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Fischbach’s lab focuses on discovering and characterizing small molecules from microorganisms, with an emphasis on the human microbiome.

Fischbach’s lab developed an algorithm, ClusterFinder, that automates the process of identifying biosynthetic genes for small molecules in bacterial genome sequences. With Marnix Medema, he co-developed a second algorithm for identifying biosynthetic gene clusters, antiSMASH, with which ClusterFinder has been merged.

In 2014, Fischbach and his laboratory published a survey of biosynthetic genes in the human microbiome, describing the ability of human-associated microbes to produce thiopeptide antibiotics. The Fischbach lab discovered that the gut commensal Bacteroides fragilis produces the immune modulatory sphingolipid alpha-galactosylceramide, showed that the production of neurotransmitters is common among commensal gut bacteria, and discovered the biosynthetic pathway for a common class of bile acids produced by gut bacteria.

Fischbach was a junior fellow in the Department of Molecular Biology at Massachusetts General Hospital (2007-2009) before joining the faculty of the University of California, San Francisco in 2009. He moved to Stanford University as an Associate Professor in September 2017. As a Chan Zuckerberg Biohub Investigator, Fischbach is one of eight faculty members across Stanford, UCSF, and the University of California, Berkeley leading the CZ Biohub Microbiome Initiative, launched in 2018, with the goal of understanding how the microbiota can influence human health.

Fischbach earned his A.B. in Biochemical Sciences from Harvard College in 2003. During that time (2000-2003), he worked in Jeffrey Settleman’s lab at the Massachusetts General Hospital Cancer Center on the biochemistry of oncogenic mutants of the small GTPase Ras. In 2007, he earned his Ph.D. in Chemistry and Chemical Biology from Harvard University, working in Christopher T. Walsh’s laboratory at Harvard Medical School on iron acquisition in bacterial pathogens and the biochemistry of natural product biosynthesis.

Michael Andrew Fischbach (born November 3, 1980) is an American chemist, microbiologist, and geneticist. He is an Associate Professor of Bioengineering and ChEM-H Faculty Fellow at Stanford University and a Chan Zuckerberg Biohub Investigator.