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Volume 22, Number 3—March 2016

Far East Scarlet-Like Fever Caused by a Few Related Genotypes of Yersinia pseudotuberculosis, Russia

Nelly F. Timchenko1, Ruslan R. Adgamov, Alexander F. Popov, Ekaterina K. Psareva, Konstantin A. Sobyanin, Alexander L. Gintsburg, and Svetlana A. Ermolaeva1Comments to Author 
Author affiliations: Institute of Epidemiology and Microbiology named after G.P. Somov, Vladivostok, Russia (N.F. Timchenko, E.K. Psareva); Gamaleya Institute of Epidemiology and Microbiology, Moscow, Russia (R.R. Adgamov, K.A. Sobyanin, A.L. Gintsburg, S.A. Ermolaeva); Paсific State Medical University, Vladivostok (A.F. Popov); Pirogov Russian National Research Medical University, Moscow (S.A. Ermolaeva)

Main Article

Table 2

Polymorphism of housekeeping and virulence genes in study of Far East scarlet-like fever caused by a clonal group of Yersinia pseudotuberculosis, Russia*

Target gene† Fragment length, bp‡ Alleles, no. Indels, no. Polymorphic sites/parsimony informative Substitutions, no.
Results of positive selection test,
probability/dN – dS§ Nucleotide diversity, no.
adk 387 1 0 0/0 NA NA NA NA
argA 357 1 0 0/0 NA NA NA NA
aroA 354 1 0 0/0 NA NA NA NA
glnA 336 3 0 2/0 10 2 1.000/–2.734 0.01974
thrA 339 3 0 2/0 2 0 1.000/–1.455 0.00390
tmk 372 4 0 7/0 7 0 1.000/–2.832 0.00941
trpE 465 2 0 1/0 1 0 1.000/–1.021 0.00215
Concatemers MLST¶ 2,610 6 0 22/5 20 2 1.000/–3.937 0.00289
inv 603 2 0 3/0 1 2 1.000/–0.494 0.00498
yopE 540 3 0 3/0 0 3 0.034/1.835 0.00368
yadA 651 3 6 9/2 2 7 0.408/0.238 0.00930
Concatemers virulence genes# 1,794 3 6 15/4 3 12 0.109/1.241 0.00457
Concatemers MVLST** 4,404 6 6 37/9 23 14 1.000/–3.023 0.00311

*Positive values are shown in bold. dN, number of nonsynonymous substitutions per site; dS, number of synonymous substitutions per site; MLST, multilocus sequence typing; MVLST, multivirulence locus sequence typing; NA, not applicable.
†Housekeeping genes are included in the MLST scheme.
‡Length of fragments included in the sequence analysis.
§The probability of rejecting the null hypothesis of strict neutrality (dN = dS) in favor of the alternative hypothesis (dN is >dS) and the test statistics (dN – dS) are shown. Values were calculated by using MEGA6 (10).
¶Concatemers of sequences included in the MLST scheme. The sequences were cut off to start and finish an analysis with the first and third codon positions, respectively. Concatemers were gathered manually.
#Concatemers of virulence gene fragments.
**Concatemers of 7 housekeeping and 3 virulence gene fragments.

Main Article

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1These authors were co–principal investigators.

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