ST sequenced | BAPS cluster | Represen-tative ST | Strain | Reason for selection | Strain significance | Sequence source/technology | Mean Illumina read coverage | ENA accession number or reference |
---|---|---|---|---|---|---|---|---|
46 | 1 | 45 | H093620212 | closest to centroid | fairly common clinical strain - assumed to be virulent | NGS mate paired Illumina | 169 | ERR315646 |
74* | 1 | 45 | H053260229 | second of cluster | fairly common clinical strain - assumed to be virulent | NGS 454 | Â | ERR315647 |
15* | 2 | 15 | Lens | already published | caused a big outbreak in France | GenBank (NC_006369.1) | Â | [31] |
84 | 2 | 15 | H043940028 | closest available to centroid | only one available from this cluster | NGS paired end Illumina | 283 | ERR315648 |
47 | 3 | 16 | H063920004 | internationally significant | in top six strains that cause disease | NGS 454, paired end Illumina and mate paired Illumina | paired end 211 mate paired 227 | ERR315649 |
47 | 3 | 16 | Lorraine | already published | in top six strains that cause disease | GenBank(NC_018139.1) | Â | [23] |
47 | 3 | 16 | LP_617 | already published | in top six strains that cause disease | EMBLBank(ERS166047) | Â | [32] |
54* | 3 | 16 | H065000139 | closest to centroid | uncommon strain nothing known | NGS paired end Illumina | 161 | ERR315650 |
62 | 3 | 16 | H064180002 | internationally significant | in top six strains that cause disease | NGS 454 | Â | ERR315651 |
611 | 4 | 124 | H090500162 | only one in cluster | unique environmental isolate | NGS mate paired Illumina | 276 | ERR315652 |
87 | 5 | 17 | LC6677 | second of cluster | common serogroup 3 strain - does cause disease | NGS paired end Illumina | 490 | ERR315653 |
376 | 5 | 17 | RR08000760 | closest to centroid | unique environmental isolate | NGS mate paired Illumina | 235 | ERR315654 |
1* | 6 | 1 | Paris | already published | Â | GenBank (NC_006368.1) | Â | [31] |
1 | 6 | 1 | LP_423 | already published | Â | EMBLBank(ERS166048) | Â | [32] |
5 | 6 | 1 | EUL00013 (83/41091) | on an interesting branch of ST001 | only three in database - all from small outbreak in Glasgow | NGS mate paired Illumina | 304 | ERR315655 |
152 | 6 | 1 | H074360702 | closest to centroid | uncommon - mainly environmental | NGS mate paired Illumina | 180 | ERR315656 |
179 | 7 | 130 | H093380153 | closest to centroid | uncommon but causes disease | NGS paired end Illumina | 32 | ERR315657 |
337 | 7 | 130 | RR08000517 | second of cluster | uncommon strain appears to be phenotypically variable | NGS mate paired Illumina | 161 | ERR315658 |
42 | 8 | 14 | 130b (Wadsworth) | already published | in top six strains that cause disease - globally distributed. Isolated in USA in ~1980 | GenBank (FR687201.1) | Â | [33] |
42 | 8 | 14 | H044540088 | internationally significant | as above but isolated in UK in 2004 - assumed to be virulent | NGS 454 | Â | ERR315659 |
44 | 8 | 14 | H100260089 | closest to centroid | similar to ST42 but not so common | NGS paired end Illumina | 346 | ERR315660 |
154* | 9 | 12 | LC677 4 | closest to centroid | seen in Canada and UK as a cause of nosocomial LD | NGS mate paired Illumina | 84 | ERR315661 |
336* | 9 | 12 | Lansing-3 (sgp15TS) | second of cluster | Representative of L. pneumophila subsp fraseri | NGS paired end Illumina | 150 | ERR315662 |
23 | 10 | 19 | H063280001 | closest to centroid | in top six strains that cause disease | NGS paired end Illumina | 265 | ERR315663 |
78* | 10 | 19 | LC6451 | second of cluster | unique strain - caused a major outbreak in Barrow in 2002. | NGS 454 | Â | ERR315664 |
51 | 11 | 2 | Corby | already published/closest to centroid | uncommon but well characterised - virulent in animal model and protozoa | GenBank (NC_009494.2) | Â | [34] |
454 | 11 | 2 | H091960011 | second of cluster | unique environmental strain (from Roman baths in Bath) | NGS mate paired Illumina | 268 | ERR315665 |
578 | 11 | 2 | Alcoy | already published | responsible for a very big outbreak in Spain | GenBank (NC_014125.1) | Â | [35] |
59 | 12 | 25 | H070840415 | closest to centroid | quite common environmental strain - a few cases of LD. | NGS mate paired Illumina | 246 | ERR315666 |
188 | 12 | 25 | H075160080 | second of cluster | no particular data | NGS paired end Illumina | 298 | ERR315667 |
36 | 13 | 9 | Philadelphia | already published/closest to centroid | the type strain - well characterised caused the Philadelphia outbreak. | GenBank (NC_002942.5) | Â | [36] |
37 | 13 | 9 | H034680035 | internationally significant | in top six strains that cause disease | NGS 454 | Â | ERR315668 |
186 | 13 | 9 | H044500045 | second of cluster | unique clinical isolate | NGS paired end Illumina | 375 | ERR315669 |
34 | 14 | 34 | RR08000134 | closest available to centroid | no particular significance | NGS paired end Illumina | 301 | ERR315670 |
68 | 14 | 34 | H074360710 | second of cluster | no particular significance | NGS mate paired Illumina | 179 | ERR315671 |
707* | 15 | 71 | H091960009 | only one in cluster | unique environmental strain (from Roman baths in Bath) | NGS paired end Illumina and mate paired Illumina | Paired end 136 Mate paired 50 | ERR315672 |