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Gavin Thomas (he/him)

@gavinhthomas.bsky.social
903 followers 316 following 64 posts

Microbiologist @UniofYork. Former EiC of @MicrobioSoc #MicrobioJ. Transporters, Staph, BO & skin microbiome. CSO @morfdb.bsky.social York Knavesmire Harrier & EBOR orienteer.

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Reposted by Gavin Thomas (he/him)
noam @prywes.bsky.social · 27/09/2026
This is such a great piece of work about an amazing evolutionary story, every part of this is incredible. Congrats @rudycadenabioevo.bsky.social @evanowack.bsky.social Among other surprises, oxygen scavenging instead of photorespiration is not something I was expecting!
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Reposted by Gavin Thomas (he/him)
Julian Parkhill @julianparkhill.bsky.social · 16/09/2026
This will be an amazing opportunity for the right person. The Department of Veterinary Medicine in Cambridge is recruiting for an established chair who will also be our Head of Department. Your research can be in any area of veterinary science. Please circulate. www.cam.ac.uk/jobs/profess...
cam.ac.uk
Professorship of Veterinary Science
The Board of Electors to the Professorship of Veterinary Science invite applications for this Professorship from persons whose work is connected with veterinary science (ideally in research aligned wi...
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Gavin Thomas (he/him) @gavinhthomas.bsky.social · 16/09/2026
Next Wednesday we're running a live webinar on examining the genomes of examples of the 6 ESKAPE pathogens, using tools available in MORF Genomes. Come & learn about AMR gene and genomes using our visual browser-based tools. www.eventbrite.co.uk/e/how-superb...
eventbrite.co.uk
How Superbugs Escape: Comparative Genomics of ESKAPE Pathogens with MORF
Dive into the sneaky world of superbugs and see how the MORF platform helps crack the code on ESKAPE pathogens' escape tricks.
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Gavin Thomas (he/him) @gavinhthomas.bsky.social · 03/09/2026
nice to see a photo from my York collection in this latest article from @yorkcivictrust.bsky.social on the Northern Powerhouse :-) yorkcivictrust.co.uk/no-10-north-...
yorkcivictrust.co.uk
“No.10 North”? York has been here before - York Civic Trust
Duncan Marks explores York’s long history as a northern centre of power, from Roman emperors and medieval kings to the Council of the North and the Civil War. The Prime Minister’s new "No.10 North" in...
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Reposted by Gavin Thomas (he/him)
Andreas Peschel @andreaspeschel.bsky.social · 31/08/2026
A quinone-transporting pseudomembrane complex in Bacillota including staphylococci. Amazing!
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Reposted by Gavin Thomas (he/him)
The Royal Society @royalsociety.org · 27/08/2026
Professor Bonnie Bassler is awarded the Copley Medal for her discovery of the universality of chemical communication in bacteria and for her idea that interfering with this communication could form the basis of novel anti-bacterials. #RSMedals royalsociety.org/medals-and-prizes/…
A woman with dark hair and a light blue shirt smiles at the camera in front of a bright white background.
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Reposted by Gavin Thomas (he/him)
Evgenii Protasov @evgenii-protasov.bsky.social · 27/08/2026
Bacterial lipid structural diversity mediates commensalism and pathogenesis #microbiology #bacteria #lipids #MicroSky @natrevmicro.nature.com doi.org/10.1038/s415...
doi.org
Bacterial lipid structural diversity mediates commensalism and pathogenesis - Nature Reviews Microbiology
In this Review, Heaver and Ley overview the different lipid structures present in commensal and pathogenic bacteria and their recognition by Toll-like receptor 2, Toll-like receptor 4 and CD1 molecule...
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Reposted by Gavin Thomas (he/him)
Jonathan Eisen @phylogenomics.bsky.social · 28/08/2026
Congratulations to #ucdavis Alum Bonnie Bassler www.princeton.edu/news/2026/08...
princeton.edu
Bonnie Bassler receives top Royal Society honor for seminal research in quorum sensing
Bassler has been named the 2026 recipient of the society's Copley Medal, its oldest and most prestigious prize.
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Reposted by Gavin Thomas (he/him)
Chris H. Hill @chillzaa.bsky.social · 24/08/2026
Thrilled to share that our paper describing protein-dependent frameshifting is now out in Molecular Cell @cellpress.bsky.social. Huge congratulations to @jemmabetts.bsky.social for publishing the first research paper from her PhD 🧬🧪🥳 www.sciencedirect.com/science/arti... 1/8
sciencedirect.com
A protein-dependent riboswitch activates ribosomal frameshifting in cardioviruses
Programmed −1 ribosomal frameshifting (PRF) is a translational control mechanism used by RNA viruses to regulate the relative abundance of proteins en…
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Reposted by Gavin Thomas (he/him)
Silvia Ramundo @sramundo.bsky.social · 19/08/2026
A stress response can be a great starting point for discovering new biology! By following genes regulated during the chloroplast unfolded protein response, we’re discovering novel factors involved in chloroplast homeostasis. Here’s the first one we characterized: www.pnas.org/doi/10.1073/...
pnas.org
VIA1 is a conserved regulator of thylakoid membrane integrity that acts through VIPP1 | PNAS
Thylakoid membranes are indispensable for oxygenic photosynthesis, yet the mechanisms that protect these membranes from photooxidative damage remai...
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Reposted by Gavin Thomas (he/him)
ARC Centre of Excellence in Synthetic Biology @coesb.com.au · 17/08/2026
✨ We're excited to announce our fifth keynote speaker for #coesb26, Prof @gavinhthomas.bsky.social! Gavin is a Prof. at the Department of Biology at the @york.ac.uk ac.uk, UK. We're looking forward to hearing from Prof Thomas soon! 📅 Registration opens this week! @arc-gov-au.bsky.social
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Reposted by Gavin Thomas (he/him)
Andrew Darwin @durkdarwin.bsky.social · 22/07/2026
After a bit of a rough patch my lab's funding situation has taken a significant upturn, so if you're looking for a Postdoc position please keep us in mind...Pseudomonas aeruginosa genetics, regulation, and physiology - with a focus on the cell envelope. Please repost. andrewdarwinlab.org
andrewdarwinlab.org
Microbiology | Andrew Darwin Lab | United States
Andrew Darwin Laboratory website. Academic Microbiology research laboratory at NYU School of Medicine. New York, NY, USA.
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Reposted by Gavin Thomas (he/him)
Ira Blader @bladerlab.bsky.social · 15/07/2026
Science is rapidly changing - for better and worse - and we hope that this article collection will serve as a reference as we all navigate these new realities. The first article by Dr. Friedrich Götz of @unituebingen.bsky.social is posted and i highly recommend it journals.asm.org/doi/10.1128/...
journals.asm.org
mSphere Legacy: Fritz about Fritz | mSphere
I began my research career in the late 1970s with my doctoral thesis at LMU Munich under Karl Heinz Schleifer in the Department of Microbiology. At the time, the department was a hotspot for bacterial classification, cell wall structure analysis, staphylococcal physiology, and metabolism. I became particularly interested in the latter areas and studied fructose-1,6-bisphosphate (FBP)-activated L-lactate dehydrogenase in Staphylococcus epidermidis and a highly stable class I FBP aldolase in Staphylococcus aureus (1). I also investigated oxygen consumption mediated by pyruvate oxidase in Lactobacillus plantarum, demonstrating that this bacterium does not require an enzymatic superoxide dismutase because it can use Mn-phosphate/pyrophosphate for superoxide scavenging—an example of the diverse mechanisms that bacteria employ to cope with oxidative stress (2–4). My scientific environment was shaped by the work of Karl-Heinz Schleifer (Technical University of Munich) and Wesley E. Kloos (North Carolina State University) who made foundational contributions to the identification and classification of Staphylococcus species, particularly during the 1970s, when bacterial systematics was undergoing major modernization. The Kloos–Schleifer classification frameworks remained standard references for the identification of staphylococci well into the molecular era (5, 6).
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Alan Cartmell @acartmell47.bsky.social · 27/05/2026
Happy to have this collaborative work with Zach Armstrong now out in Angewandte chemie doi.org/10.1002/anie... . We use a linked assay, coupled with fluorescent probes, to analyse mucin active carbohydrate sulfatase kinetics, cellular location, and inhibition.
doi.org
Fluorogenic Coupled Assays Reveal Catalytic Properties, Inhibition Constants and Cellular Location of Mucin‐Active Carbohydrate Sulfatases
We report plate-based coupled assays to rapidly and quantitatively determine the activity and selectivity of mucin-active carbohydrate sulfatases. This fluorogenic assay further enables inhibitor ide...
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Reposted by Gavin Thomas (he/him)
(not) Imran Khan @imrsankhan.bsky.social · 03/06/2026
Great to see Sam's work on PdhD out now in Microbiology! Very cool story showing how subtle metabolic adaptations can give Staph an edge during systemic invasion #microsky www.microbiologyresearch.org/content/jour...
microbiologyresearch.org
Metabolic reprogramming promotes Staphylococcus aureus serum resistance
Staphylococcus aureus is a leading cause of bloodstream infections causing an estimated 300,000 deaths worldwide. Using a functional genomics approach, our group previously identified that adaptation ...
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Reposted by Gavin Thomas (he/him)
Ákos T Kovács @evolvedbiofilm.bsky.social · 06/06/2026
A lipid cue drives the subcellular localization of a self-inserting bacterial transmembrane protein bioRxiv from @ramamurthilab.bsky.social www.biorxiv.org/content/10.6...
biorxiv.org
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Zamin Iqbal @zaminiqbal.bsky.social · 25/05/2026
This is awful to hear, describing how Sean Eddy (HMMER, infernal, pfam, rfam) has been defunded. The letter said his work "had been determined to be of absolutely no value to the US taxpayer, and therefore it was being specifically terminated," www.npr.org/2026/05/21/n...
npr.org
Researchers say the Trump administration is finding new ways to punish science
Even with federal grants largely restored, scientists say the Trump administration is still preventing those funds from reaching them. The consequences, they say, are already becoming clear.
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Reposted by Gavin Thomas (he/him)
AVERT project @avertproject.bsky.social · 19/05/2026
What a kick-off to @pintofscience.uk in York last night! Presenters covered topics on solar panels & biodiversity, sustainable fishing & maths, biomolecules science, and stressed microbes by @gavinhthomas.bsky.social #pint26 #STEM #AVERTproject #BBSRC
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Dirk-Jan Scheffers 🟥 @dirkscheffers.bsky.social · 05/05/2026
New work from @henrikstrahl.bsky.social and coworkers!
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Gavin Thomas (he/him) @gavinhthomas.bsky.social · 01/05/2026
Reflecting on the passing of J. Craig Venter, who I never met, and was not everyone's cup of tea, but TIGR's work on the first bacterial genome in 1995 has to be the landmark paper in my PhD era and it would not be an exaggeration to say that it has shaped my whole academic career. #lovemicrobiology
Cover of Science Magazine - 28th July 1995 - the day microbiology changed forever....Title and abstract of J. Craig Venter's group complete bacterial genome sequence.
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Gavin Thomas (he/him) @gavinhthomas.bsky.social · 27/04/2026
Congratulations Lukas on this nice work which we heard about at the Staph GRC last Autumn. More great work from Tübingen @andreaspeschel.bsky.social
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Reposted by Gavin Thomas (he/him)
AVERT project @avertproject.bsky.social · 27/04/2026
@gavinhthomas.bsky.social is taking the stage for the Pint of Science Festival! 🍻🔬Join him on May 18th for a fascinating deep dive into the world of microbes and how they handle stress pintofscience.co.uk/event/nature... #outreach #BBSRC
pintofscience.co.uk
Nature, Numbers, and the Invisible World
Explore the hidden rules that shape our world, from the stress responses of microbes and the molecular machinery of life to the maths behind ecosystems, mo…
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Reposted by Gavin Thomas (he/him)
Tim Overton @overtonlab.bsky.social · 24/04/2026
New paper! We have written a (hopefully) simple primer on microbial energy metabolism - how do bacteria harvest energy from their environment, and how does this impact their behaviour? www.microbiologyresearch.org/content/jour...
microbiologyresearch.org
Microbial Primer: Bacterial energy metabolism
All cells need energy to perform their functions. This primer introduces energy metabolism in bacteria, with a focus on key pathways and examples from model organisms, while acknowledging that bacteri...
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Reposted by Gavin Thomas (he/him)
Shu-Sin Chng @figlegend.bsky.social · 17/04/2026
Had lots of fun too at the Memb Prot Conf in Birmingham a few days prior, getting to know @chrismulligan.bsky.social, @gavinhthomas.bsky.social, @allistercrow.bsky.social, @renaeryan.bsky.social and catching up Andy Lovering, Jani Bolla, @pstansfeld.bsky.social & @davidroper2.bsky.social of course!
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MORFdb @morfdb.bsky.social · 15/04/2026
If you’re attending @microbiologysociety.org 2026 keep an eye out for Luke Shipley from the MORF-Bio team. He’ll explain how to explore your microbial data through interactive, visual tools with MORF Genomes. 🎁 And there’s a £100 Amazon voucher up for grabs! If you spot Luke, come and say hello!
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Gavin Thomas (he/him) @gavinhthomas.bsky.social · 17/03/2026
Check out the first of our public lectures on AMR run by the YPS - kicked off by the fantastic Prof. Jess Blair from Birmingham. What is a superbug? @jessicamablair.bsky.social @ypsyork.bsky.social @ybri-uoy.bsky.social - two more in the series coming soon! www.youtube.com/watch?v=sFYs...
youtube.com
What is a Superbug? The global threat of antibiotic resistance
YouTube video by Yorkshire Philosophical Society
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Institute of Microbiology and Infection @imibirmingham.bsky.social · 26/02/2026
It is with deep sadness that we share the passing of Professor Jeff Cole. An esteemed academic, Jeffs research on bacterial adaptation to oxygen and nitrosative stress made a lasting impact on the field. He mentored nearly 60 doctoral students, our thoughts are with his family, friends & colleagues
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Reposted by Gavin Thomas (he/him)
Alejandro Montenegro @aemonten.bsky.social · 26/02/2026
"Nobody will care about your work about sugar metabolism and transporters in Neurospora crassa" Nobody can predict what can happen with your work. www.sciencedirect.com/science/arti...
sciencedirect.com
Fungal-derived cellobiose metabolic pathway fuels T cells to bypass intratumoral glucose competition
Solid tumors harbor immunosuppressive microenvironments that inhibit tumor-infiltrating lymphocytes (TILs) through the voracious consumption of glucos…
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Reposted by Gavin Thomas (he/him)
Victor de Lorenzo (CNB, Madrid) @vdlorenzo.bsky.social · 27/01/2026
How do you react when your favorite microbe is renamed by taxonomists who are completely outside your field—and who ignore the community that actually works with it? Here is our clear answer re the case of Pseudomonas putida KT2440 👉🏻 journals.asm.org/doi/10.1128/...
journals.asm.org
The disputed identity of Pseudomonas putida KT2440: when taxonomists rename your favorite microbe | mBio
Names matter; they are not mere labels. They operate as anchors of memory, social coordinates, and references of collective identity. When a name becomes established through long-term use and broad ad...
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Gavin Thomas (he/him) @gavinhthomas.bsky.social · 28/01/2026
Heading down to the Festival of Genomics to tell people about MORF and get the latest on Microbial genomics - give me a DM if you’d like to chat 👍
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Gavin Thomas (he/him) @gavinhthomas.bsky.social · 08/01/2026
Proud supervisor moment - these two superstars Reyme Herman and Imran Khan (@imrsankhan.bsky.social) graduated today from @biologyatyork.bsky.social. Both key members of the group in developing our Staphylococcal research & much more.
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Willem van Schaik @wvschaik.bsky.social · 27/12/2025
Interesting new paper on Enterococcus lactis (the species formerly known as Clade B E. faecium) 'The Mannose Phosphotransferase System in Enterococcus lactis Is Essential for Gastrointestinal Colonization' onlinelibrary.wiley.com/doi/abs/10.1...
onlinelibrary.wiley.com
The Mannose Phosphotransferase System in Enterococcus lactis Is Essential for Gastrointestinal Colonization
Enterococcus lactis, a recently established species that was previously classified as Enterococcus faecium clade B. Given its recent taxonomic classification, studies on this bacterium are scarce, an...
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Gavin Thomas (he/him) @gavinhthomas.bsky.social · 29/12/2025
Interested in the sugars bacteria use to evade our immune system? We are looking to train a student across microbiology & biochemistry to discover the mechanisms for scavenging & recycling these sugars & and join the thriving glycobiology community in York www.findaphd.com/phds/project...
findaphd.com
Breaking the surface of Pseudomonas: elucidation of the biochemical basis of pseudaminic acid transport and catabolism in bacteria (York YBDTP Project) at University of York on FindAPhD.com
PhD Project - Breaking the surface of Pseudomonas: elucidation of the biochemical basis of pseudaminic acid transport and catabolism in bacteria (York YBDTP Project) at University of York, listed on ...
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Duncan MacCannell @drm.bsky.social · 07/12/2025
www.nytimes.com/2025/12/05/s...
nytimes.com
Hamilton O. Smith, Who Made a Biotech Breakthrough, Is Dead at 94
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Syma Khalid @sykhalid.bsky.social · 05/12/2025
Our paper on polymyxin interacting with the E. coli outer membrane is out! Simulations by the very talented @dheerajprakaash.bsky.social www.nature.com/articles/s42... To scale outer membrane protein island simulated at coarse-grained resolution with portions refined at all atom resolution.
nature.com
Polymyxins slow down lateral diffusion of proteins and lipopolysaccharide in the E. coli outer membrane - Communications Biology
Multi-scale molecular dynamics simulations reveal that polymyxins form polymyxin-protein aggregates upon associating with the E. coli outer membrane thereby reducing lateral mobility of outer membrane...
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Sara Mitri @saramitri.bsky.social · 03/12/2025
Amazing dataset describing the metabolic profiles of 66 E. coli transporter knockouts by @sulheim.bsky.social with Peter Doubleday and @nzamboni.bsky.social. The tool, set up by @lambdapp.bsky.social and Eric Ulrich allows you to explore for yourself. Enjoy! Pre-print here: doi.org/10.1101/2025...
doi.org
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Rob Fagan @robfagan.bsky.social · 03/12/2025
The deadline for the first of our three fully funded PhD studentships is tomorrow! Determining the role of the dual-function VanT in C. diff vancomycin resistance. Collab with @gavinhthomas.bsky.social and Marjan van der Woude
findaphd.com
MRC DiMeN Doctoral Training Partnership: Doubling down: determining the dual function of VanT in C. difficile antibiotic resistance. at University of Sheffield on FindAPhD.com
PhD Project - MRC DiMeN Doctoral Training Partnership: Doubling down: determining the dual function of VanT in C. difficile antibiotic resistance. at University of Sheffield, listed on FindAPhD.com
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Nature Metabolism @natmetabolism.nature.com · 30/11/2025
#Throwback 🧪 COMMENT | Metabolites are not genes — avoiding the misuse of pathway analysis in metabolomics KS Lee, X Su & T Huan
bit.ly
Metabolites are not genes — avoiding the misuse of pathway analysis in metabolomics - Nature Metabolism
Pathway analysis, originally developed for gene expression data, has been adapted for metabolomics. However, owing to the unique characteristics and constraints of metabolites compared with genes, pathway analysis in metabolomics often yields misleading or nonsensical results.
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Gavin Thomas (he/him) @gavinhthomas.bsky.social · 28/11/2025
Very nice work from Simon Heilbronner's lab in Munich, which we heard at the Staph GRC this summer. Plenty more of these kinds of interactions going on in these communities I think. academic.oup.com/ismej/articl...
academic.oup.com
Competitive fitness of Staphylococcus aureus against nasal commensals depends on biotin biosynthesis and acquisition
Abstract. The human nasal microbiome can serve as a reservoir for pathogens. In particular, the opportunistic pathogen Staphylococcus aureus can be a membe
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Henrik Strahl @henrikstrahl.bsky.social · 25/11/2025
Our sLola consortium is now in BlueSky! Worth following for future updates on our work with IM30 proteins including LiaH, PspA, and VIPP's.
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Henrik Strahl @henrikstrahl.bsky.social · 24/11/2025
Now properly published at @natcomms.nature.com with few additional experiments incl. demonstration of Daptomycin's ability to depolarise non-growing cells. See the original preprint-thread for a summary of our findings. www.nature.com/articles/s41... #microsky
nature.com
The last resort antibiotic daptomycin exhibits two independent antibacterial mechanisms of action - Nature Communications
The precise mechanism of action of the antibiotic daptomycin is controversial. Here, Buttress et al. provide evidence for two independent antibacterial mechanisms: membrane depolarisation and inhibiti...
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Reposted by Gavin Thomas (he/him)
James Davies @james-s-davies.bsky.social · 09/11/2025
Check out our new paper: 🔗 www.cell.com/structure/fu... We explored how sulfate-reducing bacteria import isethionate, a sulfur-containing molecule found in the environment and produced by microbes in the human gut. We captured a structure of the IseQM TRAP transporter in a substrate-bound state.
cell.com
Structural basis of isethionate transport by a TRAP transporter from a sulfate-reducing bacterium
Newton-Vesty et al. used a megabody fiducial to determine the cryo-EM structure of an isethionate TRAP transporter, revealing the substrate and Na+-binding sites. Transport is dependent on Na+ and the...
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Skeet Child O' Mine @furiosity.bsky.social · 06/11/2025
Contrast this with the response of a president who was an actual decent human being.
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Willem van Schaik @wvschaik.bsky.social · 06/11/2025
Absolutely delighted (and proud) that @freyaallen.bsky.social passed her viva with minor corrections today. Thanks very much @jessicamablair.bsky.social @robfagan.bsky.social for examining!
From left to right: Willem, Freya, Jess and Rob.

We are standing in front of a wall with a congratulations banner and some left-over Halloween decorations.
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Rob Fagan @robfagan.bsky.social · 31/10/2025
1. Characterising the role of the dual-function VanT in C. difficile vancomycin resistance. A collaboration between our group in @molmicrosheffield.bsky.social and the groups of @gavinhthomas.bsky.social and Marjan van der Woude at the University of York www.findaphd.com/phds/project...
A simplified version of Figure 4 from our paper https://doi.org/10.1371/journal.pbio.3002741 describing the evolution of vancomycin resistance in C. difficile. The shows phase contract and fluorescence microscopy images of a wild type and a vancomycin resistant C. difficile. In the fluorescence channel can be seen vancomycin -bodipy binding to the mid-cells of wild type cells but this labelling is absent in the resistant bacteria
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Dr Katherine Duncan @kateduncan.bsky.social · 16/10/2025
Really enjoyed giving an evening lecture (‘antibiotics from the abyss’) to the Yorkshire Philosophical Society on Tuesday at Tempest Anderson Hall. The AMR series was organised by @gavinhthomas.bsky.social (lectures 1&2 by @jessicamablair.bsky.social & Martha Clokie) www.ypsyork.org/events/antib...
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Typas Lab @typaslab.bsky.social · 13/10/2025
Excited to share our preprint led by Carlos Voogdt et al We developed new genetic tools & genome-wide libraries for species of the Bacteroidales order; constructed saturated barcoded transposon libraries in key representatives of three genera. www.biorxiv.org/content/10.1...
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Gavin Thomas (he/him) @gavinhthomas.bsky.social · 10/10/2025
Massive congratulations to Reyme Herman who passed his PhD viva today and has two new papers out on his (side project) developing and characterising the York Skin Microbiome collection. Thanks to @webberma.bsky.social & Marjan van der Woude for examining & @unileveruki.bsky.social for support.
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Quadram Institute @quadraminstitute.bsky.social · 24/01/2025
🆕 We catch up with Dr Andrew Bell to find out about his Quadram Institute Fellowship focused on how gut bacteria use a certain group of sugars called sialic acids 🦠
buff.ly
How do gut bacteria use sialic acid sugars? - Quadram Institute
Dr Andrew Bell explains his fundamental research to understand how gut bacteria use specific sugars known as sialic acids
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Andy Edwards @bugsinblood.bsky.social · 29/09/2025
Now published! www.nature.com/articles/s41... Very nice collaboration with Hoogenboom ( @ucl.ac.uk ) and Bonev ( @uniofnottingham.bsky.social ) labs.
nature.com
Polymyxin B lethality requires energy-dependent outer membrane disruption - Nature Microbiology
The antibiotic polymyxin B requires bacterial metabolic activity to cause sufficient damage to the outer membrane to access the inner membrane, which it permeabilizes via an energy-independent mechanism to kill the cell.
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