Table 3.
P. freudenreichii strains included in this study. The details of differences between the genome sequences within strains
| Strain | Accession number | GC% | Note | Details |
|---|---|---|---|---|
| JS7 | LT618776 | 67% | Genome with prophage | PFR_JS7–1_1810 HTH-type transcriptional regulator KmtR:PFR_JS7–1_1869 Transcriptional regulator MtrR (preceeded by tRNA-Lys) |
| LT618777 | 67% | Genome without phage | ||
| JS9 | LT618785 | 67% | Genome with an additional transposase gene | PFR_JS9–1_62 Uma4 protein |
| LT618786 | 67% | |||
| JS12 | LT604998 | 67% | Genome with an additional transposase gene | PFR_JS12–1_615 a Transposase of ISAar20, ISL3 family and PFR_JS12–1_616 Hypothetical protein (ahead of Carbon starvation protein) |
| LT576787 | 67% | |||
| JS13 | LT618779 | 67% | Genome with 11-gene insertion or deletion b | JS13_289 Hypothetical protein: JS13_299 Transposase for insertion sequence element IS1001 |
| LT618780 | 67% | |||
| JS15 | LT618787 | 67% | 3 transposase genes absent from the other genome | PFR_JS15–1_878 Uma4 protein and PFR_JS15–1_879 Hypothetical protein; PFR_JS15–1_1737 Transposase of ISAar20, ISL3 family (Transposase gene disrupting gene coding for CitT); PFR_JS15–1_2045 a Transposase of ISAar20, ISL3 family |
| LT618788 | 67% | Transposase gene disrupting a Type III restriction enzyme | PFR_JS15–2_359 Transposase of ISAar43,IS3 family, IS407 group, orfA and PFR_JS15–2_360 c Insertion sequence IS407 orfB | |
| JS17 | LT618789 | 67% | A duplicated transposase gene | PFR_JS17–1_657 and PFR_JS17–1_658 a Transposase of ISAar20, ISL3 family |
| LT618790 | 67% | |||
| JS20 | LT618792 | 67% | 3 transposase genes absent from the other genome | PFR_JS20–2_544 Insertion sequence IS407 OrfB and PFR_JS20–2_545 c Transposase of ISAar43,IS3 family, IS407 group, orfA (disrupting Transposase IS30 family gene); PFR_JS20–2_568 Transposase of ISAar20, ISL3 family (ahead of Carbon starvation protein); PFR_JS20–2_1234 Transposase of ISAar20, ISL3 family (ahead of LuxS) |
| LT618791 | 67% | |||
| JS21 | LT618781 | 67% | Transposase gene ahead of putative aminotransferase biotin synthesis related protein | PFR_JS21–2_248 Transposase of ISAar20, ISL3 family |
| LT618782 | 67% |
a Transposase genes PFR_JS12–1_615, PFR_JS15–1_2045, PFR_JS17–1_657 and PFR_JS17–1_658 found in strains JS12, JS15 and JS17, respectively, are 100% identical
b The same element is present in the strain JS11 in the same location, but in all of the sequences
c Transposase genes PFR_JS15–2_359 and PFR_JS15–2_360 are identical to PFR_JS20–2_544 and PFR_JS20–2_545. The transposase genes do not appear to be acquired through horisontal transfer, as each of them is present in their respective genomes in at least one more location. All of the transposase genes have counterparts in multiple strains, suggesting their intrinsic character for the species