TABLE 1 

SNP differences between the initial (MSHR1043) and 139-month (MSHR6686) B. pseudomallei isolates from P314

Location in
MSHR1043
Nucleotide
change
Amino acid
change
Affected gene
in MSHR1043
(K96243)
SNP effectaMutated in
MSHR1655?
Affected protein(s)Putative protein
function(s)
seq0001
396179
C→TT194MD512_01885
(BPSL0128)
NS; deleteriousNoNtrXDNA transcription regulator
seq0001
684105
C→TA101AD512_03260
(BPSL0430)
S; neutralNoThioesteraseUnknown
seq0001
798196
C→TA8TD512_03780
(BPSL0530)
NS; neutralNoHPr kinase, phosphorylaseCell adhesion, virulence
seq0003
154078
A→GH115RD512_07998
(BPSL1362)
NS; neutralYesPstBPhosphate uptake
seq0003
331699
T→CI33VD512_08718
(BPSL1981)
NS; neutralYesGalUSugar, LPS metabolism
seq0003
397164
A→CL47RD512_09003
(BPSL1924)
NS; deleteriousNoHypothetical proteinUnknown
seq0003
536977
G→ANAeNANANo99 bp upstream of TetRUnknown
seq0003
678249
G→TR2242LD512_10148
(BPSL1712)
NS; neutralNoSyringomycin synthetasePhytopathogenesis
seq0003
719972
T→CF84LD512_10298
(BPSL1689)
NS; deleteriousNoHypothetical proteinUnknown
seq0003
720544
G→AG85SD512_10303
(BPSL1688)
NS; deleteriousYesHypothetical proteinUnknown
seq0003
943033
G→AQ82stopD512_11298
(BPSL1505)
Nonsense;
deleterious
NoRpoSUniversal stress response
seq0003
1040609
G→AG263DD512_11778
(BPSL1413)
NS; deleteriousYesGlucose-6-phosphate
isomerase
Glycolysis,
gluconeogenesis
seq0006
91557
T→CL279PD512_14441
(BPSL2409)
NS; deleteriousYesATP binding proteinMolecular transport
seq0007
422966
G→ANANANANoNAUnknown
seq0008
15374
G→CI637MD512_17625
(BPSL3016)
NS; deleteriousYesSecaMembrane transport;
secretion
seq0017
181448
C→TS97F (S72F)bD512_21859
(BPSS0946)
NS; neutralYesClass A β-lactamase
PenA
β-Lactam resistance
seq0020
32593
C→AF99LD512_23016
(BPSS1260)
NS; neutralNoHypothetical proteinUnknown
seq0028
205054
G→TR458LD512_25718
(BPSS1501)
NS; neutralNocClpBHeat shock
seq0028
229189
T→CH322RD512_25813
(BPSS1520)
NS; neutralYesdAraC regulatorDNA regulation, virulence
seq0028
480279
T→CD54GD512_26783
(BPSS1698)
NS; deleteriousYesRsrIDNA methylation
seq0028
553993
C→TA660TD512_27123
(BPSS1755)
NS; deleteriousYesRpoDPrimary sigma factor
seq0028
1047356
G→ANANANANoNAUnknown
seq0028
1280562
G→AS2SD512_30428
(BPSS2321)
S; neutralYesHypothetical proteinUnknown
  • a  According to SnpEff (66) and PROVEAN (67). S, synonymous. NS, nonsynonymous. NS, not applicable.

  • b  Resides within the previously described, conserved PenA 70SXXK73 motif (68). S72F causes ~4-fold increased resistance to amoxicillin-clavulanic acid but not to other β-lactams (20, 69).

  • c  MSHR1655 possesses a different mutation in this gene (insertion of a repetitive NAP motif at the 3′ end).

  • d  MSHR1043 possesses the mutant allele; MSHR1655 and MSHR6686 possess the wild-type allele.

  • e  NA, not applicable.