TABLE 2.
WGS results for L. monocytogenes EGD-e transposon mutant strains
| Strain codeh | Transposon locationh | Transposon location (by WGS) | SNP location in sigB operona | Frameshift resultf | New strain name |
|---|---|---|---|---|---|
| A4:E8 | lmo0040 | lmo0770c | IN(rsbS)67 (+GATC) | p.H23Rfs*16 | 1RsbS (H23R) |
| A4:D7 | lmo0101-lmo0102b | —e | IN(rsbS)67 (+GATC) | p.H23Rfs*16 | NAi |
| A1:D10 | lmo0842 | —e | IN(rsbS)67 (+GATC) | p.H23Rfs*16 | NA |
| A4:B1 | lmo2682 | —e | IN(rsbS)67 (+GATC) | p.H23Rfs*16 | NA |
| A3:G10 | lmo2777 | —e | IN(rsbS)67 (+GATC) | p.H23Rfs*16 | NA |
| C10:A8 | lmo0124 | lmo0125c | Δ(rsbU)306 (−G) | p.E103Kfs*7 | 2RsbU (E103K) |
| C14:C12 | lmo0595-lmo0596b | —e | IN(rsbS)67 (+GATC) | p.H23Rfs*16 | 3RsbS (H23R) |
| C12:F3 | lmo0774 | —e | Δ(rsbU)506 (−AT) | p.Y170Rfs*28 | NA |
| C9:C1 | lmo1736 | —e | Δ(rsbS)6 (−T) | p.D21Efs*6 | NA |
| D9:B6 | lmo0101 | lmo0101-lmo0102b,c,d | IN(rsbV)136 (+TGTAC) | p.R47Yfs*6 | 4RsbV (E42R) |
| D2:C10 | lmo2668 | —e | IN(rsbV)120 (+A) | p.E42Rfs*17 | 5RsbV (R47Y) |
| B14:A6 | —g | lmo1671 | None | NA | NA |
| B15:E2 | —g | lmo2287 | None | NA | NA |
SNP position in the L. monocytogenes chromosome identified by WGS.
Transposon insertion located in the intergenic region.
Different transposon position than initially reported.
Not in the same position as A4:D7.
Same position as reported previously (32).
Nomenclature was adapted from that recommended by the Human Genome Variations Society (79). For example, in “p.H23Rfs*16,” p.H23R refers to the first encoded residue affected in the new protein, resulting in a histidine-to-arginine substitution at codon 23, while fs*16 refers to the number of codons in the new reading frame that would be translated prior to encountering a stop codon.
Not previously analyzed by WGS (32).
See reference 32.
NA, not applicable.