A Mayo Clinic Physician’s Journey with Phage Therapy

Issue 289 | November 8, 2024
9 min read
Capsid and Tail

What’s it like treating patients with phages at a major US medical center? In a new Podovirus Podcast episode, Mayo Clinic’s Dr. Gina Suh shares insights from 5 years of phage therapy — the successes, the challenges, and what it takes to make it work.

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What’s New

Baptiste Gaborieau (Université Paris Cité, France) and colleagues published a new paper showing accurate prediction of strain-level phage-bacteria interactions in E. coli using only genomic data.

Research paperPhage-host interactionsHost range prediction

It’s hard to compare results across human gut virome studies. Michael Shamash (McGill University, Canada) and colleagues show that using ‘predicted phage host families’ can improve cross-study virome analyses and help detect disease-specific virome signatures.

Phage-host interactionsGut viromePreprint

Dong Li (Beijing University of Chemical Technology) and colleagues published a new paper on how phage proteins can sequester signaling molecules from TIR and cGAS-like antiviral defense enzymes.

Also check out this explainer thread by coauthor Iana Fedorova!

Research paperPhage defense

Elizabeth Burgener (Children’s Hospital of Los Angeles) and colleagues published a new paper on how Pf phage impacts cystic fibrosis patients, with Pseudomonas infections, showing high Pf in sputum is associated with lung function decline and airway inflammation.

Research paperCystic fibrosis

Is the Nagoya Protocol doing its job to ensure countries get the benefits from their own genetic resources? Hassan Salem & Martin Kaltenpoth (Max Planck Institute) argue that the protocol’s implementation has impeded research due to incompatibility with microbiology, while failing to deliver substantial benefits to provider countries.

PerspectiveNagoya Protocol

Latest Jobs

PostdocGut microbiotaAnaerobes
Yolanda Huang’s lab at SUNY Buffalo in Buffalo, NY is hiring a:

  • Postdoc to study bacteria-phage interactions among gut anaerobic phages using high-throughput genetics.
  • Technician) for phage isolation efforts against gut anaerobes. No prior experiences with phages are required.

We are interested in studying fundamental biology of bacteria-phage interactions in the gut microbiota. We are a new lab and excited to recruit phage enthusiasts and motivated individuals to build our team!

University at Buffalo is a flagship school of the State University of New York system and we are located in downtown on the medical school campus.

Lab Manager
Pat Secor at Montana State University is hiring a Research Lab Manager to manage phage-related research activities.
Research TechnicianPhage Bank
Martha Clokie’s lab (U Leicester, UK) is hiring a Research Technician to assist in the development of phage reference reagents for research purposes.
PhD ProjectJumbo phage
Milan Gerovac has started a new junior research group, Complexes in Phage-infected Cells, at Helmholtz Centre for Infection Research, and is hiring for a PhD position to explore jumbo phage biology.
PostdocPhage cocktails
Jo Fothergill at University of Liverpool, UK is hiring a postdoc to design optimized phage cocktails targeting biofilm-growing bacteria in cystic fibrosis lung infections.
PostdocCystic fibrosis
Dr Andrew Millard and Prof M Clokie (U Leicester, UK) are hiring a postdoc to focus on the selection of phages for therapeutic use in cystic fibrosis-associated Pseudomonas aeruginosa infections.
PostdocPhage-host interactions
NRC, Ottawa, Canada is hiring a postdoc to investigate the relationship between phage production and hypervirulence of Acinetobacter baumannii.
Research AssistantMicrobiome
Jens Walter at University College Cork is hiring a Research Assistant (Microbiology) to join his team in the UCC Microbiology and Pharmabiotic Centre, focusing on nutritional- and microbiome-based approaches to improve human health. For full details, search job ID 080852 at ore.ucc.ie. Application deadline is 8th November 2024.
PostdocPhage resistance
The Bramkamp Lab at the Christian-Albrechts University of Kiel is hiring a postdoc to molecular mechanisms of bacterial dynamin-mediated phage resistance. The Bramkamp lab focuses on prokaryotic cell organization, using advanced microscopy and molecular genetics.
Multiple positionsBiotech
Phagos, a phage biotech company in Suresnes, France, is hiring for full-time roles with potential for remote work, including Lab Technician – Molecular Biology, Lab Technician – Microbiology, CFO, and Molecular Biology Scientist.

They’re also offering two microbiology internships: Internship #2 and Internship #1.

Interested applicants can contact Alexandros Pantalis ([email protected]) for business roles or Adèle James ([email protected]) for scientific roles.

Community Board

Anyone can post a message to the phage community — and it could be anything from collaboration requests, post-doc searches, sequencing help — just ask!

Frontiers is hosting a virtual seminar called Visualizing the microbiome: data-driven discoveries on January 18, 2024.

Rob Knight from the UC San Diego will discuss key findings from microbiome research projects, innovative data visualization techniques, and AI applications in microbiome studies.

Microbiome visualizationWebinar

A Mayo Clinic Physician’s Journey with Phage Therapy

Profile Image
Phage microbiologist and co-founder of Phage Directory
Co-founderStaff Scientist
Bollyky Lab, Phage Directory, Stanford University, Stanford, United States
Skills

Phage characterization, Phage-host interactions, Phage Therapy, Molecular Biology, Phage manufacturing

I’m a co-founder of Phage Directory and have a PhD in Microbiology from the University of Alberta (I studied Campylobacter phage biology). For Phage Directory, I help physicians find phages for their patients, and I’m always trying to find new ways to help the phage field grow (especially through connecting people and highlighting awesome stuff I see happening in the field).

I spent 2022-2024 as a postdoc in Jon Iredell’s group at Westmead Institute for Medical Research in Sydney, Australia, helping get Phage Australia off the ground. I helped set up workflows for phage sourcing, biobanking, diagnostics, production, purification and QC of therapeutic phage batches, and helped build data collection systems to track everything we did. We treated more than a dozen patients in our first year, and I’m so proud of that!

As of Feb 2024, I joined the Bollyky lab at Stanford University as a Staff Scientist, where I’m focused on building a phage therapy center, with a specific focus on phage cocktail design, formulation and delivery. Step one — write a bunch of grants; step two — cook up some phage cocktails!

What’s changed in phage therapy over the past few years? Not long ago, patients were desperately searching for phage treatment while physicians remained skeptical. Today, we’re seeing a transformation, with doctors like Mayo Clinic’s Dr. Gina Suh leading the charge to bring phage therapy into established medical institutions.

In our latest Podovirus podcast episode, Gina shares her insights about implementing phage therapy at Mayo Clinic. From preventing amputations to building a clinical phage therapy program from scratch, she discusses the real challenges and progress in bringing phage treatments to patients.

Key Points:

  • How patient selection criteria have evolved
  • The critical role of pharmacokinetics in treatment success
  • Current infrastructure needs and development challenges
  • The impact of neutralizing antibodies on treatment
  • Standardization challenges in phage susceptibility testing
  • Biofilm-related complications in treatment
  • The balance between fixed cocktails and personalized approaches

Gina’s perspective is particularly valuable as she bridges the gap between research and clinical practice, sharing both successes and ongoing challenges in implementing phage therapy within a major medical institution.

Excerpts

On how patient selection has evolved:

Gina: “I am much more careful about patient selection now. I select patients with fewer variables and confounders. I look at things like: How long have they had their infection? How many organisms are involved? How many isolates or sub-isolates are involved? If they have seven, eight, nine, fourteen different sub-isolates of Pseudomonas, that’s probably not a great candidate. In retrospect, if John [our first patient] had come along now, I don’t know that we would have necessarily treated him. He was evaluated by other phage centers and his case was not accepted.”

Gina’s Infrastructure Wishlist:

Gina: "If I had everything I wanted, it would be: get the patients in clinic, evaluate them, take a sample, isolate the bacteria, test it against a phage library under our roof, and then bio-manufacture it. Have control over that and prioritize the cases that need prioritization, like patients who are not doing well clinically. At the same time, we could be doing the regulatory steps.

Then be able to see how they’re doing on phage therapy - do therapeutic drug monitoring, scan them, see where the phages are going. And have the flexibility to use judgment to change the course if needed, just like we would with any therapeutic course in the hospital. Being locked into a certain protocol that you have to state beforehand, that you can change but it takes a while - it’s not very fluid or flexible.

Having phage scientists as partners nearby where I can walk the sample down to the lab and not have to worry about freezing it and mailing it somewhere - that would be my wish."

On success rates and treatment response:

“Most of my patients seem to respond at first. Even the ones that end up failing in the end, there’s some kind of objective evidence. Either their CRP takes a big dip down and then goes back up, or there’s something subjective, like their symptoms are actually better. The inflammatory markers seem to improve in the first week or two. That’s happened in several patients where they’ve gone down, everybody’s really hopeful, and then after a couple more weeks, it goes back up and so too do the correlating symptoms. Of the 17 cases, we’ve had about a 50-50 success rate. The numerator of successes really depends on how strict you want to be with the definition of success.”

On the future of phage therapy:

“I am hopeful that we will have at least one fixed cocktail product coming onto the market. I’m going to guess that it’s going to be a UTI type of indication. That doesn’t mean there’s no room for personalized approach - we don’t have to pick one or the other. It will be both fixed cocktails and personalized approaches that will be needed. And then things adjacent to phage therapy too, like lysins… in the same way that overcoming climate change will take solar and wind and geothermal and other things. We will need all of those different modalities to tackle this antimicrobial resistance problem.”

Listen to the entire episode:

Further reading

This episode is co-hosted with Joe Campbell, former NIH program officer, kicking off a new series exploring phage therapy from multiple perspectives. Stay tuned for more episodes diving deep into what’s holding phage therapy back and how we’re moving forward.

Have thoughts about clinical implementation of phage therapy? Ideas on questions we should ask phage therapy providers and researchers in this series, or who we should talk to? Email me at [email protected]!

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Mary Ann Liebert PHAGE

Supported by

Leona M. and Harry B. Helmsley Charitable Trust

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