A two-locus DNA sequence database for typing plant and human pathogens within the Fusarium oxysporum species complex.
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.
O'Donnell
Kerry
K
Microbial Genomics Research Unit, Agricultural Research Service, US Department of Agriculture, Peoria, IL 61604, USA. kerry.odonnell@ars.usda.gov
Gueidan
Cécile
C
Sink
Stacy
S
Johnston
Peter R
PR
Crous
Pedro W
PW
Glenn
Anthony
A
Riley
Ron
R
Zitomer
Nicholas C
NC
Colyer
Patrick
P
Waalwijk
Cees
C
Lee
Theo van der
Tv
Moretti
Antonio
A
Kang
Seogchan
S
Kim
Hye-Seon
HS
Geiser
David M
DM
Juba
Jean H
JH
Baayen
Robert P
RP
Cromey
Matthew G
MG
Bithell
Sean
S
Sutton
Deanna A
DA
Skovgaard
Kerstin
K
Ploetz
Randy
R
Corby Kistler
H
H
Elliott
Monica
M
Davis
Mike
M
Sarver
Brice A J
BA
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
D004271:DNA, Fungal; D004275:DNA, Ribosomal; D021903:DNA, Ribosomal Spacer; D009183:Mycotoxins; D020648:Peptide Elongation Factor 1; D012337:RNA, Ribosomal, 18S