AUTHOR CORRECTION
Volume 52, no. 1, p. 139–146, 2014. Page 141, Table 1: A row for sample number 16 was erroneously included, and thus the agreement between the results for single isolates and direct sequencing is not correct for any of the subsequently listed samples. The body of the table should read as follows:
| Sample no. | Culture result (CFU) | Conventional identification | WGS-based identification, strain | Direct sequencing identification |
Chainmapper identification (%)a |
||
|---|---|---|---|---|---|---|---|
| k-mer | MG-RAST (%) | Species | Genus | ||||
| 1 | Clostridium sp. | Lactobacillus (42) | L. iners (3.5) | Lactobacillus (4.8) | |||
| 3 | ≥105 | Enterococcus spp. | E. faecalis, ST40 | E. faecalis | Enterococcus (50) | E. faecalis (28) | Enterococcus (28) |
| 4 | 104 | Gram-positive rods | Clostridium | Clostridium sp. | Lactobacillus (78) | L. iners (33), Lactobacillus sp. (11.6) | Lactobacillus (45.8) |
| 6 | ≥105 | E. coli | E. coli, ST14 | E. coli | E. coli (52) | E. coli (60), Escherichia sp. (10.8), Bifidobacterium breve (1.5) | Escherichia (71.3), Bifidobacterium (1.7), Shigella (1.2) |
| 7 | Clostridium sp. | G. vaginalis (15), Bifidobacterium (15) | G. vaginalis (3.78) | Gardnerella (3.78) | |||
| 8 | Clostridium sp. | Lactobacillus (53) | L. iners (6), Lactobacillus sp. (2.4) | Lactobacillus (8.7) | |||
| 10 | ≥105 | E. coli | E. coli, ST409 | E. coli | E. coli (50) | E. coli (44), Escherichia sp. (15), Citrobacter freundii (5.5), Citrobacter sp. (5.2), Shigella sp. (3.3) | Escherichia (60), Citrobacter (12.2), Shigella (5.2) |
| 12 | ≥105 | E. coli | E. coli, ST95 | E. coli | E. coli (38) | E. coli (23), Escherichia sp. (7), Bifidobacterium bifidum (1.6) | Escherichia (30), Bifidobacterium (1.6) |
| 13 | Clostridium sp. | Prevotella (22) | Prevotella timonensis (2) | Prevotella (4) | |||
| 19 | NCb | Proteus sp. | Proteus mirabilis | Proteus mirabilis | Proteus (13) | Proteus mirabilis (2.9) | Proteus mirabilis (3) |
| 20 | ≥105 | E. coli | E. coli, ST127 | E. coli | E. coli (63) | E. coli (78), Escherichia sp. (13) | Escherichia (91) |
| 21 | ≥105 | E. coli | E. coli, ST1193 | E. coli | E. coli (54) | E. coli (43), Escherichia sp. (10) | Escherichia (54) |
| 24 | NC | Proteus sp. | Proteus mirabilis | Proteus mirabilis | Proteus (18), E. coli (11) | Proteus mirabilis (26), Aerococcus urinae (19.45), E. coli (7.5) | Proteus (26), Aerococcus (19.47), Escherichia (8.8) |
| 104 | E. coli | E. coli, ST998 | E. coli | ||||
| 25 | ≥105 | E. coli | E. coli, ST227 | E. coli | E. coli (57) | E. coli (51), Escherichia sp. (20), Shigella sp. (3) | Escherichia (73), Shigella (4.5) |
| E. coli | E. coli, ST227 | ||||||
| 26 | 103 | Enterococcus sp. | E. faecalis, ST16 | E. faecalis | Enterococcus (48) | E. faecalis (25) | Enterococcus (26) |
| 27 | 103 | E. coli | E. coli, ST597 | E. coli | E. coli (19) | E. coli (4) | Escherichia (5) |
| 28 | ≥105 | Staphylococcus sp. | S. lugdunensis | S. lugdunensis | Staphylococcus (83) | S. lugdunensis (59) | Staphylococcus (60) |
| 29 | 104 | Mixed culture | NDc | E. coli | E. coli (26) | E. coli (23) | Escherichia (27.6) |
| 31 | ≥105 | Enterococcus sp. | E. faecalis, ST19 | E. faecalis | Enterococcus (48) | E. faecalis (17.4) | Enterococcus (17.5) |
| 32 | ≥105 | Enterococcus sp. | Clostridium | Clostridium sp. | Enterococcus (29) | E. faecium (5.9) | Enterococcus (6.2) |
| 33 | ≥105 | Enterococcus sp. | E. faecalis, ST41 | E. faecalis | Enterococcus (65) | E. faecalis (44) | Enterococcus (44) |
| 34 | ≥105 | Enterococcus sp. | E. faecalis, ST40 | E. faecalis | Enterococcus (40) | E. faecalis (13), E. coli (1.2) | Enterococcus (13), Escherichia (1.7) |
| 35d | ≥105 | Mixed culture | ND | E. coli, E. faecalis | Enterococcus (12), E. coli (9) | E. faecalis (3), E. coli (2) | Enterococcus (3), Escherichia (2.6) |