Markus Huber was born in Munich, Germany in 1968. As a soloist of the Tölzer Knabenchor, he worked from an early age with notable musicians such as Herbert von Karajan, James Levine, Wolfgang Sawallisch, Nicolaus Harnoncourt and Dennis Russel Davies. He studied at the Musikhochschule in Munich and Vienna with Leopold Hager (conducting) and Karl-Hermann Mrongovius (piano) amongst others. At that time, he worked as répétiteur for the stage direction class of August Everding and held a teaching position for piano accompaniment.
Huber began his conducting career as répétiteur and conductor at the Landestheater Detmold. One year later, he held the same position as well as that of the second chorus director at Opernhaus Chemnitz , where he was appointed principal conductor of the Collegium Instrumentale Chemnitz in 1999. Between 2002 and 2007, he was principal guest conductor of the Bulgarian Chamber Orchestra, and in 2003 he became principal conductor of Westsächsisches Sinfonieorchester Leipzig.
Since 2008, Huber has been the Music Director of Opera Pforzheim. Markus Huber took the stand at many renowned orchestras, such as the Philadelphia Orchestra, the San Francisco Symphony Orchestra, ORF-Symphonieorchester and Saarländischer Rundfunk, among others. In 1999, he won the second prize of the international conducting competition "Boris Perrenoud" in Vienna. (A first prize was not awarded). Between 1998 and 2001, he taught art song interpretation at the international summer course "Aristoxenos" in Greece. Furthermore, he accompanied solo recitals of Edith Wiens, Josef Protschka, Boris Statsenko und Thomas Mähthger.