Correction to: The pathogenic intestinal spirochaete Brachyspira pilosicoli forms a diverse recombinant species demonstrating some local clustering of related strains and potential for zoonotic spread
verfasst von:
Eugene Neo, Tom La, Nyree Dale Phillips, Mohammad Yousef Alikani, David J. Hampson
The article published in 2013 [1] described the use of the available Brachyspira multilocus sequence typing (MLST) scheme [2] to characterize the population structure of the intestinal spirochete Brachyspira pilosicoli. It used sequences of seven loci that were amplified from 131 strains that had been isolated from different geographical origins and species.
Recently we sequenced the full genomes of 34 of these isolates, and identified some sequence errors for the genes used in the MLST analysis. We attempted to grow the remaining 97 isolates, but 17 could not be recovered from storage. The sequences at the seven loci for the remaining 80 isolates were determined using the Dye Termination method, and additional minor sequence errors were identified. All these sequencing errors have been corrected in the PubMLST site (http://pubmlst.org/brachyspira/). Table 1 in the original article has been updated in this correction, and Figs. 1 and 2 have been redrawn. The main conclusions of the original work have not been changed. The isolates are highly diverse, with 94 sequence types. Large numbers of alleles were found at each locus (36 to 74). The calculated index of association value (1.196; P > 0.001) suggests some clonality. Corrected Table 1 and Figs. 1 and 2 are given here.
Table 1
Number of alleles, genetic diversity, GC content, and variable sites at the seven loci tested
Loci
No. of alleles
h value
Sequence length
No. of variable sites
Variable sites %
%G + C content
No. of amino acids
adh
36
0.906
347
111
32
41.6
13
alp
74
0.989
641
186
29
34.2
47
est
64
0.985
487
355
72.9
33.8
37
gdh
49
0.975
412
50
12.1
34.2
13
glp
54
0.984
686
131
19
32.8
16
pgm
72
0.991
743
164
22.1
33
29
thi
68
0.989
745
442
59.3
39.1
48
Mean h value
0.974
Fig. 1
Minimum spanning tree showing the MLST profiles of 114 Brachyspira pilosicoli strains with the host species of origin marked. Each node corresponds to a sequence type (ST). The lines between STs show inferred phylogenetic relationships and are represented by bold, continuous and continuous thin lines according to the number of allelic mismatches between profiles. Host species of origin are indicated with coloured circles as indicated in the legend
Fig. 2
Minimum spanning tree showing the origin of the B. pilosicoli strains. Each node corresponds to a sequence type (ST). The lines between STs show inferred phylogenetic relationships and are represented by bold, continuous and continuous thin lines according to the number of allelic mismatches between profiles. The country of isolation is shown by coloured circle as indicated in the legend
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Correction to: The pathogenic intestinal spirochaete Brachyspira pilosicoli forms a diverse recombinant species demonstrating some local clustering of related strains and potential for zoonotic spread
verfasst von
Eugene Neo Tom La Nyree Dale Phillips Mohammad Yousef Alikani David J. Hampson
