Table 1 Characteristics of L. delbrueckii ssp. bulgaricus and L. delbrueckii ssp . lactis genomes
From: Lactobacillus delbrueckii ssp. lactis and ssp. bulgaricus: a chronicle of evolution in action
L. delbrueckii ssp. bulgaricus strains | L. delbrueckii ssp. lactis strains | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
ATCC 11842 | ATCC BAA-365 | 2038 | VIB27 | VIB44 | NDO2 | CNRZ226 | CNRZ327 (e) | CNRZ333 | CNRZ700 | |
Assembled genome size (a) | 1,864,998 | 1,856,951 | 1,872,918 | 1,838,091 | 1,810,332 | 2,125,753 | 1,904,440 | 1,844,879 1,938,538 | 1,996,651 | 1,989,632 |
Estimated genome size (b) | N/A | N/A | N/A | 1,853,000 | 1,818,000 | N/A | 1,911,000 | 1,969,000 2,105,000 | 2,052,000 | 2,086,000 |
Number of contigs | 1 | 1 | 1 | 32 | 27 | 1 | 21 | 161/571* | 87 | 333 |
Number of scaffolds | 1 | 1 | 1 | 14 | 14 | 1 | 10 | 33/1 | 23 | 75 |
Average sequencing depth | - | - | - | 86 | 94 | - | 71 | 78 | 77 | 56 |
Number of CDS (c) | 1,466 | 1,380 | 1,333 | 1,783 | 1,711 | 1,666 | 1,665 | 1,525 | 1,721 | 1,593 |
Number of pseudogene-fragments (d) | 630 | 341 | 459 | 388 | 423 | 346 | 390 | 545 | 381 | 408 |
Number of CDS with unknown function | 642 | 294 | 343 | 442 | 434 | 317 | 361 | 315 | 369 | 345 |
Overall GC content (%) | 49.7 | 49.7 | 49.7 | 49.4 | 49.7 | 49.6 | 49.8 | 49.8 | 48.2 | 49.5 |
GC content of CDS | 50.8 | 51.2 | 51.9 | 51.7 | 51.8 | 51.5 | 52.0 | 52.2 | 51.6 | 51.8 |
GC content of CDS at codon position 3 (%) | 65.0 | 64.8 | 64.9 | 66.0 | 66.7 | 64.0 | 67.0 | 65.1 | 63.4 | 67.4 |
CDS as % of genome sequence | 73.4 | 68.3 | 69.2 | 77.1 | 76.5 | 75 | 77.4 | 62.9 | 75.3 | 68.4 |
Number of rrn operons | 9 | 9 | 9 | - | - | 9 | - | 9 | - | - |
Protein localization prediction | ||||||||||
Cytoplasmic | 1,089 | 996 | 958 | 1,346 | 1,277 | 1,245 | 1,237 | 1,140 | 1,272 | 1,182 |
Membrane | 225 | 227 | 208 | 247 | 253 | 242 | 248 | 223 | 259 | 237 |
Surface exposed | 86 | 101 | 115 | 118 | 115 | 119 | 119 | 101 | 123 | 113 |
Secreted | 69 | 56 | 52 | 72 | 66 | 60 | 61 | 61 | 67 | 61 |