Clonality, recombination, and hybridization in the plumbing-inhabiting human pathogen Fusarium keratoplasticuminferred from multilocus sequence typing

Table 4 Summary statistics for the F. keratoplasticum data set

No. isolates	231
No. nine-locus STs	111
MAT1-1:MAT1-2 (total)	162:69
MAT1-1:MAT1-2 (without 2-d types)	64:60
Allelic diversity¹	0.94
Average genetic diversity of loci²	0.62
NeighborNet δ score³	0.28
Phylogenetic Diversity⁴	0.45
Index of Association⁵	0.47
rBarD⁶	0.06
Standardized I_A⁷	0.05
No. of eBURST SLV groups (clonal complexes)	9
No. STs connected at SLV level	50
No. isolates in SLV level STs	162
No. singletons at SLV level	69

1. ST diversity calculated from Nei (43). 2. Average genetic diversity of the 9 loci calculated using LIAN (25). 3. Average δ score (26) of the clone corrected set of 111 unique STs calculated using SPLITSTREE. 4. Phylogenetic diversity (19) of the clone corrected set of 111 unique STs calculated using SPLITSTREE. 5. Index of Association (41) calculated using MULTILOCUS 1.3b (1) was found to be significantly different (p < 0.01) than 1000 randomizations, which showed an expected range of 2.86-4.09 (mean = 3.46). 6. rBarD calculated using MULTILOCUS 1.3b was found to be significantly different (p < 0.01) than 1000 randomizations, which showed an expected range of 0.0208-0.0283 (mean = 0.024). 7. Standardized I_A calculated using LIAN (25); the null hypothesis of linkage equilibrium was rejected using 1000 resamplings in Monte Carlo tests and a parametric test, with p < 0.001 and p < 3×10²¹ respectively.

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