Introduction: Canine periodontitis results among other factors from a disturbed balance of dental plaque microflora and an inadequate host inflammatory response to a stimulus. This investigation sought to identify microorganisms associated with canine periodontitis. Material and Methods: Microbiological analysis was undertaken of gingival pockets in an experimental group of 36 dogs with periodontal diseases. Swabs were collected with the use of Pet Test (MIP Pharma, Berlin, Germany) from patients with gingival pockets deeper than 5 mm. Samples were aggregated and placed in separate shipping containers with the Pet Test kit. Results: Identification was made of the most common microorganisms, e.g. Porphyromonas gingivalis, Treponema denticola and Prevotella intermedia. The red complex constituted the largest proportion of all analysed organisms (84.26%). Capnocytophaga gingivalis was isolated from 33 dogs, Peptostreptococcus micros from 32 dogs, Fusobacterium nucleatum from 29 animals and P. intermedia from 20. Conclusion: The highest percentage of pathogens was supplied by P. gingivalis (61%). It is thought that dogs acquire them by means of cross-species transmission. The inter-study variability of results may depend not only on the method of periopathogen detection, but also on environmental factors, host immune status or genetic background. Depending on the state of periodontal disease, patients show varied microbiological profiles of the gingival pockets.