The clinical activity of the Microbiology Deparment is organized into two main sections: a Bacteriology Section, which includes the Parasitology and Mycology areas, and a Virology Section, as well as the Emergency Laboratory (LaU), which provides 24/7 clinical support. The Deparment is represented in the Molecular Biology CORE, where various molecular microbiology techniques are performed under the supervision of a microbiology specialist. In recent years, the Microbiology Deparment has incorporated the Microbiome Area and, more recently, the Clínic site of the Microbiota Bank of Catalonia.

The Microbiology Deparment also participates in other clinical support areas such as:

The LaU carries out the serological screening of organ and tissue donors from all over Catalonia, and handles all the analyses that, from the point of view of microbiological diagnosis, are considered urgent.

The Deparment is part of the Infection Control Commission and the Clinical Program for the Prevention and Control of Infections Related to Health Care and the Optimal Use of Antibiotics.

In addition, it is a Reference Center of the Generalitat de Catalunya for respiratory viruses and emerging viruses, and a WHO Sentinel Center for the influenza virus.