Comparison of automatic methods MALDI-TOF, VITEK2 and manual methods for the identification of intestinal microbial communities on the example of samples from alpacas (<i>Vicugna pacos</i>)

Abstract Introduction Universally, in microbiological diagnostics the detection of live bacteria is essential. Rapid identification pathogens enables appropriate remedial measures to be taken. The many simultaneously facilitates determination characteristics accompanying microbiota and/or complexity a given environment. Material and Methods effectiveness VITEK2 Compact automated microbial system matrix-assisted laser desorption/ionization–time-of-flight mass spectrometry (MALDI-TOF MS), analytical profile index (API) Remel RapID tests were compared isolated from alpaca gastrointestinal tract. Results Most isolates Gram-positive, such as Bacillus cereus, flexus, licheniformis, pumilus subtilis; Enterococcus faecium, gallinarum, hirae casseliflavus; Staphylococcus aureus, equorum , lentus pseudintermedius sciuri ; Paenibacillus amylolyticus Cellulosimicrobium cellulans Leuconostoc mesenteroides Clostridium perfringens Corynebacterium stationis xerosis diphtheriae (the last only manually by API Coryne Corynebacteria (CBC) card). was misidentified MALDI-TOF MS Candida lipolytica (currently Yarrowia ). Gram-positive Gram-variable Micrococcus luteus also isolated. Gram-negative Enterobacter cloacae gergoviae hormaechei ludwigii E. coli Klebsiella pneumoniae subsp. Citrobacter braakii freundii Serratia liquefaciens odorifera marcescens Morganella morganii Providencia alcalifaciens Pseudomonas aeruginosa Stenotrophomonas maltophilia Moraxella osloensis Ochrobactrum intermedium found. yeasts albicans, haemulonii ciferrii present. Conclusion enabled opportunistic gut which may represent high risk human animal health.