Background
Methods
Strain, isolation, and serotyping
Library preparation and whole genome sequencing
Genome assembly and annotation
Phylogenetic analysis
Analysis of mobile genetic elements
Quality assurance
Results and discussion
General features
Strain | NCCP15739 | NCCP15738 |
E. coli str. K-12 substr. MG1655 |
E. coli O157:H7 str. EDL933 |
---|---|---|---|---|
Genome (Mb) | 5.37 | 5.0 | 4.64 | 5.62 |
%GC | 50.25 | 50.65 | 50.8 | 50.4 |
Total open reading frames | 5226 | 4811 | 4527 | 5411 |
tRNAs | 30 | 27 | 88 | 98 |
rRNAs | 6 | 4 | 22 | 87 |
Phylogenetic analysis
Functional annotation clustering
Cluster | Strain | Term | Count | Enrichment score | P value | Benjamini |
---|---|---|---|---|---|---|
1 | NCCP15738 | Conjugation | 6 | 4.03 | 0.000 | 0.000 |
NCCP15739 | Virulence plasmid of Escherichia coli O157:H7 | 40 | 50.4 | 0.000 | 0.000 | |
2 | NCCP15738 | Flagellum | 5 | 2.76 | 0.000 | 0.005 |
NCCP15739 | Hemolysis | 4 | 5.9 | 0.000 | 0.000 | |
3 | NCCP15738 | Viral capsid assembly | 3 | 1.941 | 0.004 | 0.180 |
NCCP15739 | Bacterial secretion system | 6 | 4.36 | 0.000 | 0.000 | |
4 | NCCP15738 | Ribonucleotide binding | 9 | 1.043 | 0.033 | 0.674 |
NCCP15739 | Methylation | 4 | 2.77 | 0.003 | 0.021 | |
5 | NCCP15738 | Copper ion binding | 3 | 0.521 | 0.010 | 0.505 |
NCCP15739 | Transfer region of pO113 from enterohemorrhagic Escherichia coli
| 5 | 1.76 | 0.000 | 0.004 | |
6 | NCCP15738 | DNA recombination | 3 | 0.496 | 0.029 | 0.336 |
NCCP15739 | Metal ion binding | 4 | 0.314 | 0.471 | 1.000 | |
7 | NCCP15738 | Two-component signal transduction system (phosphorelay) | 4 | 0.423 | 0.070 | 0.687 |
NCCP15739 | Transmembrane protein | 4 | 0.198 | 0.280 | 0.927 |