Postdoc modeling microbial communities with neural relational inference

Develop predictive models of plant-microbe interactions from metagenomic and exo-metabolomic time-series data using neural relational inference.


We have an open postdoctoral position to develop predictive models of soil microbe interactions from metagenomic and exo-metabolomic time-series data. We have time-series data on the rhizospheres of resistant and susceptible tomato plants infected by the model soil pathogen Ralstonia solanacearum. We are applying neural relational inference and Bayesian networks to identify microbial and metabolite interactions and gain a more mechanistic understanding of the ecosystem.

There are also opportunities to lead projects on the Bayesian optimization of microbial consortia, protein expression optimization with tunable promoters, and work in structural metagenomics using AlphaFold and Rosetta.

The position is supervised by Dr. Chris Reisch at The University of Florida and funded through a collaborative agreement with the USDA, Agricultural Research Service. The postdoc will work closely with Dr. Adam Rivers at the USDA on this project.

Reisch Lab at UF:

Rivers Lab at the USDA:


All applicants should have a PhD (foreign equivalent acceptable) and will likely have experience in microbiology, ecology, computer science, or statistics. The candidate should be comfortable using Python or R and have some experience with version control, statistics, and machine learning concepts. We recognize that each person has a unique mix of experience, individual strengths, and experiences, and we encourage any applicant with a strong record of research productivity and experience to apply. Candidates must be supportive of the mission of the Land-Grant system.  Candidates must also have a commitment to IFAS core values of excellence, diversity, global involvement, and accountability. 



  • Individuals wishing to apply should go online to and submit:
    • Cover letter that states applicant’s interest in the position and qualifications relative to the credentials listed above
    • Curriculum vitae
    • Contact information (including email addresses) for 3 individuals willing to write letters of recommendation

Final candidate will be required to provide official transcript to the hiring department upon hire.  A transcript will not be considered “official” if a designation of “Issued to Student” is visible.  Degrees earned from an education institution outside of the United States are required to be evaluated by a professional credentialing service provider approved by National Association of Credential Evaluation Services (NACES), which can be found at

The University of Florida is an equal opportunity institution dedicated to building a broadly diverse and inclusive faculty and staff.

The University of Florida is An Equal Employment Opportunity Institution. If an accommodation due to a disability is needed to apply for this position, please call 352/392-2477 or the Florida Relay System at 800/955-8771 (TDD). Hiring is contingent upon eligibility to work in the US. Searches are conducted in accordance with Florida's Sunshine Law.

Application deadline:
Start date: TBD
Location: University of Florida, Gainesville, FL