Podbel’skogo, St. Petersburg, 196608 Russia, e-mail v.safronova@rambler.ru Acknowledgements: Supported by the Ministry of Education and Sciences of the Russian Federation (Agreement ¹ 14.604.21.0024, RFMEFI60414X0024) A b s t r a c t Russian collection of agricultural microorganisms (RCAM) supports 37 strains of with pronounced insecticidal activities, which are used for the production of phytoprotective biopreparations. <...> The effectiveness of biopreparations depends on the quality of the microbial material. <...> Currently, the most effective technology for detailed genetic characterization of strains is a whole genome sequencing. <...> However, despite the obvious demand for whole genome sequencing for the certification of commercial strains, its widespread use is limited because of considerable labour-intensive and cost. <...> One possible solution might be to analyze the part of genome, which includes the most taxonomically and functionally important genetic loci (referent-complexes). <...> The goal of this work was to detect the referent-complexes of 10 strains having different serotypes. <...> After receiving whole genome sequences the comparative analysis was carried out to search for the most divergent genetic loci that determine the uniqueness of strains. <...> For each strain two referent complexes were constructed, representing the concatenated sequences of selected housekeeping and virulence loci taken separately. <...> Total length of the referentcomplexes was 11809 and 10094 bp respectively. <...> In the future the sets of primers will be created for multiplex analysis of referent complexes in the high-throughput DNA sequencing and the rapid method for genetic certification of the commercial strains will be developed. <...> Keywords: , whole genome DNA sequencing, housekeeping and virulence genes, genetic certification. <...> Microorganism strains with a pronounced (target) practical value are the basis for any microbial technology. <...> As a result, microbial material of poor quality can be used which causes the reduction of production efficiency and the risk of the use of pathogenic microorganisms. <...> These techniques make it possible to identify the unique characteristics of microorganism cultures that can be used to create strain specific passports. <...> Currently, the whole genome sequencing is considered the most effective technology for detailed genetic characterization of microorganism strains. <...> However, despite the obvious demand for whole genome sequencing for the certification of commercial strains, its widespread use is limited because of considerable labor <...>