The culture on basic and selective-diagnostic culture media in aerobic, microaerophilic and anaerobic conditions is used for detection of pathogenic, opportunistic and usual microflora in laboratory rodents and rabbits. After the isolation of microorganisms in a pure culture, microscopic examination of the colonies is carried out, followed by their identification using MALDI-TOF or sequencing.
Molecular biology methods (PCR, real-time PCR), serological methods (ELISA, IFA, RPR, MAT) and histology are used for detection of some non-culturable bacteria. The result of the identification of all pathogenic and opportunistic species of bacteria is accompanied by a professional commentary.
Bacteria
| Agents | Method | Host |
| Bordetella bronchiseptica | culture, MALDI-TOF, PCR | R, Gp, Rb |
| Campylobacter jejuni | culture, MALDI-TOF, PCR | H |
| Filobacterium rodentium/Cilia-associated respiratory bacillus | ELISA, IFA, PCR | M, R, Rb |
| Chlamydophila psittaci | IFA | Gp |
| Citrobacter rodentium | culture, MALDI-TOF, PCR | M |
| Clostridium piliforme | ELISA, IFA, PCR, histology | M, R, H, Gp, Rb |
| Clostridium spp. | culture, MALDI-TOF | M, R, H, Gp, Rb |
| Corynebacterium bovis | culture, MALDI-TOF, PCR | M |
| Corynebacterium kutscheri | culture, MALDI-TOF, PCR | M, R, H, Gp |
| Haemophilus spp. | culture, MALDI-TOF | M, R, H, Gp, Rb |
| Escherichia coli | culture, MALDI-TOF | M, R, H, Gp, Rb |
| Helicobacter spp. | PCR | M, R, H |
| Helicobacter hepaticus | PCR | M, R |
| Helicobacter bilis | PCR | M, R |
| Helicobacter typhlonius | PCR | M, R |
| Helicobacter rodentium | PCR | M, R |
| Helicobacter muridarum | PCR | M, R |
| Klebsiella oxytoca | culture, MALDI-TOF, PCR | M, R, H, Gp, Rb |
| Klebsiella pneumoniae | culture, MALDI-TOF, PCR | M, R, H, Gp, Rb |
| Leptospira spp. | MAT | M, R, H, Gp, Rb |
| Mycoplasma pulmonis | ELISA, IFA, culture, MALDI-TOF, PCR | M, R |
| Mycoplasma arthitidis | IFA | R |
| Pasteurella multocida | culture, MALDI-TOF, PCR | Gp, Rb |
| Pasteurella spp. | culture, MALDI-TOF | M, R, H, Gp, Rb |
| Rodentibacter spp. (previously Pasteurella pneumotropica) | culture, MALDI-TOF, PCR | M, R, H, Gp |
| Proteus mirabilis | culture, MALDI-TOF, PCR | M, R, Gp, H, Rb |
| Proteus spp. | culture, MALDI-TOF, PCR | M, R, Gp, H, Rb |
| Pseudomonas aeruginosa | culture, MALDI-TOF, PCR | M, R, Gp, H, Rb |
| Pseudomonas spp. | culture, MALDI-TOF | M, R, Gp, H, Rb |
| Salmonella spp. | culture, MALDI-TOF, PCR | M, R, Gp, H, Rb |
| Staphylococcus aureus | culture, MALDI-TOF, PCR | M, R, Gp, H, Rb |
| Staphylococcus spp. | culture, MALDI-TOF, PCR | M, R, Gp, H, Rb |
| Streptobacillus moniliformis | culture, MALDI-TOF, PCR | M, R, Gp |
| Streptococcus pneumoniae | culture, MALDI-TOF, PCR | M, R, Gp, H, Rb |
| Beta-hemolytic streptococci group A, B, C, G | culture, MALDI-TOF, PCR | M, R, Gp, H, Rb |
| Treponema paraluiscuniculi | RPR | Rb |
| Yersinia pseudotuberculosis | culture, MALDI-TOF | M, R, H, Gp, Rb |
Dermatophytes, microsporidia and pneumocystis
| Agents | Method | Host |
| Trichophyton mentagrophytes | culture, MALDI-TOF | H, Gp, Rb |
| Microsporum spp. | culture, MALDI-TOF | Gp, Rb |
| Encephalitozoon cuniculi | ELISA, IFA, histology | Gp, Rb |
| Pneumocystis spp. | IFA, PCR, histology | M, R, Rb |
Abbreviations: M - Mouse, R - Rat, Gp - Guinea pig, H - Hamster, Rb - Rabbit
