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Borrelia persicaand B. microti/microti-like borreliae have been established as causative agents of relapsing fever in Iran. However, the epidemiology of previously described tickborne relapsing fever (TBRF) species Borrelia balthazardiand Borrelia latyschewii(latychevi) has remained elusive for many years. We investigated Borreliainfection in various rodents and small mammals in the TBRF endemic East Azerbaijan Province, northwestern Iran, where B. periscaand B. balthazardimight coexist. Among trapped rodents (n=210), a 16S real-time PCR detected BorreliaDNA in 11 Meriones persicus. Multilocus sequence analysis (MLSA) using six different loci, including four coding regions (flaB, glpQ, groEL, p66) and two non-coding (rrs, IGS) followed by phylogeny revealed considerable sequence identity between the borreliae detected, B. microti,and East African Borrelia duttonii, and Borrelia recurrentis. Our results indicate that B. microtiand microti-like borreliae, including the specimens characterized previously in the south of Iran and the present study, are different ecotypes of B. duttonii, i.e., a single species/entity or descendants of a recent common ancestor. Our findings also suggest that the species we had long coined as B. balthazardiand the microti-like spirochetes detected herein might be the same.