Lightnews — Scholar-powered news

Ryan Ziels @ryanziels.bsky.social · 21d

Excited for this opportunity to work with excellent research scientists at EMSL and the @jgi.doe.gov to study the microbes driving clean biofuel production! 🙏🦠⚡️🔥

Joint Genome Institute @jgi.doe.gov · 22d

Welcome the six researchers accepted to the FICUS program for FY26! Focus areas for projects include biofuels, biomaterials & bioproducts; hydrobiogeochemistry; & novel applications of molecular techniques.

🖥️🧬 @axelvisel.bsky.social @danudwary.secondarymetabolism.com @simrouxvirus.bsky.social

Six join FICUS program in 2026 | Joint Genome Institute

Pictured from left to right are: [above] Allegra Aron, Jana Pilatova and Ryan Ziels; [below] Andrew Vander Yacht, Itamar Shabtai and Victoria Orphan The JGI is excited to welcom

jgi.doe.gov

4

Reposted by Ryan Ziels

Joint Genome Institute @jgi.doe.gov · 22d

Welcome the six researchers accepted to the FICUS program for FY26! Focus areas for projects include biofuels, biomaterials & bioproducts; hydrobiogeochemistry; & novel applications of molecular techniques.

🖥️🧬 @axelvisel.bsky.social @danudwary.secondarymetabolism.com @simrouxvirus.bsky.social

Six join FICUS program in 2026 | Joint Genome Institute

Pictured from left to right are: [above] Allegra Aron, Jana Pilatova and Ryan Ziels; [below] Andrew Vander Yacht, Itamar Shabtai and Victoria Orphan The JGI is excited to welcom

jgi.doe.gov

1 2 3

Ryan Ziels @ryanziels.bsky.social · Aug 13

Here’s one! doi.org/10.1038/s413...

Diverse electron carriers drive syntrophic interactions in an enriched anaerobic acetate-oxidizing consortium

AbstractIn many anoxic environments, syntrophic acetate oxidation (SAO) is a key pathway mediating the conversion of acetate into methane through obligate

doi.org

1

Reposted by Ryan Ziels

Daan Speth @daanspeth.bsky.social · Jul 29

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...

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...

www.biorxiv.org

1 7 19

Reposted by Ryan Ziels

Ben J Woodcroft @benjwoodcroft.bsky.social · Jul 16

Out in @natbiotech.nature.com: Metagenome taxonomy profilers usually ignore unknown species. SingleM is an accurate profiler which doesn't, even detecting phyla with no MAGs. Profiles of 700,000 metagenomes at sandpiper.qut.edu.au. A 🧵

7 71 130

Ryan Ziels @ryanziels.bsky.social · Jul 16

Thanks Phil! I submitted the new type genome / species name to SeqCode. Will this be automatically linked to GTDB once it’s validated?

1

Ryan Ziels @ryanziels.bsky.social · Jul 16

Are you interested in microbes that are rare but active? We combined BONCAT with SIP and metaproteomics to improve the recovery of labeled proteins from such microbes. In this case, it illuminated a new anaerobic syntrophic acetate-oxidizing bacterium.

tinyurl.com/a8j29dsr
#microbiomesky #microsky

Activity-targeted metaproteomics enhances the ecophysiological characterization of cryptic syntrophic metabolisms

Syntrophic microbial consortia can contribute significantly to the activity and function of anoxic ecosystems, yet are often too rare to study their in situ physiologies using traditional molecular me...

tinyurl.com

1 13 28

Reposted by Ryan Ziels

Danielle Zoe Rivera @danielle-rivera.bsky.social · Jul 12

UC-Berkeley has an open-rank faculty position in our incredible Climate Equity and Environmental Justice (CEEJ) research cluster. It is an extraordinary interdisciplinary group working across multiple colleges and departments at the university! More information here: aprecruit.berkeley.edu/JPF04842

Assistant/Associate/Full Professor - Climate Equity and Environmental Justice - Rausser College of Natural Resources

University of California, Berkeley is hiring. Apply now!

aprecruit.berkeley.edu

3 85 140

Reposted by Ryan Ziels

Sean Gibbons 🦠💩 @gibbological.bsky.social · Jun 13

Interesting new study on emergence and disruption of cooperativity in a denitrifying microbial community, by postdoc in the lab Alex Carr (from his PhD work with Nitin Baliga). academic.oup.com/ismej/articl...

Emergence and disruption of cooperativity in a denitrifying microbial community

Abstract. Anthropogenic perturbations to the nitrogen cycle, primarily through use of synthetic fertilizers, is driving an unprecedented increase in the em

academic.oup.com

1 13 31

Reposted by Ryan Ziels

Javier del Campo @fonamental.bsky.social · Nov 15

High accuracy meets high throughput for near full-length 16S ribosomal RNA amplicon sequencing on the #Nanopore platform #microbiome

High accuracy meets high throughput for near full-length 16S ribosomal RNA amplicon sequencing on the Nanopore platform

Abstract. Small subunit (SSU) ribosomal RNA (rRNA) gene amplicon sequencing is a foundational method in microbial ecology. Currently, short-read platforms

academic.oup.com

19 41

Reposted by Ryan Ziels

Cameron Thrash @jcamthrash.bsky.social · Feb 29

Refinement of the “Candidatus Accumulibacter” genus based on metagenomic analysis of biological nutrient removal (BNR) pilot-scale plants operated with reduced aeration journals.asm.org/doi/full/10.... #jcampubs

1 3

Reposted by Ryan Ziels

Cameron Thrash @jcamthrash.bsky.social · Oct 26

Diverse electron carriers drive syntrophic interactions in an enriched anaerobic acetate-oxidizing consortium www.nature.com/articles/s41... #jcampubs

Diverse electron carriers drive syntrophic interactions in an enriched anaerobic acetate-oxidizing c...

The ISME Journal - Diverse electron carriers drive syntrophic interactions in an enriched anaerobic acetate-oxidizing consortium

www.nature.com

5 8

Ryan Ziels @ryanziels.bsky.social · Oct 25

This was a huge effort led by @lizilla93.bsky.social in collaboration with EMSL, and many others. Very glad to see it out!

2

Ryan Ziels @ryanziels.bsky.social · Oct 25

~70% of CH4 in anoxic ecosystems comes from acetate, but what microbes are catalyzing its oxidation, and how? We shed some new light on this question using long-term enrichments along with metabolic modeling informed by SIP-metaproteogenomics. #MicrobiomeSky

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

Diverse electron carriers drive syntrophic interactions in an enriched anaerobic acetate-oxidizing c...

The ISME Journal - Diverse electron carriers drive syntrophic interactions in an enriched anaerobic acetate-oxidizing consortium

www.nature.com

1 5 15

Ryan Ziels @ryanziels.bsky.social · Oct 7

It’s on my to-do list to visit! Are there things that a 3 year old would like?

Ryan Ziels @ryanziels.bsky.social · Oct 7

Firefox FTW!

1

Ryan Ziels @ryanziels.bsky.social · Oct 6

Do participants have to be from US institutions?

1

Reposted by Ryan Ziels

Dr. Kat Napaaqtuk❄️ @napaaqtuk.bsky.social · Oct 6

#IndigenousPeoplesDay is Monday. My challenge to non-Natives: dig into the history of the people who were displaced from your land, learn about the history of how they were displaced, find out where they are now, and support them financially or by protesting with them. Go beyond platitudes.

7 130 200

Ryan Ziels @ryanziels.bsky.social · Oct 6

Shift in buoyant density of DNA in a SIP experiment, at least that’s what I see when looking at this 😜

1

Reposted by Ryan Ziels

Wagatwe Wanjuki @wagatwe.com · Oct 3

capitalism ruins everything

How Google Alters Search Queries to Get at Your Wallet

Testimony during Google’s antitrust case revealed that the company may be altering billions of queries a day to generate results that will get you to buy more stuff.

www.wired.com

12 140 370

Reposted by Ryan Ziels

A. Murat Eren (Meren) @merenbey.bsky.social · Oct 1

🚨 #anvio v8 (marie) is out 🚨

This version includes new toys for integrated studies of microbial metabolism, genomic inversions, & phylogeography of proteins among many fixes and improvements.

Release notes:

github.com/merenlab/anv...

Installation page:

anvio.org/install

Release anvi'o v8, "marie" · merenlab/anvio

We are happy to announce anvi'o v8 with the code name, "marie"! After about 4,200 changes that introduced over 36,000 new lines of code, this stable release of anvi'o represents significant advance...

github.com

18 30

Reposted by Ryan Ziels

Ákos T Kovács @evolvedbiofilm.bsky.social · Oct 1

Selection and enrichment of microbial species with an increased lignocellulolytic phenotype from a native soil microbiome by activity-based probing

-in ISME Comms

www.nature.com/articles/s43...

2 3

Reposted by Ryan Ziels

Dr. Kat Napaaqtuk❄️ @napaaqtuk.bsky.social · Sep 27

Our department is hiring! We have a wide variety of expertise in molecular & cell bio & work with with many different systems. We are interested in candidates using cutting-edge and innovative techniques conduct novel research on molecular structure & function 🧪
academicjobsonline.org/ajo/jobs/25945

University of Connecticut, Molecular and Cell Biology

Full service online faculty recruitment and application management system for academic institutions worldwide. We offer unique solutions tailored for academic communities.

academicjobsonline.org

4 64 51

Reposted by Ryan Ziels

Mark Peifer (He, him) @peiferlabunc.bsky.social · Sep 27

I'm excited to announce that the UNC-Chapel Hill Department of Biology has TWO openings for tenure track Assistant Professors using genomics-informed methods to study critical questions in Plant and/or Microbial Biology.
unc.peopleadmin.com/postings/265...

Assistant Professor

The Department of Biology at UNC Chapel Hill (https://bio.unc.edu/) is searching for two tenure track Assistant Professors using genomics-informed methods to study critical questions in Plant and Micr...

unc.peopleadmin.com

1 120 110