Table 2 The specifics of all large putative horizontally acquired gene clusters from chromosome II of V. vulnificus CMCP6, including their δ* (against V. vulnificus chromosome I) and GC composition values compared with chromosome II of V. vulnificus CMCP6. Vv5%, Vv10% and Vv10% are non-anomalous genomic fragments used as a reference clade. Ct1 and Ct2 represent Chlamydia trachomatis genomic fragments and are used as outgroups. Zhang and Zhang [22] did not test V. vulnificus CMCP6 chromosome II.
From: An acquisition account of genomic islands based on genome signature comparisons
Locus | Coordinates | Size (bp) | Present in V. vulnificus YJ016 chromosome II (fraction bp similar) | GI characteristics | δ* (× 1000) | Genomic fragments with a lower δ* % | GC% | Genomic fragments with a lower GC% |
|---|---|---|---|---|---|---|---|---|
VvII-a | 89575–104013 | 14438 | Entirely present | tRNA synthetase | 35.5 | 74.8% | 41.8% | 1.6% |
VvII-b | 302441–313330 | 10889 | Entirely present | - | 40.8 | 75.1% | 42.5% | 4.1% |
VvII-c | 452124–462927 | 10803 | Largely present (7512/10803) | Transposase (VV20421) | 56.9 | 94.1% | 44.5% | 11.8% |
VvII-d | 541308–554178 | 12870 | Entirely present | - | 61.7 | 96.5% | 52.6% | 100% |
VvII-e | 715669–749860 | 34191 | Entirely absent | Transposases (VV20693 and VV20695) | 71.6 | 100% | 42.9% | 1.9% |
VvII-f | 1064764–1077776 | 13012 | Entirely present | - | 54.6 | 93.6% | 51.9% | 100% |
VvII-g | 1083544–1106468 | 22924 | Entirely present | - | 38.1 | 87.5% | 51.7% | 100% |
VvII-h | 1227530–1239793 | 12263 | Entirely present | - | 44.8 | 82.7% | 50.6% | 96.0% |
VvII-i | 1420351–1433728 | 13377 | Entirely present | - | 47.6 | 90.5% | 50.8% | 96.4% |
VvII-j | 1446375–1462593 | 16218 | Entirely present | - | 60.2 | 95.6% | 51.8% | 100% |
VvII-k | 1724928–1739885 | 14957 | Entirely present | - | 62.0 | 95.1% | 42.7% | 4.9% |
VvII-5% | 105000–120000 | 15001 | Entirely present | - | 11.9 | 4.9% | 46.1% | 27.9% |
VvII-10% | 495000–510000 | 15001 | Entirely present | - | 15.1 | 10.7% | 47.2% | 52.5% |
VvII-25% | 960000–975000 | 15001 | Entirely present | - | 18.8 | 19.7% | 48.1% | 66.4% |