TABLE 2.
Putative sequence identification for bimodally distributed microarray probes
| Probea | BLASTxb | Putative identity | Cluster and serotype profilec
|
||||||
|---|---|---|---|---|---|---|---|---|---|
| IIa, 1/2a | IIb, 1/2a | IIc, 1/2a,c | Ia, 1/2b | Ib, mixed | Ic, 4b | Id, 4b | |||
| 362 | 8e-53 (92%) | Hypothetical protein Imo0068-L. monocytogenes | − | − | +/− | +/− | +/− | +/− | +/− |
| 1137 | 4e-10 (31%) | Bacteriophage capsid protein-Listeria innocua | − | − | +/− | +/− | − | − | − |
| 136 | 2e-89 (81%) | ATP-dependent Clp proteinase-Lactococcus lactis | − | − | +/− | + | − | − | − |
| 961 | 6e-89 (97%) | UV-damage repair protein-Listeria innocua | +/− | − | +/− | + | − | − | − |
| 1015 | 1e-76 (71%) | Tape measure protein-bacteriophage A118 | + | − | − | + | − | − | + |
| 1063 | e-105 (95%) | Portal protein (bacteriophage A118) | + | − | − | + | − | − | + |
| 118 | 3e-48 (78%) | Lmo2305-L. monocytogenes | + | − | − | +/− | − | − | + |
| 897 | 2e-78 (96%) | Coat protein-bacteriophage SPP1-L. monocytogenes | + | − | − | − | − | − | + |
| 297d | 9e-57 (89%) | Penicillin acylase and conjugated bile hydrolase-L. monocytogenes | + | +/− | + | +/− | + | − | − |
| 297d | 5e-25 (100%) | Glutamate decarboxylase-L. monocytogenes | + | +/− | + | +/− | + | − | − |
| 927 | 2e-64 (100%) | Conserved hypothetical protein-L. monocytogenes | + | +/− | + | +/− | + | − | − |
| 774 | 4e-50 (100%) | Gamma-glutamyl phosphate reductase-L. monocytogenes | + | + | +/− | − | − | − | − |
| 955f | 1e-66 (87%) | Phosphotransferase system, beta-glucoside-specific enzyme II L. monocytogenes | + | + | + | − | − | − | − |
| 369e | e-101 (97%) | 3-Isopropylmalate dehydrogenase-L. monocytogenes | + | + | + | − | − | − | − |
| 791e | e-115 (100%) | Hypothetical protein Imo0940-L. monocytogenes | + | + | + | − | − | − | − |
| 1069e | 2e-82 (92%) | Internalin proteins (LPXTG motif)-L. monocytogenes | + | + | + | − | − | − | − |
| 317e | 2e-49 (99%) | ABC transporter-L. monocytogenes | + | + | + | − | − | − | − |
| 380 | 2e-54 (100%) | Lmo0750-L. monocytogenes | + | + | + | +/− | +/− | − | +/− |
| 1094 | e-117 (93%) | Glycosyltransferase-L. monocytogenes | + | + | + | + | +/− | − | − |
| 312 | 2e-70 (100%) | Glycerol-3-phosphatecytidylyltransferase (gct), CDP-glycerol L. monocytogenes | + | + | + | + | +/− | − | − |
| 289 | e-114 (90%) | Heavy metal-transporting ATPase-L. monocytogenes | − | + | + | + | + | + | + |
| 134e,f | e-108 (99%) | Membrane-associated lipoprotein-L. monocytogenes | − | − | + | + | + | + | + |
| 1072e,f | e-108 (100%) | Membrane-associated lipoprotein-L. monocytogenes | − | − | + | + | + | + | + |
| 150e | 3e-86 (96%) | Transcription regulator (VirR from Streptococcus pyogenes) L. monocytogenes | − | − | + | + | + | + | + |
| 103e | 3e-94 (86%) | Membrane-associated lipoprotein-L. monocytogenes | − | − | + | + | + | + | + |
| 367e | 2e-91 (83%) | Membrane-associated lipoprotein-L. monocytogenes | − | − | + | + | + | + | + |
| 1092e | 5e-70 (85%) | Hypothetical protein Imo0461-L. monocytogenes | − | − | + | + | + | + | + |
| 302e | 1e-96 (91%) | Ferrous iron transport protein B-L. monocytogenes | − | − | − | + | + | + | + |
| 1085e | 2e-27 (96%) | Gamma-glutamyl kinase-L. monocytogenes | − | − | +/− | + | + | + | + |
| 343 | e-126 (100%) | 4b-4d-4e-serotype-specific gene cassette (gltA-gltB) L. monocytogenes | − | − | − | − | +/− | +/− | + |
a
Unique identifier for probes.
b
e-score from BLASTx search (% amino acid similarity).
c
Cluster designations are from Fig. 1. Symbols used in serotype profiles for each cluster indicate the following: −, all members of the cluster (column) have a low hybridization signal for that gene (row); +, all members of the cluster produced a strong hybridization signal; +/−, hybridization signal was mixed (high and low) for members of that cluster.
d
Probe 297 spanned two open reading frames.
e
Denotes probes originally sequenced by Borucki et al. (3).
f
Probes 134 and 1072 shared 99% sequence identity.