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. 2016 May 11;1(3):e00036-16. doi: 10.1128/mSphere.00036-16

TABLE 4 .

State-specific nonsynonymous variants in California and Vermont epidemic B. pertussis genomesa

Nonsynonymous variant in state Functional category Location in E476
(Tohama I)		 Variant
within gene		 Amino
acid change		 No. of
genomes
California
    Transposase for IS1663 Replication, recombination,
and repair		 116940 947 T→A 316 Leu→Gln 13
    Transposase for IS1663 Replication, recombination,
and repair		 527395 805 T→C 269 Tyr→His 12
    Transposase for IS1663 Replication, recombination,
and repair		 1080959 947 T→A 316 Leu→Gln 9
    Transposase for IS1663 Replication, recombination,
and repair		 1090325 947 T→A 316 Leu→Gln 10
    Transposase for IS1663 Replication, recombination,
and repair		 1447860 947 T→A 316 Leu→Gln 12
    Transposase Replication, recombination,
and repair		 3457234 947 A→T 316 Gln→Leu 12
    Regulator (hypothetical protein) Signal transduction mechanisms 3614341 11 G→A 4 Gly→Glu 12
Vermont
    Zinc transporter ZupT Inorganic ion transport
and metabolism		 198405 194 T→C 65 Val→Ala 20
    FAD/FMN-containing dehydrogenase Energy production
and conversion		 216761 19 T→C 7 Ser→Pro 20
    RNase E Translation, ribosomal structure,
and biogenesis		 489152 2480 C→T 827 Pro→Leu 20
    Endoribonuclease l-PSP
 (RutC family protein)		 Function unknown 528567 186 C→G 62 Asp→Glu 20
    Diacylglycerol kinase Lipid transport and metabolism 868389 97 G→A 33 Asp→Asn 19
    Glutamate-ammonia-ligase
 adenylyltransferase		 Posttranslational modification,
protein turnover, chaperones		 1333208 2519 G→A 840 Gly→Asp 20
    Aldo-ketoreductase Function unknown 1388597 625 G→C 209 Ala→Pro 19
    Multidrug efflux pump subunit AcrB Inorganic ion transport
and metabolism		 2208591 3221 A→G 1074 Asn→Ser 19
    Acyltransferase Function unknown 2271460 24 G→C 8 Gln→His 17
    Hypothetical protein Function unknown 2276856 158 T→C 53 Val→Ala 20
    Transposase Replication, recombination,
and repair		 2405180 899 C→G 300 Thr→Ser 19
    Potassium-transporting
 ATPase subunit C		 Inorganic ion transport
and metabolism		 2640489 245 T→C 82 Ile→Thr 19
    5-Hydroxyvalerate dehydrogenase
 (HVD)		 Energy production
and conversion		 3011513 1016 C→T 339 Ala→Val 20
    NADPH dehydrogenase Energy production
and conversion		 3072916 55 A→G 19 Lys→Glu 20
    ADP-dependent (S)-NAD(P)H-
 hydrate dehydratase		 Carbohydrate transport and
metabolism		 3538308 166 G→A 56 Gly→Arg 11
    Putative oligopeptide
 transporter		 Function unknown 1189451-1189452 1765_GC_1766 589 Gly fs 19
    ATP-cobalamin adenosyltransferase Coenzyme transport and
metabolism		 3304784-3304785 545_CCGG_546 183 Ala fs 17
    Hypothetical protein Function unknown 3490857-3490858 1130_CTA_1131 377 Glu delins Asp* 20
a

Abbreviations: fs, frameshift; delins, deletion/insertion; FAD, flavin adenine dinucleotide; FMN, flavin mononucleotide; PSP, perchloric acid-soluble protein; *, produces premature stop codon.