It's been a delight to work with @microbe700.bsky.social over the last year to create the 3rd edition of Processes in Microbial Ecology. If you teach undergrads or need a holistic reference for your lab library (that includes both aquatic and terrestrial systems!) - look no further than PME 3

David Kirchman@microbe700.bsky.social · 2d ago

I’m pleased to announce the publication of a new edition of Processes in Microbial Ecology, a textbook covering all microbes in soils, lakes and the oceans. It has many new things, including a coauthor, Ashley Shade. Available online at academic.oup.com/book/63173

Our new paper is out in #mSystems! Quantify total and active bacterial cells from environmental samples with MATRIX! @asm.org @cnrs.fr @universitelyon.bsky.social journals.asm.org/doi/10.1128/...

MATRIX: rapid quantification of total and active microbial cells with single-cell phenotypes for environmental microbiomes | mSystems

Microbiome studies commonly rely on relative abundance data, which cannot distinguish whether compositional shifts reflect true population growth, declines in total community size, or both. Without ex...

journals.asm.org

I am so EXCITED to engage in this GRC in a two weeks! Hope to see many of you there to discuss unifying ecology across scales!

Jenn Sunday@jennsunday.bsky.social · 2mo ago

Want to think about ecology differently this summer? Still some spots at the 2026 Unifying Ecology Across Scales GRC. www.grc.org/unifying-eco...

fascinating read, especially for young ecologists and microbial ecologists, funding agencies, and university administrators - how to maintain competitiveness and valued, specific expertise in a research ecosystem that is rapidly AI-driven onlinelibrary.wiley.com/doi/full/10....

AI, Comparative Advantage, and the Next Decade of Ecological Research

Click on the article title to read more.

onlinelibrary.wiley.com

Breaking: A new Special Collection in @asm.org #mSphere and #mSystems – “Lab Launches - New Leaders, New Discoveries”. We started it bc that first paper is important – it communicates the group’s identity as well as the discoveries that propel a scientific career. journals.asm.org/doi/10.1128/...

Lab Launches—New Leaders, New Discoveries | mSphere

In the United States and some other countries, many small businesses mark their beginnings by posting their first earned dollar (or whatever relevant currency) from their very first transaction on a p...

journals.asm.org

Re-bonjour Bluesky community! I promise I will check in more often. I had a teeny bit of a social media fast, given Everything. Quoi de neuf? My team has a preprint for quantification of microbiome sizes (# individuals) And, it has a cool acronym: MATRIX www.biorxiv.org/content/10.6...

Excited to be back at #mSystems (@asm.org), now as a Senior Editor, working to support our new Editor-in-Chef @ashley17061.bsky.social 🤩 Support society journals! If you have work at the boundary between microbiology & systems biology, send us your manuscript! journals.asm.org/journal/msys...

mSystems Board of Editors

Members of the mSystems Editorial Board

journals.asm.org

Yesterday, I started my term as Editor in Chief of @asm.org journal #mSystems Looking forward to working with this amazing community to advance publication of our highest quality and most rigorous science! journals.asm.org/doi/10.1128/...

Humanity’s urgent challenges need solutions from systems microbiology | mSystems

It is with great excitement and sincere dedication that I assume the role of editor in chief of mSystems. Building on the momentum and reputation that mSystems has achieved in its first decade, we wil...

journals.asm.org

Check out this new piece about critical precautions and controls needed to conduct microbiome analyses on low biomass samples (like seed endophytes!) Thanks to @noahfierer.bsky.social & @greening.bsky.social for leading the charge! www.nature.com/articles/s41...

Guidelines for preventing and reporting contamination in low-biomass microbiome studies - Nature Microbiology

In this Consensus Statement, the authors outline strategies for processing, analysing and interpreting low-biomass microbiome samples, and provide recommendations to minimize contaminants.

nature.com

Tomorrow #TeamRhizo and project #MicroRescue are attending the Indo-French workshop on the "Plant microbiome as a driver for the next green agricultural revolution" - so looking forward to meeting new colleagues from India, sharing research, and thinking about harnessing microbes for plant health

#TeamRhizo & @erc.europa.eu #ERC project #MicroRescue were in the field collecting soil for our big upcoming host-mediated-microbiome-engineering experiment! Can't wait to find out which microbes respond to the plant's stress signals! @ecomicrolyon.bsky.social @cnrsecologie.bsky.social

thanks to @ou.edu Biological Sciences and especially Kara De León for hosting me for a seminar today - It was great to meet with students and share some new #MicroRescue @erc.europa.eu data!

The recording of Part 2 of the ASM #mSystems Critical Concepts in Dormancy Webinar is now available An inspiring panel of researchers share their thoughts about how to measure and discriminate different levels of microbial activity Enjoy! www.youtube.com/watch?v=RZub...

Critical Concepts in Dormancy Part II: Discriminating States of Microbial Activity

YouTube video by American Society for Microbiology

youtube.com

Embracing the systems complexity of microbial ecology and evolution: call for papers #mSystems Editorial by a group of editors, senior editors & editor-in-chief @leonorabit.bsky.social @gilbertjacka.bsky.social @ashley17061.bsky.social @markjmandel.bsky.social journals.asm.org/doi/10.1128/...

Embracing the systems complexity of microbial ecology and evolution: call for papers | mSystems

Microbial ecology and evolution are broad disciplines that seek to understand the underlying processes that drive the diversification, distributions, and dynamics of microbial cells, populations, comm...

journals.asm.org

Congrats to @sambarnett15.bsky.social on our team's paper accepted at the special issue of Soil Biology & Biochemistry We use a 7 year spatio-temporal study of heat disturbance in soil to investigate the coupling of viral community dynamics with bacterial. www.sciencedirect.com/science/arti...

Soil viral community dynamics over seven years of heat disturbance: spatial variation exceeds temporal in annually sampled soils

Viruses are important components of the soil microbiome, influencing microbial population dynamics and the functions of their hosts. However, the rela…

sciencedirect.com

Join us for the upcoming American Society for Microbiology #mSystems webinar on microbial dormancy and activity! Free registration here: asm.org/Webinars/mSy...

9 minutes ago Free registration is open for our next Critical Concepts in Dormancy webinar 20 Feb, hosted by American Society for Microbiology journal mSystems! asm.org/Webinars/mSy... Discuss how to evaluate microbial activity, including in challenging environments! A stellar speaker line up 🤩

Check out this article about defining microbial activity and dormancy, and why it's important for thinking about climate change There will be an in-depth symposium moderated by me at the ASM #Microbe2025 in LA! and, good news you can still submit your abstract! asm.org/Articles/202...

Congrats to my EcoMicroLyon colleagues on their new publication about pollution gradients, microbial communities, and mosquito larvae! Nice assessment of host-environment-microbiome systems in urban environments academic.oup.com/femsec/artic...

Pollution gradients shape microbial communities associated with Ae. albopictus larval habitats in urban community gardens

Microbial composition of larval habitats covaried differentially along the pollution gradients according to the presence/absence of larvae. Noncolonized wa

academic.oup.com

Look at the new cover of mSystems! Beautiful seeds and their microbiomes In this study we found stable transmission of particular bacterial taxa across plant generations via the seed, despite parent plant exposure to stress @microbialmarie.bsky.social journals.asm.org/toc/msystems...

mSystems Table of Contents Volume 9, Issue 11

mSystems: Table of Contents Volume 9, Issue 11

journals.asm.org

Submit your abstract for the American Society for Microbiology #Microbe2025 annual meeting in Los Angeles! I'm organizing a symposium on Microbial Dormancy! Hope to receive your abstract and discuss with you there. Early abstracts close Dec 3, don't delay! abstractsonline.com/pp8/#!/20974...

Did you catch our Thinking Series Webinar on Microbial Dormancy? If not, no fret: it's available on youtube! www.youtube.com/watch?v=Ytz1...

Critical Concepts in Dormancy Part I: Dormancy in Human Health and the Environment

YouTube video by American Society for Microbiology

youtube.com

I am proud to have represented our research #MicroRescue and THE MICROBES at the recent colloquium by the Fondation Pierre Verots My talk (in English!) is an accessible overview as to why microbes are important for climate change