Table 2. Genetic variants in mouse‐isolated clones identified by whole‐genome sequencing.
SampleInsert locus and size (kb)Genomic galK+/−Variant position on Escherichia coli genomeVariant impact and coverage
NEB Turbo controlgalK−
Day 7 Mouse 1 clone 1BT_1759 (2.5)galK−
Day 7 Mouse 1 clone 3BT_0370 (4.0)galK−SNV 2976657 G>T

galR (R20L)

[34/34 reads]

Day 7 Mouse 2 clone 5BT_0370 (4.3)galK−
Day 7 Mouse 3 clone 1BT_1759 (3.1)galK−
Day 7 Mouse 4 clone 4BT_0370 (4.1)galK−
Day 7 Mouse 5 clone 2BT_1759 (2.5)galK+
Day 7 Mouse 5 clone 4BT_1759 (3.1)galK−
Day 28 Mouse 1 clone 1BT_1759 (2.5)galK+SNV 363100 A>G

lacY (F27S)

[173/173 reads]

Day 28 Mouse 2 clone 1BT_1759 (2.5)galK+
Day 28 Mouse 3 clone 1BT_1759 (2.5)galK+
Day 28 Mouse 4 clone 1BT_1759 (2.5)galK+
Day 28 Mouse 5 clone 1BT_1759 (2.5)galK+
Day 28 Mouse 5 clone 4BT_1759 (4.2)galK+
Day 28 Mouse 7 clone 1 lux controlgalK+
Day 28 Mouse 10 clone 2 lux controlgalK−
  1. SNV 3991675G>A

  2. SNV 780994G>A

  3. F plasmid SNV 67772 T>C

  1. cyaA (G175S) [122/122 reads]

  2. intergenic, between lysW and valZ [108/108 reads]

  3. traY promoter (−35) [229/229 reads]