TABLE 1.
Analysis of virulence factor genes and genes coding for proteins involved in DNA mobility in the genomes of C. sordellii VPI 9048, IP82, and CS166.08a
| Gene product, gene no.b (GenBank accession no.) | % nucleotide identity (GenBank accession no.)c |
||
|---|---|---|---|
| VPI 9048 | IP82 | CS166.08 | |
| 16S rRNA (AB075771)d | 98.8 (KM657123) | 99.0 (KM657124) | 99.0 (KM657125) |
| Phospholipase C, H476_3275 | 100.0 (KM657126) | 98.9 (KM657127) | 97.8 (KM657128) |
| Sialidase, H476_2657 | 100.0 (KM657129) | 99.5 (KM657130) | 97.6 (KM657131) |
| TcsL, H476_0269 | 100.0 (KF726110) | 97.9 (KF726114) | − |
| TcsH, H476_0271, 7,794 bpe | 99.2 (KF726111 [7,857 bp]) | 95.1 (KF726115; pseudogene [1,186 bp]) | − |
| TcsH (KC814176 [7,857 bp])e | 100.0 (KF726111 [7,857 bp]) | 95.2 (KF726115 [1,186 bp]) | − |
| TcsR sigma factor, H476_0272 | 100.0 (KF726113) | 96.2 (KF726117) | − |
| TcsE holin, H476_0270 | 100.0 (KF726112) | 99.8 (KF726116) | − |
| Recombinase RecA-like family, H476_0278 | 100.0 | 96.2 | 86.3 |
| Plasmid replication protein, H476_0274 | 100.0 | 98.8 | − |
| Replication protein Rep_3 superfamily, H477_0270 | 99.0 | 99.6 | − |
| Type IV secretion system conjugative DNA protein, HA476_0297 | 100.0 | 97.9 | − |
| Type IV secretion system coupling DNA, H476_0302 | 100.0 | 96.5 | − |
| Type IV secretion system VirD4 component, H477_0297 | 98.7 | 100.0 | − |
| Type IV secretion system VirD4 component, H477_0298 | 97.2 | 99.8 | − |
| RecA recombinase, H477_0275 | 96.2 | 100.0 | − |
| Transposase, H476_0286 | 100.0 | − | − |
| Transposase, H476_0321 | 100.0 | − | − |
| TraB family protein, H476_0319 | 100.0 | − | − |
a
Whole-genome sequencing of the three strains was performed as previously described (4). DNA homology between target genes from GenBank, including sequences from VPI 9048 (NZ_AQGJ00000000.1) and ATCC 9714 (NZ_APWR00000000.1), and the whole-genome sequences obtained in this study was investigated by BLAST. The results are expressed as percentages of nucleotide identity.
b
H476_xxxx genes are from VPI 9048 genome contigs (NZ_AQGJ00000000.1), and H477_xxxx genes are from ATCC 9714T genome contigs (NZ_APWR00000000.1).
c
−, the gene is lacking.
d
Sequence from strain ATCC 9714T.