Objective. This study describes the clinical and molecular characteristics of methicillin-resistant Staphylococcus aureus (MRSA) strains that were collected in the Hospital Regional de Alta Especialidad de Veracruz (HRV). Material and Methods. A total of 107 MRSA strains from individual patients were examined in the present study. The strains examined were collected between September 2009 and September 2010. The clinical and demographic characteristics of patients were analyzed; molecular typing by pulsed-field gel electrophoresis (PFGE), staphylococcal chromosomal cassette mec (SCCmec) typing and multilocus sequence typing (MLST) were used to characterize the isolates. Results. Two PFGE patterns (NY/J and IB) were identified with 4 and 3 subtypes respectively. The isolates analyzed showed two SCCmec types (I and II) and two sequence types (ST), ST247 and ST5 related with the Iberian and New York/Japan clones respectively. Conclusion. This study establishes the presence of two very important clonal lineages of MRSA: New York/Japan and Iberian clone in hospital environment.