James Marsh
Group Leader navigating microbiome genetics & engineering @ Max Planck in Tübingen, Germany. Rarely late.
☕️🎧🇦🇺🎥
- Reposted by James Marsh🛠️New tool from the lab! #SHARK🦈: a new strain to support complex cloning of transient R6K expression plasmids – perfect for genome engineering. Work led by the talented Shivang Joshi and all strains and strain assembly tools enroute to Addgene. #synbio doi.org/10.1101/2025...
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- Reposted by James MarshHappy to share that the paper describing Autocycler is now 100% up: doi.org/10.1093/bioi... (1/3)
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- Reposted by James MarshExclusion systems, far from slowing down plasmid spread, are in fact essential to preserve host cell viability and thereby ensure the successful dissemination of conjugative plasmids and antibiotic resistance genes. @nfrk92.bsky.social @narjournal.bsky.social academic.oup.com/nar/article/...
- Reposted by James MarshCan CRISPR-Cas systems target any phage? Yes, no, it depends? What does it depend on? The second paper from my PhD came out today in a special issue of Phil Trans B on the ecology and evolution of bacterial immune systems doi.org/10.1098/rstb...
- There's still time to get your abstracts in for this year's International Conference on Microbiome Engineering conference in Antwerp! We extended the deadline to September 15th. #microsky #microbiomesky
- Reposted by James MarshPlasmids can be lost from a bacterial community even under positive environmental selection: doi.org/10.1101/2025...
- Reposted by James MarshPreprint: De-novo design of proteins that inhibit bacterial defenses Our approach allows silencing defense systems of choice. We show how this approach enables programming of “untransformable” bacteria, and how it can enhance phage therapy applications Congrats Jeremy Garb! tinyurl.com/Syttt 🧵
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- Reposted by James MarshOUT NOW: Inducible transposon mutagenesis identifies bacterial fitness determinants during infection in mice #microsky 🧪 www.nature.com/articles/s41...
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- I've been waiting for someone to do this: Phase variation via DNA methylation enables gut bacteria to adapt to environmental changes by regulating gene expression and enhancing phenotypic diversity. #microbiome www.biorxiv.org/content/10.1...
- Reposted by James Marsh(Part 4 of 5) Available PhD projects in Biology! Start your career in ground-breaking research with Gal Ofir & Christian Rödelsperger from the MPI Biology Tübingen. Apply by: 27 Jan. www.phd.tuebingen.mp... #imprs #graduateprogram #maxplanck #phd #phdlife #phdposition #phdpositiongermany #biology
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- Reposted by James MarshI'm recruiting! I'm looking for a motivated postdoctoral scientist to join my new team at SCELSE in Singapore. The role will explore various aspects of how #eDNA is produced and utilised in #Pseudomonas aeruginosa biofilms. #Microsky #phagesky #Science ntu.wd3.myworkdayjobs.com/Careers/job/...
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- Reposted by James Marsh🚨 The Alker Lab is starting at the University of Rhode Island in early 2025 and we will be hiring! 🚨 If you are interested in marine microbiology, bacterial genetics and/or symbiosis, please consider reaching out! Repost to help spread the word 🪸🧪🧬🌊
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- Interesting look at gut strain-level dynamics: The human gut has low strain variation compared to other environments and has a limited capacity for strain richness. #microbiome www.nature.com/articles/s41...
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- A very cool app to compare a list of microbes with microbial signatures in BugSigDB and Bugphyzz 🧫 #microbiome
Sharing a Shiny app I've been working on at @leviwaldron1.bsky.social 's lab: BugSigDBEnrich. The app lets you compare a list of bacteria with published microbial signatures curated in bugsigdb.org. shiny.sph.cuny.edu/BugSigDBEnri... #rstats #microbiome #microbiomeresearch
- Reposted by James MarshI wanted to share our beautiful synthetic gut community Com20, highlighting my favourites 🧪cutie little R. intestinalis shaped like a banana 🧫big boss C. perfringens needs privacy around its rods 🧪E. ramosum showing it’s spores @lisamaierlab.bsky.social #microbiome #MicrobiomeSky #microscopy
- Reposted by James MarshToday we publish an (in my opinion) important paper in @naturemicrobiol.bsky.social 🍾 showing that gut physiology and environment are factors explaining substantial variations in human gut #microbiome composition and #metabolism🦠 Fantastic work Procházková et al. 👏 www.nature.com/articles/s41...
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- Reposted by James MarshExcited to share “Bin Chicken”, substantially improving genome recovery through rational metagenomic assembly. Applied to public 🌍 metagenomes, it recovered 24,000 novel species 🦠, including 6 novel phyla. doi.org/10.1101/2024... @wwood @rhysnewell @CMR_QUT 🧵1/6
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- Reposted by James Marsh📢 Interested in chromosomes and microbes thriving at the edge of life?PhD project in York-UK on chromosome segregation in #Archaea. Supervised by me, @Steve Quinn & @georgerheath.bsky.social www.findaphd.com/phds/project... Open to Applicants Worldwide! 📅 January 6, 2025 #microsky #archaeasky
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- Reposted by James MarshI am hiring a Research Assistant microbiologist! We are new, expanding research group in the School of Microbiology, UCC and APC Microbiome Ireland in Cork studying anaerobic gut bacteria. Deadline for applications 29th November. Apply here: ore.ucc.ie Job ID: 081111
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- Honored to be part of a collaborative team receiving funding to genetically engineer methanogens in ruminants for reducing carbon emissions. We're now seeking multiple postdocs in the USA, Germany, and New Zealand - apply via the link! docs.google.com/forms/d/e/1F... 🧫🧪 #ArchaeaSky #MicrobiomeSky
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- I am hiring a Research Assistant microbiologist! We are new, expanding research group in the School of Microbiology, UCC and APC Microbiome Ireland in Cork studying anaerobic gut bacteria. Deadline for applications 29th November. Apply here: ore.ucc.ie Job ID: 081111
- Reposted by James MarshHere are some free/open-source sites for the preparation of scientific illustrations, including icon libraries: bioicons.com, scidraw.io, bioart.niaid.nih.gov, inkscape.org, biogdp.com, reactome.org/icon-lib
- Reposted by James MarshNew GPU-based MMseqs2: 20x faster searches on a single L40S (approx. as fast as a RTX 4090) vs. a 128-core CPU. This work enables to set up a very cost-efficient ColabFold MSA GPU server. 🧵🧵 📄 www.biorxiv.org/content/10.1... 💾 mmseqs.com 🗞️ developer.nvidia.com/blog/boost-a...
- Reposted by James MarshAnother day, another cool recent preprint on bacterial immunity. #Phagesky This one is on an super cool regulation of Restriction-Modification systems. Post-translational modifications that are temperature dependent AND inherited over 60 generations. www.biorxiv.org/content/10.1...
- Reposted by James MarshArchaeaCast: A podcast about the coolest domain of life: Archaea. rss.com/podcasts/arc...
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- Reposted by James MarshMobile Elements Starter Pack on BlueSky! Interested in plasmids, phages, ICEs, transposons, integrons, and all things accessory genome? Follow this curated list of researchers and labs doing exciting work in mobile elements.at://did:plc:5sw7inqlcs26nurzzysdo7dm/app.bsky.graph.starterpack/3lak65fp46w2z
- Reposted by James MarshWe discovered the first alternative genetic code in Archaea! www.biorxiv.org/content/10.1...
- @dsmzd3.bsky.social Welcome to MicroSky!
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