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-1alpha) 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-1alpha, 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-1alpha 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.
authors.affiliation: Microbial Genomics Research Unit, Agricultural Research Service, US Department of Agriculture, Peoria, IL 61604, USA. kerry.odonnell@ars.usda.gov
authors.forename: Kerry
authors.initials: K
authors.lastname: O'Donnell
authors.forename: Cécile
authors.initials: C
authors.lastname: Gueidan
authors.forename: Stacy
authors.initials: S
authors.lastname: Sink
authors.forename: Peter R
authors.initials: PR
authors.lastname: Johnston
authors.forename: Pedro W
authors.initials: PW
authors.lastname: Crous
authors.forename: Anthony
authors.initials: A
authors.lastname: Glenn
authors.forename: Ron
authors.initials: R
authors.lastname: Riley
authors.forename: Nicholas C
authors.initials: NC
authors.lastname: Zitomer
authors.forename: Patrick
authors.initials: P
authors.lastname: Colyer
authors.forename: Cees
authors.initials: C
authors.lastname: Waalwijk
authors.forename: Theo van der
authors.initials: Tv
authors.lastname: Lee
authors.forename: Antonio
authors.initials: A
authors.lastname: Moretti
authors.forename: Seogchan
authors.initials: S
authors.lastname: Kang
authors.forename: Hye-Seon
authors.initials: HS
authors.lastname: Kim
authors.forename: David M
authors.initials: DM
authors.lastname: Geiser
authors.forename: Jean H
authors.initials: JH
authors.lastname: Juba
authors.forename: Robert P
authors.initials: RP
authors.lastname: Baayen
authors.forename: Matthew G
authors.initials: MG
authors.lastname: Cromey
authors.forename: Sean
authors.initials: S
authors.lastname: Bithell
authors.forename: Deanna A
authors.initials: DA
authors.lastname: Sutton
authors.forename: Kerstin
authors.initials: K
authors.lastname: Skovgaard
authors.forename: Randy
authors.initials: R
authors.lastname: Ploetz
authors.forename: H
authors.initials: H
authors.lastname: Corby Kistler
authors.forename: Monica
authors.initials: M
authors.lastname: Elliott
authors.forename: Mike
authors.initials: M
authors.lastname: Davis
authors.forename: Brice A J
authors.initials: BA
authors.lastname: Sarver
mesh_terms: D001483:Base Sequence; D017124:Conserved Sequence; D003428:Cross Infection / Q000382:microbiology; D016172:DNA Fingerprinting; D004271:DNA, Fungal / Q000235:genetics; D004275:DNA, Ribosomal / Q000235:genetics; D021903:DNA, Ribosomal Spacer / Q000235:genetics*; D030561:Databases, Nucleic Acid; D019143:Evolution, Molecular; D005670:Fusarium / Q000145:classification* / Q000235:genetics* / Q000378:metabolism; D006801:Humans; D016533:Mycological Typing Techniques; D009181:Mycoses / Q000382:microbiology*; D009183:Mycotoxins / Q000096:biosynthesis / Q000235:genetics; D020648:Peptide Elongation Factor 1 / Q000235:genetics*; D010802:Phylogeny; D010935:Plant Diseases / Q000382:microbiology*; D010944:Plants / Q000382:microbiology; D012337:RNA, Ribosomal, 18S / Q000235:genetics; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA; D013045:Species Specificity
chemical_list: D004271:DNA, Fungal; D004275:DNA, Ribosomal; D021903:DNA, Ribosomal Spacer; D009183:Mycotoxins; D020648:Peptide Elongation Factor 1; D012337:RNA, Ribosomal, 18S