Skip to main content

Table 2 Whole genome sequencing results

From: Salmonella Typhimurium undergoes distinct genetic adaption during chronic infections of mice

SRA accession numbera

Mouse ID

Sample

Clone

WITS ID

WITS prevalence

SNPb

Coordinates in ST4/74 genomec

Gene affected and amino acid effectd,e

SAMN04230908

5A

Feces, 6 weeks

2A

7

63 %

G- > T

1895850

kdgR, V61L

SAMN04230909

5B

Feces, 4 weeks

1A

4

>96 %

A- > G

G- > A

22493

2578136

Synonymous, located in STM474_0020 Synonymous, located in maeB

SAMN04230910

5C

Feces, 6 weeks

2A

7

88 %

G- > T

1895850

kdgR, V61L

SAMN04230911

5D

Feces, 4 weeks

1A

7

96 %

G- > T

1895850

kdgR, V61L

SAMN04230912

5E

Spleen

1A

1

63 %

Deletion, T

A- > G

3962521

63854

Promoter region of yicE Synonymous, located in STM474_0057

SAMN04230913

5E

Liver

1A

3

98 %

C- > A

3507750

ptsN, S21R

SAMN04230914

5E

Feces, 6 weeks

1A

3

>98 %

C- > A

3507750

ptsN, S21R

  1. aShort Read Archive database accession numbers for the raw sequencing reads
  2. bSingle nucleotide polymorphisms
  3. cAccession numbers NC_016857, CP002488-CP002490 [25]
  4. dGenes are denoted by their common name or by their STM474 gene number
  5. eAmino acids are denoted by their single letter code