Wagner joined the faculty at Yale University in 1951 and then moved to Johns Hopkins in 1957, where he became the director of the Infectious Disease Division and later the head of the Division of Virology. In 1967 Wagner moved to the University of VirginiaSchool of Medicine to serve as the chair of the Department of Microbiology. Under his leadership the department expanded dramatically, both in number of faculty and in breadth of research. Wagner also became the director of the newly created University of Virginia Cancer Center and was appointed the Marion McNulty and Marvin C. Weaver Professor of Oncology in 1984. Following a brief stint as the virology section editor for the Journal of Bacteriology, run by the American Society for Microbiology, Wagner served as the founding editor-in-chief of the Journal of Virology, working with fellow editors Lloyd Kozloff and Norman Salzman. The journal launched in 1966, and Wagner continued in his role for 15 years, overseeing a large expansion in the size of the journal before stepping down in 1982 and being succeeded by Edward M. Scolnick. With Heinz Fraenkel-Conrat, Wagner collaborated in editing a vast 19-volume treatise called Comprehensive Virology. The first volume was reviewed in 1975 as somewhat difficult to understand for those unfamiliar to the field, but likely valuable as a reference work. In the early 1980s, Wagner was among the group of American virologists who helped organize and became the founding members of the American Society for Virology. Wagner retired and assumed professor emeritus status at the University of Virginia in 1994, though he continued to be an active member of the community. His department - now the Department of Microbiology, Immunology, and Cancer Biology - awards the Robert R. Wagner Prize to excellent graduate students.
Research
Wagner has been recognized as a major contributor to the development of molecular virology. During the early 1960s, while at Johns Hopkins, he became involved in research on interferons, which eventually entered clinical use. Much of his research focused on the molecular biology of the vesicular stomatitis virus. With student Alice S. Huang, Wagner characterized what are now known as defective interfering particles.