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Table 1 Mutations observed in outcome strains

From: Genome-wide mutation analysis of Helicobacter pylori after inoculation to Mongolian gerbils

Strains

 

Position

Mutation

Depth

Ratio

Gene

Amino acid change

TN2-1M

(1)

31255

C → A

1025

99.7

Outer membrane protein (hefG)

A61S

(2)

517741

G → A

569

99.7

Glutathione-regulated potassium-efflux system protein (kefB)

N232S

(3)

517792

T → C

676

99.7

A249V

(4)

1241193

Insertion

625

96.6

Outer membrane protein (hofH)

Frameshift without stop

(5)

1297623

A → G

776

99.5

Urease accessory protein (ureI)

H131R

(6)

1496148

A → C

529

95.1

Glutamate permease (gltS)

W131G

TN2-3M

(2)

112286

G → A

866

93.6

Dinucleoside polyphosphate hydrolase

R139C

(5)

188008

C → G

766

100.0

Type II restriction enzyme R protein (hsdR)

R173T

(6)

194568

G → T

774

99.6

Uncharacterized protein

G201W

(7)

926807

Insertion

773

97.0

cag pathogenicity island protein (cag8)

Stop at 136th codon

(8)

1007324

A → G

867

99.1

Outer membrane protein (hopB)

T123A

(9)

1202841

G → A

780

99.9

F0F1 ATP synthase subunit alpha

P470L

TN2-6M

(3)

935451

C → T

691

99.9

P-type DNA transfer ATPase (virB11)

H314Y

(4)

989679

Deletion

629

95.0

Outer membrane protein (babA)

Stop at 93th codon

(5)

1174908

C → A

570

94.4

Lipopolysaccharide biosynthesis proteins

G154W

(6)

1251850

Insertion

605

91.8

Outer membrane protein

Stop at 305th codon

TN2-3M

(1)

87451

Deletion

853

95.2

Oligopeptide ABC transporter periplasmic oligopeptide-binding protein (oppA)

Stop at 464th codon

TN2-6M

(1)

791

96.3

TN2-3M

(3)

175008

G → T

591

97.8

Methyl-accepting chemotaxis protein (tlpB)

G26W

(4)

175755

G → T

795

99.9

G275W

TN2-6M

(2)

175691

Deletion

810

99.9

Stop at 256th codon

  1. Position indicates the location of the mutation in the TN2 genome. Depth and ratio represent number of reads that covered the locus and percentage of the mutated reads, respectively. Numbers in the parentheses correspond with those in Fig. 1