Bacterial cold water disease (BCWD) and rainbow trout fry syndrome (RTFS) caused by Flavobacterium psychrophilum are 2 of the major diseases causing high fish mortality in salmonid fish farms. The molecular epidemiology of F. psychrophilum is still largely unknown. Multilocus sequence typing (MLST) has been previously used for this pathogen and underscored a correlation between clonal complexes and host fish species. Here we used MLST to study the relationships among 112 F. psychrophilum isolates from rainbow trout Oncorhynchus mykiss and brown trout Salmo trutta fario and S. t. lacustris in Swiss fish farms between 1993 and 2012. The isolates belonged to 27 different sequence types (STs). Most of the Swiss outbreaks were associated with strains belonging to clonal complexes CC-ST2 and CC-ST90, found in both rainbow trout and brown trout and represented by several STs. Eight ST singletons could not be connected to any known clonal complex. Already reported from other parts of Europe and North America, CC-ST2 was the most frequent clonal complex observed, and it caused the majority of outbreaks in Switzerland, with CC-ST90 being the second most important type. In the tightly interconnected Swiss fish farms, no association between clonal complex and host fish was detected, but a temporal evolution of the frequency of some STs was observed. The occurrence of sporadic STs suggests high F. psychrophilum diversity and may reflect the presence of different sequence types in the environment.
KEY WORDS: F. psychrophilum · BCWD · RTFS · Myxobacteria · Pathology · Clonal complex · Sequence complex · Allele type · MLST · FlavobacteriosisResale or republication not permitted without written consent of the publisher Dis Aquat Org 105: 203-210, 2013 ent methods such as serotyping, ribotyping, and plasmid profiling (Madetoja et al. 2002, Hesami et al. 2008, Kim et al. 2010. Multilocus sequence typing (MLST) allows the characterization of bacteria based on the nucleotide sequences of several housekeeping genes. Each fragment represents an allele type (AT), and each combination of alleles allows assigning each isolate to a sequence type (ST). This approach is highly reproducible and standardized, as it depends directly on DNA sequences (Maiden et al. 1998). While MLST has also been used to identify species, for instance in the genera Aeromonas (Martino et al. 2011) and Wolbachia (Baldo et al. 2006), its main use is linked to epidemiological investigations. It has been used to study the epidemiology of selected pathogenic bacterial species such as community and healthcare-associated strains of multidrug resistant Staphylococcus aureus (MRSA;Peterson et al. 2012) and animal pathogenic strains of Brachyspira hydysenteriae among farmed and wild pigs in Spain and other countries (Osorio et al. 2012). In aquaculture, this technique has been used to type isolates of the fish pathogen Yersinia ruckeri from different geographical areas, different hosts, and different environments (Bastardo et al. 2012). Nicolas et al. (2008) ...