TABLE 4.
Mutations identified in phage-resistant 10403S mutants selected by LP-Mix_6.1 or LP-Mix_6.2
| Nucleotide position | Gene homologs |
Description | Mutation typea | WT | Altb | Strain | No. of mutations | Phage selection | Susceptibility |
||
|---|---|---|---|---|---|---|---|---|---|---|---|
| 10403S | EGD-e | LP-048 | LP-125 | ||||||||
| 309662 | LMRG_02583 | lmo0288 | Cell wall metabolism sensor histidine kinase (YycG or WalK) | MS | A | G | UTK P1-0017 | 2 | LP-Mix_6.2 | + | − |
| 396639 | LMRG_00062 | lmo0370 | Alkylphosphonate utilization operon protein | FS | T | TA | UTK P1-0009 | 4 | LP-Mix_6.1 | + | − |
| 975464 | LMRG_02059 | lmo0960 | U32 family peptidase | SN | C | T | UTK P1-0009 | 4 | LP-Mix_6.1 | + | − |
| 1021645 | LMRG_02110 | lmo1010 | LysR family transcriptional regulator | SN | G | A | UTK P1-0012 | 3 | LP-Mix_6.2 | + | − |
| 1093551 | LMRG_00541 | lmo1079 | Glycosyltransferase (YfhO) | FS | G | GA | UTK P1-0009 | 4 | LP-Mix_6.1 | + | − |
| 1093565 | LMRG_00541 | lmo1079 | Glycosyltransferase (YfhO) | Conservative in-frame 48-nucleotide deletion | G | UTK P1-0011 | 1 | LP-Mix_6.1 | + | − | |
| 1093907 | LMRG_00541 | lmo1079 | Glycosyltransferase (YfhO) | FS | TA | T | UTK P1-0018 | 2 | LP-Mix_6.2 | + | − |
| 1094356 | LMRG_00541 | lmo1079 | Glycosyltransferase (YfhO) | FS | TA | T | UTK P1-0012 | 3 | LP-Mix_6.1 | + | − |
| 1094918 | LMRG_00541 | lmo1079 | Glycosyltransferase (YfhO) | NS | C | T | UTK P1-0010 | 1 | LP-Mix_6.1 | + | − |
| 1096556 | LMRG_00542 | lmo1080 | Rhamnosyltransferase (RmlT) | FS | TA | T | UTK P1-0015 | 3 | LP-Mix_6.2 | − | − |
| 1097397 | LMRG_00542 | lmo1080 | Rhamnosyltransferase (RmlT) | FS | TA | T | UTK P1-0014 | 2 | LP-Mix_6.2 | − | − |
| 1282575 | LMRG_00745 | lmo1295 | RNA chaperone (Hfq) | FS | CT | C | UTK P1-0009 | 4 | LP-Mix_6.1 | + | − |
| 1878265 | LMRG_00992 | lmo1845 | Xanthine-uracil permease | MS | C | T | UTK P1-0016 | 2 | LP-Mix_6.2 | + | − |
| 2322483 | LMRG_01556 | NA | N-acetyltransferase | FS | CT | C | UTK P1-0015 | 3 | LP-Mix_6.2 | − | − |
| 2442088 | LMRG_01832 | lmo2416 | Threonyl tRNA synthetase (ThrS) | MS | G | A | UTK P1-0014 | 2 | LP-Mix_6.2 | − | − |
| 2515523 | LMRG_01762 | lmo2486 | DUF4097 family beta strand repeat protein | FS | AT | A | UTK P1-0012 | 3 | LP-Mix_6.1 | + | − |
| 2515523 | LMRG_01762 | lmo2486 | DUF4097 family beta strand repeat protein | FS | AT | A | UTK P1-0013 | 2 | LP-Mix_6.1 | + | − |
| 2515523 | LMRG_01762 | lmo2486 | DUF4097 family beta strand repeat protein | FS | AT | A | UTK P1-0015 | 3 | LP-Mix_6.2 | − | − |
| 2515523 | LMRG_01762 | lmo2486 | DUF4097 family beta strand repeat protein | FS | AT | A | UTK P1-0018 | 2 | LP-Mix_6.2 | + | − |
| 2579547 | LMRG_01698 | lmo2549 | Putative flippase (GtcA) | NS | C | T | UTK P1-0017 | 2 | LP-Mix_6.2 | + | − |
| 2580198 | LMRG_01697 | lmo2550 | Glycosyltransferase (CsbB) | MS | C | T | UTK P1-0016 | 2 | LP-Mix_6.2 | + | − |
| 2580621 | LMRG_01697 | lmo2550 | Glycosyltransferase (CsbB) | NS | C | A | UTK P1-0013 | 2 | LP-Mix_6.1 | + | − |
a
NS, nonsense; MS, missense; FS, frameshift (the first nucleotide is maintained from WT to Alt in frameshift mutations); SN, synonymous.
b
Alt, alternate allele.