Table 1.
Strains, plasmids, and phages used in this study
| Strain, plasmid, or phage | Feature(s) | Source |
|---|---|---|
| Bacterial strains | ||
| L. lactis subsp. cremoris NZ9000 | L. lactis MG1363 derivative containing nisRK, host to phages jj50, p2, and sk1 | Ref. 46 |
| L. lactis subsp. cremoris 3107 | Host to phages LC3, TP901–1, 66901, 66902, 66903, 62604, 62605, and 62601 | Ref. 47 |
| L. lactis subsp. cremoris VES5751 | L. lactis MG1363 derivative exhibiting a deficient PSP phenotype due to a mutation in llmg_0226 | Ref. 11 |
| L. lactis subsp. cremoris NZ9000-csdAB | NZ9000 with GAATTCG insert in llnz_00690 (csdA) and llnz_00695 (csdB), resulting in a TGA stop codon insertion in each gene | This work |
| L. lactis subsp. cremoris NZ9000-csdC | NZ9000 with GAATTCG insert in llnz_03080 (csdC) resulting in a TGA stop codon in csdC | This work |
| L. lactis subsp. cremoris NZ9000-csdD | NZ9000 with GAATTCG insert in llnz_03075 (csdD) resulting in a TGA stop codon in csdC | This work |
| L. lactis subsp. cremoris NZ9000-csdCD | NZ9000 with GAATTCG insert in llnz_03075 (csdD) and llnz_03080 (csdC) resulting in a TGA stop codon insertion in both genes | This work |
| L. lactis subsp. cremoris NZ9000-csdEF | NZ9000 with GATAACCC insert in llnz_07820 (csdE) and llnz_07825 (csdF), resulting in a TGA and TAA stop codon insertion, respectively | This work |
| L. lactis subsp. cremoris NZ9000-cflA | NZ9000 with TAATAGGGG insert in llnz_02975 (cflA) resulting in a TAA and TAG double stop codon in cflA | This work |
| Plasmids | ||
| pJP005 | Recombineering-facilitating vector containing recT, PnisA, Cmr | Ref. 39 |
| pNZ44 | High-copy expression vector, contains P44 constitutive promotor, Cmr | Ref. 37 |
| pNZ44str | Derivative vector of pNZ44, Strr | Developed by Andrea Garzon, UCC Collection |
| pCNR | Recombineering-facilitating vector containing recT, PnisA, Cmr derived from the low-copy vector pJP005 | This work |
| pVPL3004 | Low-copy vector expressing cas9 along with tracRNA, Eryr | Ref. 41 |
| pCRISPR | High-copy vector carrying CRISPR repeats and used for inserting target spacer sequences, Tetr | Ref. 41 |
| pCRISPR::cflA | pCRISPR plasmid carrying a CRISPR repeat targeting the recombineered sequence of gene cflA, Tetr | This work |
| pNZ44::csdCD | pNZ44 containing genes csdC and csdD | This work |
| pNZ44::csdA | pNZ44 containing gene csdA | This work |
| pNZ44::csdB | pNZ44 containing gene csdB | This work |
| pNZ44::csdAB | pNZ44 containing genes csdA and csdB | This work |
| pNZ44str::csdAB | pNZ44str containing genes csdA and csdB | This work |
| pNZ44::csdE | pNZ44 containing gene csdE | This work |
| pNZ44::csdF | pNZ44 containing gene csdF | This work |
| pNZ44::csdEF | pNZ44 containing genes csdE and csdF | This work |
| Bacteriophages | ||
| jj50* | Spontaneously acquired derivative of jj50 (NC_008371.1), propagated on NZ9000 | This work |
| p2 | 936 species, propagated on NZ9000 | Ref. 48 |
| sk1 | 936 species, propagated on NZ9000 | Ref. 49 |
| MCC1 | Derivative of sk1, propagated on NZ9000 | Ref. 8 |
| LC3 | P335 species, propagated on 3107 | Ref. 50 |
| TP901-1 | P335 species, propagated on 3107 | Ref. 47 |
| 66901 | 936 species, propagated on 3107 | Ref. 51 |
| 66902 | 936 species, propagated on 3107 | UCC Culture Collection |
| 66903 | 936 species, propagated on 3107 | UCC Culture Collection |
| 62604 | 936 species, propagated on 3107 | Ref. 51 |
| 62605 | 936 species, propagated on 3107 | Ref. 51 |
| 62601 | 936 species, propagated on 3107 | Ref. 51 |
| 63301 | P335 species, propagated on 3107 | Ref. 52 |
| 50101 | P335 species, propagated on 3107 | Ref. 52 |
| 07501 | P335 species, propagated on 3107 | Ref. 53 |
| 58601 | P335 species, propagated on 3107 | Ref. 53 |
| 86501 | P335 species, propagated on 3107 | Ref. 52 |