Esteban Bustos-Caparros

Genomic insights into adaptation and microevolution of two novel non-AOA #Nitrososphaeria, Acidarchaeum fankouense and Thermosulfuris yongpingense, in acid mine drainage ecosystems www.sciencedirect.com/science/arti...

Water mass specific genes dominate the Southern Ocean microbiome - Nature Communications Southern Ocean microbial communities are less well studied. Here, the authors generate a circumpolar-scale gene catalog from 218 metagenomics samples revealing broadscale uniqueness and water-mass–spe...

Water mass specific genes dominate the Southern Ocean microbiome www.nature.com/articles/s41... #jcampubs 🌊

Viral BONCAT-FACS and single virus genomics. academic.oup.com/ismecommun/a...

a figure from the linked paper which shows A) a world map and B) a schematic representation of various natural and artificial habitats, both annotated with information about which sulfur disproportionating bacteria have been found in the specific regions and environments

New paper from my 2nd PostDoc is now published in The ISME Journal by @isme-microbes.bsky.social!

#Sulfur disproportionation occurs globally across anoxic habitats & has multiple mechanisms of independent evolutionary origin academic.oup.com/ismej/advanc...

#Bacteria #Microbes #Evolution #DeepSea

DECODE: a universal deconvolution framework for transcriptomic, proteomic and metabolomic data.

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

Now out in @natcomms.nature.com :
versions 2.0 of both BiG-SCAPE and BiG-SLiCE! With significant speed and accuracy increases, as well as new interactive functionalities.
Read the full paper here #openaccess:
www.nature.com/articles/s41...

Very happy to be able to contribute to this great research out now in @nature - where we reveal that coral associated microbes are rich biosynthetic reservoirs !

The MicrobeAtlas database: Global trends and insights into Earth’s microbial ecosystems MicrobeAtlas (www.microbeatlas.org) is an integrated, reference-based resource for truly planet-wide microbiomics, analyzing hundreds of thousands of microbial lineages across diverse environments, co...

MicrobeAtlas is now published in Cell. 🌐🌎🦠

Explore the paper and resource to see what large-scale microbiome data reveal about global ecological patterns:
www.cell.com/cell/fulltex...

For a concrete application, see our recent work on “Community conservatism”:
www.nature.com/articles/s41...

🚀New study out! We identify freshwater phage-host interactions in situ using metaHi-C and connect infection dynamics with evolution.🦠

Depth-resolved carbon dioxide and methane concentrations in 522 lakes, ponds, and reservoirs worldwide www.nature.com/articles/s41... #jcampubs

New paper from my team detailing a greatly expanded genomic database of Asgard archaea revealing of high energy metabolism those related to eukaryotes! Led by @katyappler.bsky.social lots of help from @jameslingford.bsky.social @valdeanda.bsky.social @kassipan.bsky.social doi.org/10.1038/s415...

"Seasonal enhancement of the viral shunt catalyzes a subsurface oxygen maximum in the Sargasso Sea" https://www.nature.com/articles/s41467-025-67002-1

Viruses transform microbes, populations, & ecosystems.

In new work jointly led w/@tn-marine-micro.bsky.social + more, we find a link between enhanced viral infection and productivity 50 meters below the surface in the otherwise nutrient limited Sargasso Sea.

a 🧵

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

FICUS | Joint Genome Institute The FICUS call targets high-risk/high-payoff proposals, providing access to the capabilities and expertise of multiple DOE National User Facilities in one research proposal.

DEADLINE THURSDAY: Submit your letter of intent for our FICUS call to access resources from multiple facilities under one proposal.

We're looking for high-risk/high-payoff projects that leverage a broad range of the capabilities.

Learn more: https://jgi.doe.gov/work-with-us/proposals/FICUS

14 more days left to apply for these two postdoc positions in my team. Please share with your network!

I am seeking a postdoc to join my group at UCLA -- ideally the candidate would have some experience in either population genetics or microbes/microbiome (computational background needed). We have a range of projects and are happy to tailer to your interests. Please dm/email me if interested.

We’re hiring: Research Group Leader in computational biology.

Are you generating more research ideas than you can explore? Lead cutting-edge AI & biology research at EMBL-EBI.

Apply by 11 April 2026: embl.wd103.myworkdayjobs.com/en-US/EMBL/j...

#ScienceCareers @ewaldlab.org @embl.org

Enhorabuena a los dos!!!!!!!

Vaya cracks!

Double Marie Curie win! My lab and life partner, @alopezm.bsky.social, and I have both been awarded MSCA Fellowships with @baerboletta.bsky.social. Exciting times ahead! 🚀

Two fully funded PhD candidate positions in Electromicrobiology (3 years) Application deadline: 4 March 2026 at 23:59 hours local Danish time

In addition to the 2 postdoc jobs posted yesterday, we’re recruiting 2 PhD students (environmental microbiology/ molecular ecology) to join us from April. The projects will map microbial populations across niches in bioelectrochemical systems relevant to biomethanation & link them to performance.

Two postdoctoral positions (3-year) in Experimental Evolution of Methanogenic Microbiomes in Bioelectrochemical Systems Application deadline: 4 March 2026 at 23:59 hours local Danish time

I’m looking for two postdoctoral scientists in experimental evolution to join my team from April 2026 (or soon after). Please share! fa-eosd-saasfaprod1.fa.ocs.oraclecloud.com/hcmUI/Candid...

Ammonia oxidizers offset acidification stress via adaptive substrate affinity in aquatic ecosystems www.nature.com/articles/s41... #jcampubs 🌊

DeepKOALA: A Fast and Accurate Deep Learning Framework for KEGG Orthology Assignment www.biorxiv.org/content/10.6...

Looking for a tool to estimate abundances of aerobes versus anaerobes directly from metagenomes? Here you go: www.biorxiv.org/content/10.6...

Quantifying the oxygen preferences of bacterial communities using a metagenome-based approach www.biorxiv.org/content/10.6... #jcampubs

MaAsLin 3: refining and extending generalized multivariable linear models for meta-omic association discovery - Nature Methods MaAsLin 3 is a comprehensive and flexible framework for microbiome association studies with expanded toolsets of statistical models, tests and types of inference.

MaAsLin 3: a comprehensive, flexible framework for microbiome association studies. @hutlab.bsky.social

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

Cell cycle dysregulation of globally important SAR11 bacteria resulting from environmental perturbation - Nature Microbiology Without key cell cycle control genes, SAR11 cells experience aneuploidy and growth inhibition when exposed to changes in nutrients, carbon sources or temperature stress, a vulnerability that may repre...

Our latest. Led by the very talented @ahoiching.bsky.social

Cell cycle dysregulation of globally important SAR11 bacteria resulting from environmental perturbation www.nature.com/articles/s41... #jcampubs 🌊

GitHub - ebiggers/libdeflate: Heavily optimized library for DEFLATE/zlib/gzip compression and decompression Heavily optimized library for DEFLATE/zlib/gzip compression and decompression - ebiggers/libdeflate

🗜️⚡ If you use gzip/gunzip a lot in your pipelines, switch to the faster"libdeflate" versions instead! They use modern CPU capabilities to achieve a 2-3x speedup.

libdeflate is in conda, and "libdeflate-gzip" and "libdeflate-gunzip" are drop-in replacements. #unix

github.com/ebiggers/lib...

We just released #anvio v9, "eunice" 🎉

This version represents over 2,000 changes in the codebase since v8, increasing the total number of programs in the anvi'o ecosystem to 176.

Read the release notes:

github.com/merenlab/anv...

Visit our up-to-date web page:

anvio.org

Thank you Ramon for your support and guidance over all these years!!

It was wonderful to attend the Polar and Alpine Microbiology Conference in Copenhagen last week and discuss my aerobiology project from Summit Station, Greenland. Thank you @alexanesio.bsky.social for organizing #PAM2026