Outpacing pathogen evolution

Nature continuously evolves, and so does everything in it—including new strains of pathogens that threaten the health and stability of our communities.

At Palmona Pathogenomics, we believe that staying ahead of infectious diseases will require a more profound understanding of what drives them in the first place. And that’s where we come in.

Taking microbial analysis to new places

In order to anticipate and respond to the future’s biggest challenges in managing infectious disease, we’ll need to think small. Our mission is to empower medical and public health communities to understand, outpace, and outsmart pathogens—including those we’ve never encountered before.

By providing our partners with actionable, data-driven insights in real time, we are positioned to elevate our collective approach to the infectious disease challenges of today, and tomorrow.

The pangenome perspective

It’s time to look at pathogens with a fresh set of eyes. Palmona Pathogenomics pairs whole-genome sequencing with artificial intelligence (AI) and an expansive database for a unique pangenome perspective. Our approach is powered by:

Pioneering pathogen

We’re committed to forging a deeper understanding of pathogen behavior to not only counter antimicrobial resistance (AMR), but also respond to newly identified challenges.

An expansive

By combining public domain and partner-acquired data with proprietary data management techniques, we’re building towards the world’s most comprehensive pangenome and patient metadata library.


Class-leading analytical and reporting tools like meta-analysis and predicted virulence and antibiotic risk scores power informed decisions and further research.

Products & Services



Inform plans to health solutions

  • Store WGS data in a secure cloud-based environment
  • Speed development decision making
  • Strengthen research and/or study design with options to use metadata and added strains from Palmona's collection
  • Access contextualized data with Palmona's collection of 40,000 bacterial strains (and growing)

Increase visibility, sharing and action

  • Consolidate and standardize vast amounts of disparately available data to support lab efficiency
  • Visualize regional trends with access to area data
  • Export interpretable data to increase knowledge sharing and connectivity among users
  • Contextualize with Palmona's proprietary collection of 40,000 bacterial strains (and growing)

Supercharge research and innovation

  • Streamline the discovery and development process
  • Enable passive monitoring of primer targets to keep assays current
  • Create your own portal or subscribe to ours
  • Access contextualized data with Palmona's collection of 40,000+ bacterial strains (and growing)


  • Enhanced bioinformatic capabilities and informed analysis
  • Streamlined development process with skilled bioinformatic services
  • Organize and interpret large omics data sets
  • Scale for projects to fit research and development scope
  • Access to experts actively applying:
    • Genome scale modeling
    • Biological AI
    • Knowledge graphs
    • Genomics data science
OC Health Agency

Our Team

Jonathan Monk

Head of Bioinformatics and Analytics and a Co-Founder

Jonathan is Head of Bioinformatics and Analytics and a co-founder of Palmona Pathogenomics. He has worked in the field of systems biology for over 10 years. Previously, Dr. Monk conducted research on microbial pathogens in the Systems Biology Research Group at the University of California, San Diego where he also received his PhD. He earned his BSE from Princeton University. Jonathan’s research interprets and classifies genotypic and phenotypic differences in pathogens, applying advanced computational techniques to build and improve pan-genome architectures and metabolic network reconstructions. Jonathan has published over 100 papers in top-tier journals including Nature Biotechnology, Cell, and the Proceedings of the National Academy of Sciences.

Saugat Poudel

Sr. Data Scientist

Saugat is a Senior Data Scientist with expertise in microbial genomics. He earned his B.S. in microbiology from the University of Washington and his Ph.D. from the University of California, San Diego. His research focuses on building statistical and machine learning models to characterize pathogens from the molecular to the population level. At Palmona Pathogenomics, Saugat applies these models to provide real-time analysis and aid in decision-making by critical players in infectious disease control.


Let’s connect

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