, RP, Cromey, MG, Bithel, S, Sutton, DA, Skovgaard, K, Ploetz, R, Kistler, HC, Elliot, M, Davis, M & Sarver, BAJ 2009, 'A two-locus DNA sequence database for typing plant and human pathogens within the Fusarium oxysporum species complex', Fungal Genetics and Biology, vol. 46, no. 12, pp. 936-948. https://doi.org/10.1016/j.fgb.2009.08.006

TY - JOUR

T1 - A two-locus DNA sequence database for typing plant and human pathogens within the Fusarium oxysporum species complex

AU - O'Donnell, K.

AU - Gueidan, C.

AU - Sink, S.

AU - Johnston, P.R.

AU - Crous, P.W.

AU - Glenn, A.

AU - Riley, R.

AU - Zitomer, N.C.

AU - Colyer, P.

AU - Waalwijk, C.

AU - van der Lee, T.

AU - Moretti, A.

AU - Kang, S.

AU - Kim, H.S.

AU - Geiser, D.M.

AU - Juba, J.H.

AU - Baayen, R.P.

AU - Cromey, M.G.

AU - Bithel, S.

AU - Sutton, D.A.

AU - Skovgaard, K.

AU - Ploetz, R.

AU - Kistler, H.C.

AU - Elliot, M.

AU - Davis, M.

AU - Sarver, B.A.J.

PY - 2009

Y1 - 2009

N2 - We constructed a two-locus database, comprising partial translation elongation factor (EF-1a) gene sequences and nearly full-length sequences of the nuclear ribosomal intergenic spacer region (IGS rDNA) for 850 isolates spanning the phylogenetic breadth of the Fusarium oxysporum species complex (FOSC). Of the 850 isolates typed, 101 EF-1a, 203 IGS rDNA, and 256 two-locus sequence types (STs) were differentiated. Analysis of the combined dataset suggests that two-thirds of the STs might be associated with a single host plant. This analysis also revealed that the 26 STs associated with human mycoses were genetically diverse, including several which appear to be nosocomial in origin. A congruence analysis, comparing partial EF-1a and IGS rDNA bootstrap consensus, identified a significant number of conflicting relationships dispersed throughout the bipartitions, suggesting that some of the IGS rDNA sequences may be non-orthologous. We also evaluated enniatin, fumonisin and moniliformin mycotoxin production in vitro within a phylogenetic framework.

AB - We constructed a two-locus database, comprising partial translation elongation factor (EF-1a) gene sequences and nearly full-length sequences of the nuclear ribosomal intergenic spacer region (IGS rDNA) for 850 isolates spanning the phylogenetic breadth of the Fusarium oxysporum species complex (FOSC). Of the 850 isolates typed, 101 EF-1a, 203 IGS rDNA, and 256 two-locus sequence types (STs) were differentiated. Analysis of the combined dataset suggests that two-thirds of the STs might be associated with a single host plant. This analysis also revealed that the 26 STs associated with human mycoses were genetically diverse, including several which appear to be nosocomial in origin. A congruence analysis, comparing partial EF-1a and IGS rDNA bootstrap consensus, identified a significant number of conflicting relationships dispersed throughout the bipartitions, suggesting that some of the IGS rDNA sequences may be non-orthologous. We also evaluated enniatin, fumonisin and moniliformin mycotoxin production in vitro within a phylogenetic framework.

KW - vegetative compatibility groups

KW - f-sp cubense

KW - fragment-length-polymorphisms

KW - intergenic spacer region

KW - genetic diversity

KW - ribosomal dna

KW - fungus fusarium

KW - discontinuous distribution

KW - phylogenetic diversity

KW - nectria-haematococca

U2 - 10.1016/j.fgb.2009.08.006

DO - 10.1016/j.fgb.2009.08.006

M3 - Article

SN - 1087-1845

VL - 46

SP - 936

EP - 948

JO - Fungal Genetics and Biology

JF - Fungal Genetics and Biology

IS - 12

ER -

A two-locus DNA sequence database for typing plant and human pathogens within the Fusarium oxysporum species complex

Abstract

Keywords

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MYCORED: Novel integrated strategies for worldwide mycotoxin reduction in the food and feed chains

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