Ian Marshall

🚨 2 funded #PhD positions (ERC Adv Grant) in the Moissl-Eichinger Lab, Graz! Study Methanobrevibacter as a keystone in the gut microbiome.
💡 Omics, modeling, synthetic consortia
📅 Deadline: Sept 10, 2025
🌍 Int’l applicants welcome!
Application link below.
#microbiomesky #archaeasky #microsky

🚨4yr Technical Assistant Position on #Microbial Activities in #Marine #N-Cycling🦠🧪👩‍🎓🔬

Join me @univie.ac.at @dome-vienna.bsky.social
Part of our ERC Synergy #RECLESS looking at microbes in marine oxygen minimum zones

Apply by Oct 15, start March 2026!

-> ucloud.univie.ac.at/index.php/s/...

🚨3-yr Postdoc Position on #SingleCell Activities in #Marine #N-Cycling🦠🧪👩‍🎓🔬

Join me @univie.ac.at @dome-vienna.bsky.social
Part of our ERC Synergy #RECLESS looking at microbes in marine oxygen minimum zones

Apply by Oct 15, start March 2026!

-> ucloud.univie.ac.at/index.php/s/...

Greengenes2 unifies microbial data in a single reference tree - Nature Biotechnology A comprehensive microbial resource reconciles genomic and 16S rRNA data in a single tree.

Greengenes2 is a new reference tree integrating genomic and 16S rRNA databases, resolving discrepancies from PCR biases. It shows that 16S rRNA and shotgun metagenomics data from the same samples align in principal coordinates space, taxonomy, and phenotype effect size.

First isolation of a methanotrophic Mycobacterium reveals ammonia- and pH-tolerant methane oxidation | Applied and Environmental Microbiology Methane is a significant contributor to climate change (27 times more potent as a greenhouse gas than carbon dioxide), and the largest biological sink is methane-oxidizing bacteria: methanotrophs. Alt...

“Isolation of a new methanotroph belonging to Mycobacterium” is now out! Awesome work by my former postdoc Hiromi Kambara, who led this project all the way.
journals.asm.org/doi/10.1128/...

Occurrence and temporal dynamics of denitrifying protist endosymbionts in the wastewater microbiome Effective wastewater treatment is of critical importance for preserving public health and protecting natural environments. Key processes in wastewater treatment, such as denitrification, are performed...

Occurrence and temporal dynamics of denitrifying protist endosymbionts in the wastewater microbiome.

Very excited to see the preprint of this story online and big congrats to @louison-nicolas.bsky.social at @mpimarinemicrobio.bsky.social!

www.biorxiv.org/content/10.1...

American musical satirist Tom Lehrer dies at 97, US media report Lehrer, a Harvard-trained mathematician, wrote darkly humorous songs, often with political connotations.

On Saturday, the great Tom Lehrer died at the age of 97. Mathematician, singer, songwriter, satirist and a great character.

All of his songs are in the public domain, so if you're into tributes, now is a good time to do one.

🧪 #AcademicSky

www.bbc.co.uk/news/article...

@cemau.bsky.social had a visit by @nikomccarty.bsky.social to look at cable bacteria. Thanks for your interest Niko!

Iron reduction under oxic conditions by Microbacterium deferre sp. nov. A1-JKT - Nature Communications In this study, the authors show that Microbacterium deferre A1-JK, a newly isolated Gram-positive bacterium, simultaneously reduces oxygen and iron under oxic conditions, revealing unexpected microbia...

Iron reduction under oxic conditions by Microbacterium deferre sp. nov. A1-JKT www.nature.com/articles/s41... #jcampubs

Check out a new preprint from my lab, led by Rhitu Kotoky, which shows the role of extracellular G-quadruplex RNA in cathodic extracellular electron transfer.
doi.org/10.1101/2025...

Iron reduction under oxic conditions by Microbacterium deferre sp. nov. A1-JKT - Nature Communications In this study, the authors show that Microbacterium deferre A1-JK, a newly isolated Gram-positive bacterium, simultaneously reduces oxygen and iron under oxic conditions, revealing unexpected microbia...

Out now! Simultaneous aerobic and anaerobic respiration enabled via extracellular electron transfer. Meet Microbacterium deferre A1-JK.
www.nature.com/articles/s41...

Sorry I obviously mean that the deadline is 8/15 :-) August 15. You know what I mean.

Villum Sabbatical For US-based researchers wishing to visit a Danish university for up to 12 months

Any US-based researchers interested in doing a sabbatical in Denmark for up to 12 months? There is a new funding option for you: villumfonden.dk/en/group/cha.... Deadline is 15/8. Let me know if you want to come and spend some time in Aarhus!

Expanding ISME communications to taxonomy and nomenclature academic.oup.com/ismecommun/a... #jcampubs

Laboratory Technician at Section for Microbiology, Department of Biology, Aarhus University - Ledig stilling på Aarhus Universitet Ledig stilling ved Institut for Biologi - Mikrobiologi, Aarhus Universitet

Open position for a lab technician at the Section for Microbiology, Aarhus University: www.au.dk/om/stillinge...

Same here - for me I think it's because some core programming concepts are common between the languages, but Julia is newer and less likely to mess things up for esoteric technical reasons so the learning isn't impeded by errors that are hard to understand.

Defining ultra-slow-growing extremophilic microorganisms as aeonophiles - Nature Microbiology In environments like the deep subsurface, microorganisms with long doubling times can remain metabolically active for millions of years — we propose referring to this class of extremophile as aeonophi...

A proposal from @karenlloyd.bsky.social and me: let's refer to ultra-slow-growing microbes, such as those found in the deep subsurface, as aeonophiles (aeon = long time).

www.nature.com/articles/s41...

Frontiers | Editorial: Deep subsurface microbiology and energetics In hyperalkaline fluids derived from serpentinization in the Samail Ophiolite, Howells et al. reveal that formate, rather than hydrogen or acetate, provides ...

Our Editorial for the 'Deep Subsurface Microbiology and Energetics' research topic in @frontiersin.bsky.social

We highlight diverse and interdisciplinary studies on deep subsurface microbial life, and commemorate Jan Amend, in whose memory this collection was created

tinyurl.com/ytumsz2h

Defining ultra-slow-growing extremophilic microorganisms as aeonophiles Nature Microbiology - In environments like the deep subsurface, microorganisms with long doubling times can remain metabolically active for millions of years — we propose referring to this...

Organisms that are buried alive for many thousands of years without enough energy to grow could be called "aeonophiles", so we can talk about them more easily. @drewsteen.bsky.social tinyurl.com/4tzecaxn

We're just as surprised as you are about how warm it is, enjoy it while it lasts :-)

Inactive “Ghost” Cells Do Not Affect Motility and Long‐Range Electron Transport in Filamentous Cable Bacteria Mechanisms for the creation of individual ghost cells within a cable bacterium filament. (A) Schematic overview of different stressors that can lead to cell lysis or cell death. (i) Viral particles i...

Do ghosts exist? They do for cable bacteria: enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/...

It's crazy how much student writing has changed since generative AI arrived. It used to be easy to spot where a student didn't understand what they were saying, because the writing became nonsensical. Now the writing itself is always perfect, but the underlying ideas don't make sense.

Oh no - xkcd 3095 happened for real: xkcd.com/3095/

Thank you Daan, this is some beautiful, selfless, generous work you are doing for the community!

A google maps screenshot of the Antwerp University Drie Eiken Campus, with "Microbial Electricity" a labeled landmark.

In Antwerp and just about to head to campus for a PhD defense this afternoon - looking at Google Maps there's no doubt about where I need to be heading!

JAMSTEC Young Research Fellow (JYRF) | JAMSTEC - JAPAN AGENCY FOR MARINE-EARTH SCIENCE AND TECHNOLOGY JAMSTEC Young Research Fellow (JYRF)

Would you like to work with us?
At JAMSTEC, we are recruiting postdoctoral researchers through the Young Research Fellow program.
This program allows fellows to independently pursue their own research projects.
www.jamstec.go.jp/recruit/e/jy...

Database size positively correlates with the loss of species-level taxonomic resolution for the 16S rRNA and other prokaryotic marker genes Author summary The use of reference databases for assigning taxonomic labels to genomic and metagenomic sequences is a fundamental bioinformatic task in the characterization of microbial communities. ...

Database size positively correlates with the loss of species-level taxonomic resolution for the 16S rRNA and other prokaryotic marker genes. journals.plos.org/ploscompbiol...

🥳 Important + positive changes to the @erc.europa.eu program:
- PhD age eligibility up to 10 years (starting) and 15 years (consolidator
- Application Part I focuses on the aim + strategy
- Application Part II restricted to 7 pages

Promising toolkit for binning and visualizing assembly graphs. The assembly graph is an underutilized source of binning information IMO
gbintk.readthedocs.io/en/latest/

HMMER is the bedrock of genomic annotation globally, and now its funding is terminated for no reason.

@cryptogenomicon.bsky.social is now on bsky: