Esteban Bustos-Caparros
@ebustos-caparros.bsky.social
PhD in Environmental Microbiology
PostDoc in the MMG at IMEDEA (CSIC-UIB) and at INAGEA (UIB)
Microbial and viral intraspecies diversity & metagenomics
Also exploring RuBisCO gene diversity in extreme cold and hot environments through metagenomics
PostDoc in the MMG at IMEDEA (CSIC-UIB) and at INAGEA (UIB)
Microbial and viral intraspecies diversity & metagenomics
Also exploring RuBisCO gene diversity in extreme cold and hot environments through metagenomics
Reposted by Esteban Bustos-Caparros
Curious about which topics will be covered at #ISME20? Explore the full list of sessions and confirmed invited speakers via isme-microbes.org/isme20-sessi...!
Join us in Auckland, New Zealand, from 16–21 August 2026, for the world’s leading meeting in microbial ecology.
Join us in Auckland, New Zealand, from 16–21 August 2026, for the world’s leading meeting in microbial ecology.
November 14, 2025 at 3:01 PM
Curious about which topics will be covered at #ISME20? Explore the full list of sessions and confirmed invited speakers via isme-microbes.org/isme20-sessi...!
Join us in Auckland, New Zealand, from 16–21 August 2026, for the world’s leading meeting in microbial ecology.
Join us in Auckland, New Zealand, from 16–21 August 2026, for the world’s leading meeting in microbial ecology.
Reposted by Esteban Bustos-Caparros
“Bin Chicken” is now published in Nature Methods! It substantially improves genome recovery through rational coassembly 🧬🖥️. Applied to public 🌍 metagenomes, we recovered 24,000 novel species 🦠, including 6 new phyla.
doi.org/10.1038/s415...
@benjwoodcroft.bsky.social @rhysnewell.bsky.social
🧵1/6
doi.org/10.1038/s415...
@benjwoodcroft.bsky.social @rhysnewell.bsky.social
🧵1/6
November 13, 2025 at 10:09 AM
“Bin Chicken” is now published in Nature Methods! It substantially improves genome recovery through rational coassembly 🧬🖥️. Applied to public 🌍 metagenomes, we recovered 24,000 novel species 🦠, including 6 new phyla.
doi.org/10.1038/s415...
@benjwoodcroft.bsky.social @rhysnewell.bsky.social
🧵1/6
doi.org/10.1038/s415...
@benjwoodcroft.bsky.social @rhysnewell.bsky.social
🧵1/6
Reposted by Esteban Bustos-Caparros
November 12, 2025 at 12:32 AM
Reposted by Esteban Bustos-Caparros
Our Springer Nature book is just published! Big thanks to the co-editor Chris Rinke
@chrisrinke.bsky.social and to all book contributors, coming from @i2sysbio.es, @jgi.doe.gov and many other institutes I couldn't find on BlueSky
link.springer.com/book/10.1007...
#microsky #singlecell #genomics 🧪🦠
@chrisrinke.bsky.social and to all book contributors, coming from @i2sysbio.es, @jgi.doe.gov and many other institutes I couldn't find on BlueSky
link.springer.com/book/10.1007...
#microsky #singlecell #genomics 🧪🦠
Single-Cell Omics in Microbiome Research
This volume introduces single-cell microbial (gen)omics as an innovative approach to study microbial diversity and symbiosis
link.springer.com
November 10, 2025 at 4:30 PM
Our Springer Nature book is just published! Big thanks to the co-editor Chris Rinke
@chrisrinke.bsky.social and to all book contributors, coming from @i2sysbio.es, @jgi.doe.gov and many other institutes I couldn't find on BlueSky
link.springer.com/book/10.1007...
#microsky #singlecell #genomics 🧪🦠
@chrisrinke.bsky.social and to all book contributors, coming from @i2sysbio.es, @jgi.doe.gov and many other institutes I couldn't find on BlueSky
link.springer.com/book/10.1007...
#microsky #singlecell #genomics 🧪🦠
Reposted by Esteban Bustos-Caparros
PGAP2: A comprehensive toolkit for prokaryotic pan-genome analysis based on fine-grained feature networks www.nature.com/articles/s41... #jcampubs
PGAP2: A comprehensive toolkit for prokaryotic pan-genome analysis based on fine-grained feature networks - Nature Communications
Prokaryotic pan-genome analysis is crucial for understanding microbial diversity, however current analytical methods often struggle to balance accuracy and computational efficiency. Here the authors p...
www.nature.com
November 10, 2025 at 3:45 PM
PGAP2: A comprehensive toolkit for prokaryotic pan-genome analysis based on fine-grained feature networks www.nature.com/articles/s41... #jcampubs
Reposted by Esteban Bustos-Caparros
🚨vConTACT3 preprint live!🚨(Peer Review soon...!)
vConTACT3 delivers a unified, scalable, and transparent framework for genome-based virus taxonomy — helping translate big viral data into systematic classification.
🔗 Read the preprint: doi.org/10.1101/2025...
Improvements details below 👇
vConTACT3 delivers a unified, scalable, and transparent framework for genome-based virus taxonomy — helping translate big viral data into systematic classification.
🔗 Read the preprint: doi.org/10.1101/2025...
Improvements details below 👇
Scalable and systematic hierarchical virus taxonomy with vConTACT3
Viruses are key players in diverse ecosystems, but studying their impacts is technically and taxonomically challenging. Taxonomic complexities derive from undersampling, diverse DNA and RNA genomes wi...
doi.org
November 7, 2025 at 4:36 PM
🚨vConTACT3 preprint live!🚨(Peer Review soon...!)
vConTACT3 delivers a unified, scalable, and transparent framework for genome-based virus taxonomy — helping translate big viral data into systematic classification.
🔗 Read the preprint: doi.org/10.1101/2025...
Improvements details below 👇
vConTACT3 delivers a unified, scalable, and transparent framework for genome-based virus taxonomy — helping translate big viral data into systematic classification.
🔗 Read the preprint: doi.org/10.1101/2025...
Improvements details below 👇
Reposted by Esteban Bustos-Caparros
Oligonucleotide design meets big data:
We present oligoN-design, a simple, reproducible and versatile open-source tool to design specific primers and probes directly from large environmental DNA datasets.
🔗 DOI: doi.org/10.1101/2025...
👉 github.com/MiguelMSandi...
We present oligoN-design, a simple, reproducible and versatile open-source tool to design specific primers and probes directly from large environmental DNA datasets.
🔗 DOI: doi.org/10.1101/2025...
👉 github.com/MiguelMSandi...
November 7, 2025 at 12:54 PM
Oligonucleotide design meets big data:
We present oligoN-design, a simple, reproducible and versatile open-source tool to design specific primers and probes directly from large environmental DNA datasets.
🔗 DOI: doi.org/10.1101/2025...
👉 github.com/MiguelMSandi...
We present oligoN-design, a simple, reproducible and versatile open-source tool to design specific primers and probes directly from large environmental DNA datasets.
🔗 DOI: doi.org/10.1101/2025...
👉 github.com/MiguelMSandi...
Reposted by Esteban Bustos-Caparros
Could rising antimicrobial activity in warmer soils make microbes less efficient at using carbon & push more CO₂ into the atmosphere?
🦠📈💊
Our new work in @isme-microbes.bsky.social explores how the combined effects of warming & AMR may alter microbial C processing
🧵👇
academic.oup.com/ismej/articl...
🦠📈💊
Our new work in @isme-microbes.bsky.social explores how the combined effects of warming & AMR may alter microbial C processing
🧵👇
academic.oup.com/ismej/articl...
Microbial interactions between climate warming and antimicrobial resistance threaten soil carbon storage and global health
Abstract. Anthropogenic activities are impacting the environment in ways that may intersect and have compounding effects. In soil, the spread of antibiotic
academic.oup.com
November 6, 2025 at 2:39 PM
Could rising antimicrobial activity in warmer soils make microbes less efficient at using carbon & push more CO₂ into the atmosphere?
🦠📈💊
Our new work in @isme-microbes.bsky.social explores how the combined effects of warming & AMR may alter microbial C processing
🧵👇
academic.oup.com/ismej/articl...
🦠📈💊
Our new work in @isme-microbes.bsky.social explores how the combined effects of warming & AMR may alter microbial C processing
🧵👇
academic.oup.com/ismej/articl...
Reposted by Esteban Bustos-Caparros
🚀 New in @natmicrobiol.nature.com
EMCG — droplet-based single-particle genomics method 🧬⚠️Sequencing marine microbes one by one — in nL of seawater!
Ultra-high resolution — no culture, no bulk averaging. A new way to see the invisible 🫥 🌊 rdcu.be/eOsUF #protistsonsky @bigelowlab.bsky.social
EMCG — droplet-based single-particle genomics method 🧬⚠️Sequencing marine microbes one by one — in nL of seawater!
Ultra-high resolution — no culture, no bulk averaging. A new way to see the invisible 🫥 🌊 rdcu.be/eOsUF #protistsonsky @bigelowlab.bsky.social
Single-particle genomics uncovers abundant non-canonical marine viruses from nanolitre volumes
Nature Microbiology - Environmental micro-compartment genomics provides efficient and high-throughput single-particle DNA sequencing that captures overlooked members of microbial communities.
rdcu.be
November 5, 2025 at 8:34 PM
🚀 New in @natmicrobiol.nature.com
EMCG — droplet-based single-particle genomics method 🧬⚠️Sequencing marine microbes one by one — in nL of seawater!
Ultra-high resolution — no culture, no bulk averaging. A new way to see the invisible 🫥 🌊 rdcu.be/eOsUF #protistsonsky @bigelowlab.bsky.social
EMCG — droplet-based single-particle genomics method 🧬⚠️Sequencing marine microbes one by one — in nL of seawater!
Ultra-high resolution — no culture, no bulk averaging. A new way to see the invisible 🫥 🌊 rdcu.be/eOsUF #protistsonsky @bigelowlab.bsky.social
Reposted by Esteban Bustos-Caparros
GcMeta - a new global resource of metagenome-assembled genomes and their encoded functions with an easy to use, interactive and searchable website academic.oup.com/nar/advance-...
gcMeta 2025: a global repository of metagenome-assembled genomes enabling cross-ecosystem microbial discovery and function research
Abstract. The rapid growth of metagenomic sequencing has generated an unprecedented wealth of metagenome-assembled genomes (MAGs), transforming opportuniti
academic.oup.com
November 3, 2025 at 9:01 AM
GcMeta - a new global resource of metagenome-assembled genomes and their encoded functions with an easy to use, interactive and searchable website academic.oup.com/nar/advance-...
Reposted by Esteban Bustos-Caparros
Ocean-M: an integrated global-scale multi-omics database for marine microbial diversity, function and ecological interactions academic.oup.com/nar/advance-... #jcampubs 🌊
Ocean-M: an integrated global-scale multi-omics database for marine microbial diversity, function and ecological interactions
Abstract. Multi-omics analyses have significantly advanced the understanding of complex marine microbial communities and their interactions. Despite notabl
academic.oup.com
November 1, 2025 at 7:35 AM
Ocean-M: an integrated global-scale multi-omics database for marine microbial diversity, function and ecological interactions academic.oup.com/nar/advance-... #jcampubs 🌊
Reposted by Esteban Bustos-Caparros
Great to see this finally published!
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Metalog: curated and harmonised contextual data for global metagenomics samples
Abstract. Metagenomic sequencing enables the in-depth study of microbes and their functions in humans, animals, and the environment. While sequencing data
academic.oup.com
October 31, 2025 at 3:16 PM
Great to see this finally published!
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Reposted by Esteban Bustos-Caparros
The average nucleotide identity (ANI) underpins how we map microbial diversity, compare species, and connect genomes to ecology.
I wrote a short piece reflecting on the discovery and significance of this metric (and really enjoyed digging into the context and story behind it!) #microsky 🧬
I wrote a short piece reflecting on the discovery and significance of this metric (and really enjoyed digging into the context and story behind it!) #microsky 🧬
Average nucleotide identity — the backbone of modern ecological genomics - Nature Reviews Genetics
In this Journal Club, Luis Orellana recalls a 2005 publication by Konstantinidis and Tiedje that introduced average nucleotide identity as a sequence-based metric to determine the relatedness between ...
www.nature.com
October 30, 2025 at 9:11 PM
The average nucleotide identity (ANI) underpins how we map microbial diversity, compare species, and connect genomes to ecology.
I wrote a short piece reflecting on the discovery and significance of this metric (and really enjoyed digging into the context and story behind it!) #microsky 🧬
I wrote a short piece reflecting on the discovery and significance of this metric (and really enjoyed digging into the context and story behind it!) #microsky 🧬
Reposted by Esteban Bustos-Caparros
🚨 Come and work with us 🦠🧪🖥️
Postdoc position with lots of freedom available in my group
- 1.5 years with options to extend
- work on ecogenomics and physiology of N/CH4-cyclers
- remote work possible 🤓
more info here: isme-microbes.org/postdoc-ecog...
#microbesky
Postdoc position with lots of freedom available in my group
- 1.5 years with options to extend
- work on ecogenomics and physiology of N/CH4-cyclers
- remote work possible 🤓
more info here: isme-microbes.org/postdoc-ecog...
#microbesky
Postdoc in ecogenomics and physiology of nitrifiers/methane-cyclers – ISME
isme-microbes.org
October 29, 2025 at 3:39 PM
🚨 Come and work with us 🦠🧪🖥️
Postdoc position with lots of freedom available in my group
- 1.5 years with options to extend
- work on ecogenomics and physiology of N/CH4-cyclers
- remote work possible 🤓
more info here: isme-microbes.org/postdoc-ecog...
#microbesky
Postdoc position with lots of freedom available in my group
- 1.5 years with options to extend
- work on ecogenomics and physiology of N/CH4-cyclers
- remote work possible 🤓
more info here: isme-microbes.org/postdoc-ecog...
#microbesky
Reposted by Esteban Bustos-Caparros
📣📣📣📣now open for applications!!
PhD available in my group to work on polar nitrogen fixation www.findaphd.com/phds/project...
Exploring new drivers for nitrogen fixation in polar oceans at University of Southampton on FindAPhD.com
PhD Project - Exploring new drivers for nitrogen fixation in polar oceans at University of Southampton, listed on FindAPhD.com
www.findaphd.com
October 24, 2025 at 4:49 AM
📣📣📣📣now open for applications!!
Reposted by Esteban Bustos-Caparros
So cool to see this one out!! www.nature.com/articles/s43...
@noc.ac.uk @biopole.bsky.social @ird-fr.bsky.social @mioceanologie.bsky.social
@noc.ac.uk @biopole.bsky.social @ird-fr.bsky.social @mioceanologie.bsky.social
Nitrogen fixation under declining Arctic sea ice - Communications Earth & Environment
Nitrogen fixation occurs under Arctic sea ice and is positively correlated with primary production, according to analyses of transects across the marginal ice zone and in the Central Arctic Ocean.
www.nature.com
October 24, 2025 at 4:35 AM
So cool to see this one out!! www.nature.com/articles/s43...
@noc.ac.uk @biopole.bsky.social @ird-fr.bsky.social @mioceanologie.bsky.social
@noc.ac.uk @biopole.bsky.social @ird-fr.bsky.social @mioceanologie.bsky.social
Reposted by Esteban Bustos-Caparros
NEW publication from our lab: One of the first methodologies (FUGAsseM) for gene function prediction from microbial community multi-omics data!
www.nature.com/articles/s41...
🧵⬇️
1/8
www.nature.com/articles/s41...
🧵⬇️
1/8
Predicting functions of uncharacterized gene products from microbial communities - Nature Biotechnology
FUGAsseM predicts protein function in microbiomes using coexpression patterns from metatranscriptomes and diverse community-wide data.
www.nature.com
October 23, 2025 at 6:53 PM
NEW publication from our lab: One of the first methodologies (FUGAsseM) for gene function prediction from microbial community multi-omics data!
www.nature.com/articles/s41...
🧵⬇️
1/8
www.nature.com/articles/s41...
🧵⬇️
1/8
Reposted by Esteban Bustos-Caparros
Amazing PhD opportunity at the University of Stirling! Don't miss this chance. Amazing supervisors (Arthur Broadbent and @jasubke.bsky.social ) and a strong collaboration team including Lindsay Newbold, @annekempel.bsky.social and myself :)
iapetus.ac.uk/studentships...
iapetus.ac.uk/studentships...
October 22, 2025 at 5:32 AM
Amazing PhD opportunity at the University of Stirling! Don't miss this chance. Amazing supervisors (Arthur Broadbent and @jasubke.bsky.social ) and a strong collaboration team including Lindsay Newbold, @annekempel.bsky.social and myself :)
iapetus.ac.uk/studentships...
iapetus.ac.uk/studentships...
Reposted by Esteban Bustos-Caparros
Our @narjournal.bsky.social manuscript is out! It explores the growth of the GTDB (gtdb.ecogenomic.org) since its inception, as well as updates to the website, methodology, policies, and major taxonomic and nomenclatural changes over the past three years.
academic.oup.com/nar/advance-...
academic.oup.com/nar/advance-...
GTDB release 10: a complete and systematic taxonomy for 715 230 bacterial and 17 245 archaeal genomes
Abstract. The Genome Taxonomy Database (GTDB; https://gtdb.ecogenomic.org) provides a phylogenetically consistent and rank normalized genome-based taxonomy
academic.oup.com
October 22, 2025 at 2:20 PM
Our @narjournal.bsky.social manuscript is out! It explores the growth of the GTDB (gtdb.ecogenomic.org) since its inception, as well as updates to the website, methodology, policies, and major taxonomic and nomenclatural changes over the past three years.
academic.oup.com/nar/advance-...
academic.oup.com/nar/advance-...
Reposted by Esteban Bustos-Caparros
📣Postdoc opportunity @nordcee.bsky.social , University of Southern Denmark! 📣
Join us and work with Bo Thamdrup and me on microbial dark oxygen production in marine oxygen minimum zones!
Please share widely!
Deadline: 17 November
More information can be found here:
tinyurl.com/2vuur3wh
Join us and work with Bo Thamdrup and me on microbial dark oxygen production in marine oxygen minimum zones!
Please share widely!
Deadline: 17 November
More information can be found here:
tinyurl.com/2vuur3wh
Postdoc on microbial oxygen production in marine oxygen minimum zones
Application deadline: 17 November 2025 at 23:59 hours local Danish time
fa-eosd-saasfaprod1.fa.ocs.oraclecloud.com
October 22, 2025 at 9:18 AM
📣Postdoc opportunity @nordcee.bsky.social , University of Southern Denmark! 📣
Join us and work with Bo Thamdrup and me on microbial dark oxygen production in marine oxygen minimum zones!
Please share widely!
Deadline: 17 November
More information can be found here:
tinyurl.com/2vuur3wh
Join us and work with Bo Thamdrup and me on microbial dark oxygen production in marine oxygen minimum zones!
Please share widely!
Deadline: 17 November
More information can be found here:
tinyurl.com/2vuur3wh
Reposted by Esteban Bustos-Caparros
Postdoc vacancy: Microbial dormancy in the cryosphere
@erc.europa.eu #ERC_SIESTA
📢 PLEASE RT
🧬 Single cell microbial activity measurements, flow cytometry, cell sorting, omics, ecological interpretation
☀️ Marseille, France
‼️ Apply ASAP & before 7 Nov
Link: emploi.cnrs.fr/Offres/CDD/U...
@erc.europa.eu #ERC_SIESTA
📢 PLEASE RT
🧬 Single cell microbial activity measurements, flow cytometry, cell sorting, omics, ecological interpretation
☀️ Marseille, France
‼️ Apply ASAP & before 7 Nov
Link: emploi.cnrs.fr/Offres/CDD/U...
October 21, 2025 at 3:48 PM
Postdoc vacancy: Microbial dormancy in the cryosphere
@erc.europa.eu #ERC_SIESTA
📢 PLEASE RT
🧬 Single cell microbial activity measurements, flow cytometry, cell sorting, omics, ecological interpretation
☀️ Marseille, France
‼️ Apply ASAP & before 7 Nov
Link: emploi.cnrs.fr/Offres/CDD/U...
@erc.europa.eu #ERC_SIESTA
📢 PLEASE RT
🧬 Single cell microbial activity measurements, flow cytometry, cell sorting, omics, ecological interpretation
☀️ Marseille, France
‼️ Apply ASAP & before 7 Nov
Link: emploi.cnrs.fr/Offres/CDD/U...
Reposted by Esteban Bustos-Caparros
OUT NOW Activity-targeted metaproteomics uncovers rare syntrophic bacteria central to anaerobic community metabolism by @ryanziels.bsky.social www.nature.com/articles/s41...
Activity-targeted metaproteomics uncovers rare syntrophic bacteria central to anaerobic community metabolism - Nature Microbiology
An approach combining BONCAT, stable isotope probing and metaproteomics showcases the hidden metabolic interconnectivity of microorganisms within an anaerobic digestion community.
www.nature.com
October 21, 2025 at 1:38 PM
OUT NOW Activity-targeted metaproteomics uncovers rare syntrophic bacteria central to anaerobic community metabolism by @ryanziels.bsky.social www.nature.com/articles/s41...
Reposted by Esteban Bustos-Caparros
a PHYLOCLINE! love the concept www.science.org/doi/10.1126/...
again, remember looking at physics when you try to understand how microbial communities are structured in the ocean
again, remember looking at physics when you try to understand how microbial communities are structured in the ocean
Overturning circulation structures the microbial functional seascape of the South Pacific
Global overturning circulation partitions the deep ocean into regions, each with different physicochemical characteristics, but the extent to which these water masses represent distinct ecosystems rem...
www.science.org
October 21, 2025 at 10:12 AM
a PHYLOCLINE! love the concept www.science.org/doi/10.1126/...
again, remember looking at physics when you try to understand how microbial communities are structured in the ocean
again, remember looking at physics when you try to understand how microbial communities are structured in the ocean
Reposted by Esteban Bustos-Caparros
