Table 1. Evaluation of the different reference databases.
| Syndromes | Genus | Strains number (genus) | Species | PMRS number constructed | PMRS number in ORD | Identification searching ORD (genus/Species) | Misidentification by searching ORD (genus/species) | Identification searching NRD (genus/species) | Misidentification by searching NRD (genus/species) |
| Enteric pathogens | Bacillus | 6 | cereus | 6 | 3 | 6/6 | 0/0 | 6/6 | 0/0 |
| Proteus | 16 | mirabilis | 16 | 9 | 16/16 | 0/0 | 16/16 | 0/0 | |
| Serratia | 10 | marcescens | 10 | 8 | 10/10 | 0/0 | 10/10 | 0/0 | |
| Campylobacter | 24 | jejuni | 24 | 11 | 23/22 | 0/0 | 24/24 | 0/0 | |
| Citrobacter | 10 | freundii | 10 | 4 | 10/10 | 0/0 | 10/10 | 0/0 | |
| Helicobacter | 56 | pylori | 56 | 7 | 9/3 | 0/0 | 55/52 | 0/0 | |
| Cronobacter | 19 | dublinensis | 5 | 0 | 4/0 | 1/1 | 5/5 | 0/0 | |
| malonaticus | 6 | 0 | 6/0 | 0/4 | 6/5 | 0/1 | |||
| muytiensii | 1 | 0 | 1/0 | 0/1 | |||||
| sakazakii | 6 | 5 | 6/4 | 0/0 | 6/6 | 0/0 | |||
| turicensis | 1 | 0 | 1/0 | 0/0 | |||||
| Enterobacter | 20 | aerogenes | 9 | 3 | 9/9 | 0/0 | 9/9 | 0/0 | |
| cloacae | 11 | 16 | 11/7 | 0/2 | 11/10 | 0/1 | |||
| Escherichia | 82 | Ecoli | 82 | 11 | 82/69 | 0/0 | 82/82 | 0/0 | |
| Enterococcus | 20 | faecium | 10 | 9 | 10/10 | 0/0 | 10/10 | 0/0 | |
| faecalis | 10 | 8 | 10/10 | 0/0 | 10/10 | 0/0 | |||
| Salmonella | 102 | wandsworth | 2 | 0 | 2/0 | 0/2 | 2/1 | 0/1 | |
| typhi | 17 | 0 | 15/0 | 0/10 | 17/17 | 0/0 | |||
| weltevreden | 2 | 0 | 2/0 | 0/2 | 2/2 | 0/0 | |||
| Virchow | 2 | 0 | 2/0 | 0/2 | 2/0 | 0/2 | |||
| Uganda | 2 | 0 | 2/0 | 0/2 | 2/1 | 0/1 | |||
| Thompson | 18 | 0 | 18/0 | 0/18 | 18/12 | 0/6 | |||
| Stanley | 2 | 1 | 2/1 | 0/1 | 2/2 | 0/0 | |||
| Singapore | 2 | 0 | 2/0 | 0/2 | 2/0 | 0/2 | |||
| senftenberg | 12 | 0 | 12/0 | 0/12 | 12/10 | 0/2 | |||
| Newport | 2 | 0 | 2/0 | 0/2 | 2/0 | 0/2 | |||
| meleagridis | 2 | 0 | 2/0 | 0/2 | 2/0 | 0/2 | |||
| livingstone | 2 | 0 | 2/0 | 0/2 | 2/1 | 0/1 | |||
| Kentucky | 2 | 0 | 2/0 | 0/2 | 2/1 | 0/1 | |||
| Istanbul | 2 | 0 | 2/0 | 0/2 | 2/2 | 0/0 | |||
| derby | 8 | 0 | 8/0 | 0/8 | 8/4 | 0/4 | |||
| agona | 5 | 0 | 5/0 | 0/5 | 5/1 | 0/4 | |||
| Aberdeen | 2 | 0 | 2/0 | 0/2 | 2/1 | 0/1 | |||
| paratyphi A | 18 | 0 | 18/0 | 0/14 | 18/18 | 0/0 | |||
| Vibrio | 57 | cholerae | 20 | 0 | 6/0 | 0/1 | 20/19 | 0/0 | |
| fluvialis | 19 | 3 | 18/11 | 0/0 | 19/19 | 0/0 | |||
| mimicus | 5 | 1 | 3/0 | 0/1 | 5/5 | 0/0 | |||
| parahaemolyticus | 13 | 7 | 12/10 | 0/0 | 13/13 | 0/0 | |||
| Listeria | 20 | monocytogenes | 20 | 5 | 20/20 | 0/0 | 20/20 | 0/0 | |
| Plesiomonas | 11 | shigelloides | 11 | 5 | 11/11 | 0/0 | 11/11 | 0/0 | |
| Aeromonas | 15 | caviae | 5 | 4 | 5/3 | 0/2 | 5/5 | 0/0 | |
| hydrophilia | 10 | 4 | 10/4 | 0/6 | 10/9 | 0/1 | |||
| Shigella | 11 | boydii | 2 | 0 | 0/0 | 2/2 | 2/2 | 0/0 | |
| dysenteriae | 2 | 0 | 0/0 | 2/2 | 2/0 | 0/2 | |||
| flexneri | 3 | 0 | 0/0 | 3/3 | 3/3 | 0/0 | |||
| sonnei | 4 | 0 | 0/0 | 4/4 | 3/2 | 1/1 | |||
| Respiratory pathogens | Bordetella | 4 | bronchiseptica | 1 | 8 | 1/1 | 0/0 | ||
| parapertussis | 1 | 11 | 1/1 | 0/0 | |||||
| pertussis | 2 | 9 | 2/2 | 0/0 | 2/2 | 0/0 | |||
| Haemophilus | 25 | haemolytius | 15 | 0 | 10/0 | 0/0 | 15/15 | 0/0 | |
| influenzae | 10 | 10 | 10/10 | 0/0 | 10/10 | 0/0 | |||
| Klebsiella | 16 | pneumoniae | 16 | 122 | 16/16 | 0/0 | 16/16 | 0/0 | |
| Legionella | 20 | bozemanii | 1 | 4 | 0/0 | 0/0 | |||
| dumoffii | 1 | 6 | 1/1 | 0/0 | |||||
| fairfieldensis | 1 | 0 | 0/0 | 0/0 | |||||
| micdadei | 1 | 1 | 1/1 | 0/0 | |||||
| penumophila | 16 | 10 | 16/15 | 0/0 | 16/16 | 0/0 | |||
| Mycoplasma | 64 | fermentans | 1 | 0 | 0/0 | 0/0 | |||
| genitalium | 1 | 0 | 0/0 | 0/0 | |||||
| hominis | 1 | 0 | 0/0 | 0/0 | |||||
| penetrans | 1 | 0 | 0/0 | 0/0 | |||||
| pirum | 1 | 0 | 0/0 | 0/0 | |||||
| pneumoniae | 59 | 0 | 0/0 | 0/0 | 59/59 | 0/0 | |||
| Streptococcus | 64 | pneumoniae | 20 | 9 | 20/20 | 0/0 | 20/20 | 0/0 | |
| pyogenes | 24 | 8 | 24/24 | 0/0 | 24/24 | 0/0 | |||
| suis | 20 | 3 | 20/20 | 0/0 | 20/20 | 0/0 | |||
| Neisseia | 18 | meningitidis | 18 | 11 | 18/18 | 0/0 | 18/18 | 0/0 | |
| Zoonotic pathogens | Bartonella | 10 | bacilliformis | 1 | 0 | 0/0 | 0/0 | ||
| clarridgeiae | 1 | 0 | 0/0 | 0/0 | |||||
| elizabethae | 1 | 0 | 0/0 | 0/0 | |||||
| grahamii | 1 | 0 | 0/0 | 0/0 | |||||
| henselae | 1 | 0 | 0/0 | 0/0 | |||||
| quintana | 1 | 0 | 0/0 | 0/0 | |||||
| tribocorum | 1 | 0 | 0/0 | 0/0 | |||||
| vinsonii | 3 | 0 | 0/0 | 0/0 | 3/3 | 0/0 | |||
| Borrelia | 4 | burgdorferi | 4 | 1 | 1/0 | 0/0 | 4/3 | 0/0 | |
| Brucella | 61 | abortus | 15 | 0 | 0/0 | 0/0 | 15/10 | 0/5 | |
| canis | 3 | 0 | 0/0 | 0/0 | 3/2 | 0/1 | |||
| neotomae | 1 | 0 | 0/0 | 0/0 | |||||
| suis | 5 | 0 | 0/0 | 0/0 | 5/1 | 0/4 | |||
| melitensis | 37 | 0 | 0/0 | 0/0 | 37/33 | 0/4* | |||
| Burkholderia | 11 | pseudomallei | 11 | 0 | 10/0 | 0/4 | 11/10 | 0/1 | |
| Leptospira | 65 | biflexa | 22 | 0 | 0/0 | 0//0 | 22/22 | 0/0 | |
| interrogans | 43 | 0 | 0/0 | 0/0 | 43/43 | 0/0 | |||
| Nosocomial pathogens | Staphylococcus | 122 | aureus | 122 | 12 | 122/122 | 0/0 | 122/122 | 0/0 |
| Clostridium | 10 | difficile | 10 | 10 | 10/10 | 0/0 | 10/10 | 0/0 | |
| Acinetobacter | 45 | baumannii | 20 | 7 | 17/9 | 0/0 | 20/19 | 0/0 | |
| bereziniae | 3 | 0 | 3/0 | 0/3 | 3/3 | 0/0 | |||
| haemolyticus | 1 | 2 | 1/1 | 0/0 | |||||
| johnsonii | 1 | 5 | 1/1 | 0/0 | |||||
| junii | 6 | 2 | 6/6 | 0/0 | 6/6 | 0/0 | |||
| lwoffii | 1 | 7 | 1/1 | 0/0 | |||||
| Unosocomialis | 5 | 0 | 2/0 | 0/1 | 5/3 | 0/2 | |||
| pittii | 8 | 18 | 7/2 | 0/0 | 8/4 | 0/2 | |||
| Total | 31 | 1019 | 94 | 1019* | 720*/517* | 12*/126* | 1*/54* | ||
| 995# | 711#/510# | 12#/126# | 992#/931# | 1#/54# | |||||
| 631@ | 572@/510@ | 0@/12@ | 630@/620@ | 0@/4@ |
*indicates statistical analyses for all strains that were newly incorporated into the database; # indicates the strains excluding single-strain species; @ indicates the strains with reference spectra in the ORD. ORD: The original reference spectra of Biotyper 2.0 (3995). NRD: The original reference spectra of Biotyper 2.0 with the 1019 reference spectra constructed herein (5014).