- Marine Microbiology (1946)
- Microbial ecology (1946)
- Marine Microorganisms (1951)
- The Effects of Water Pollution on Marine Organisms (1956)
- Marine microbiology: a compendium of current knowledge (1965)
- Environmental Aspects of Marine Microbiology (1971)
- Microbial Ecology of the Oceans (1974)
- Microbial Life in the Deep Sea (1980)
- Microbial Ecology of the Sea (1984)
- Marine Biodeterioration: An Interdisciplinary Treatise (1988)
- Introduction to Marine Microbial Ecology (1992)
Selected articles
- Zobell, C. E., & Stadler, J. (1940). The effect of oxygen tension on the growth of bacteria in sea water. Journal of Bacteriology, 40(4), 353-367.
- Zobell, C. E. (1946). Marine microbiology: a monograph on hydrobacteriology. Chronica Botanica Company.
- Zobell, C. E. (1950). The occurrence and distribution of microorganisms in marine sediments. Journal of Sedimentary Research, 20(1), 11-18.
- Zobell, C. E. (1956). The role of bacteria in the fouling of ships. In Symposium on the Role of Microorganisms in Decomposition Processes (pp. 175-184). Springer, Dordrecht.
- Zobell, C. E. (1963). The microbial world in the deep sea. In Progress in Oceanography (Vol. 1, pp. 233-274). Elsevier.