@GeoMicroSoares

🇵🇹 Staff scientist at the @ProbstLab @unidue doing all kinds of fun science! Once did a PhD at #faberystwyth 🏴󠁧󠁢󠁷󠁬󠁳󠁿

 Essen, Germany
github.com/GeoMicroSoares
Joined August 2015
  • Tweets2.6K
  • Following4.4K
  • Followers1.7K
110Media
Our preprint on fair reuse of public microbiome data is out as of yesterday on @biorxivpreprint! 🔥 Check it out here: shorturl.at/7uRkM We (@AlexJProbst, @FolkerMeyer, @LAHug_, @environmicrobio, @CristinaMorar20 & Anke Heyder) crucially thank the Data Reuse Consortium!!
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Improving metagenome binning by integrating intrinsic features and taxonomy | Nature Biotechnology nature.com/articles/s41587-0…

Improving metagenome binning by integrating intrinsic features and taxonomy

Nature Biotechnology - TaxVAMB combines sequence features with taxonomic information for improved metagenome binning.

nature.com
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Jonathan Eisen
@phylogenomicsApr 3
Colleague is looking for input on reducing library prep costs for metagenomic sequencing using Illumina DNA Prep kit. They ask "Has anyone successfully reduced library prep volumes without introducing bias? If so, how much reduction worked for you?"
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Ruiwen Hu, PhD@MicrobeCookieMar 25
Phages drive the dissemination of antibiotic resistance genes by facilitating host adaptation to heavy metal stress | PNAS pnas.org/doi/10.1073/pnas.25…

Phages drive the dissemination of antibiotic resistance genes by facilitating host adaptation to...

Heavy metals are increasingly recognized as major drivers of antibiotic resistance gene (ARG) dissemination in soil ecosystems. However, the role o...

pnas.org
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Cameron Thrash@jcamthrashFeb 4
Accurate plasmid reconstruction from metagenomics data using assembly–alignment graphs and contrastive learning nature.com/articles/s41587-0…

Accurate plasmid reconstruction from metagenomics data using assembly–alignment graphs and contra...

Nature Biotechnology - PlasMAAG uses cross-sample information to improve plasmid reconstruction from metagenomic samples.

nature.com
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Single-molecule identification of full-length proteins with single-amino-acid resolution using nanopores biorxiv.org/content/10.64898…

Single-molecule identification of full-length proteins with single-amino-acid resolution using...

Nanopore-based technologies show promise in single-molecule protein sequencing. By using an unfoldase and a nanopore with enhanced electroosmotic flow, here we show the continuous identification of...

biorxiv.org
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Cameron Thrash@jcamthrash19 Aug 2025
Functional genomic signatures predict microbial culturability across the tree of life @USC_MEB @USC_earth biorxiv.org/content/10.1101/…

Functional genomic signatures predict microbial culturability across the tree of life

Most microbial taxa on Earth remain uncultivated, limiting our ability to study their physiology, ecology, and roles in environmental processes. Although metagenome-assembled genomes (MAGs) have...

biorxiv.org
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Stephen Turner@strnr18 Aug 2025
Eukan: a fully automated nuclear genome annotation pipeline for less studied and divergent eukaryotes biorxiv.org/content/10.1101/… 🧬🖥️🧪 github.com/BFL-lab/eukan
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New review out in Annual Review of Marine Science! 🌊🧫 We explore how ammonia-oxidising microbes form symbioses with marine hosts - fueling the nitrogen cycle, fixing carbon, and possibly feeding their hosts. #Metagenomics 🧪 #Bioinformatics 🧬💻 doi.org/10.1146/annurev-mari…

Symbiotic Ammonia Oxidation in the Marine Environment

Ammonia oxidation is a fundamental step in the marine nitrogen cycle, catalyzing the conversion of ammonia to nitrite or nitric oxide and generating reductive power for the autotrophic growth of...

annualreviews.org
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Chris Seymour
@iiSeymour31 Jul 2025
Big performance upgrade in Dorado v1.1.0 with up to 30% increase in throughput for HAC models on Ampere, Ada, and Blackwell (single RTX 5090 > 1Tbase / day)! github.com/nanoporetech/dora…

Release v1.1.0 · nanoporetech/dorado

[1.1.0] (31 July 2025) This Dorado release introduces up to 30% basecalling speed increase for the HAC model on a wide range of Nvidia GPUs including Blackwell, Ada and Ampere. Changes have been in...

github.com
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🧬 Interested in aquatic micro, nutrient cycling, river-ocean interfaces I’m seeking a postdoc candidate to apply w/ me for the 2026 Walder Biota Fellowship ($70k+/yr 2 yrs, $20k/yr research). Details: More info 👉 biotaawards.org/2026-applica… Our Lab 👉 theaquaticmicrobiologylab.co…

2026 Application — Biota Awards

biotaawards.org
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🚨🚨New paper out!!! Come for the first large-scale analysis of plasmid copy number across species, stay for one of the most intriguing results of my lab: universal scaling laws in plasmid biology! 📈🧬 👉nature.com/articles/s41467-0…

Universal rules govern plasmid copy number

Nature Communications - Plasmids exhibit a broad range of sizes and copies per cell, and these two parameters appear to be negatively correlated. Here, Ramiro-Martínez et al. analyse the copy...

nature.com
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Hey y'all, I may be unemployed starting from October. If you have any leads on biotech / postdoc positions in the German-speaking part of Switzerland, I'd greatly appreciate a message. I'm great with Data Analysis, Molecular Biology, and Teaching. (Plz RT) timothyfuqua.com

Home | Timothy Fuqua

timothyfuqua.com
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Cameron Thrash@jcamthrash20 Jun 2025
Defining ultra-slow-growing extremophilic microorganisms as aeonophiles @USC_earth @USC_MEB nature.com/articles/s41564-0…
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Robert Quinn@Quinn_Labs19 Jun 2025
Spread the news!! I am organizing a new #Microbiome conference organized by @MicrobioSoc in Miami, FL 18-20 Feb, 2026. 'Microbes in Microbiomes' will merge the classic microbiology from the last century and modern microbiome science. Spread the word!! microbiologysociety.org/even…

Microbes in Microbiomes

microbiologysociety.org
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‼️I'm looking for postdoc‼️Join effort using metagenomes to quantify microbial catabolic potential and carbon substrate availability at the ecosystem level. We seek to understand evolutionary forces shaping the C cycle. Part of ccomp-stc.org careers.peopleclick.com/care…
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Cameron Thrash@jcamthrash13 Jun 2025
A new nitrogen biochemical process: Oxidization of ammonium into nitrogen gas using nitrate biorxiv.org/content/10.1101/…

A new nitrogen biochemical process: Oxidization of ammonium into nitrogen gas using nitrate

The nitrifying bacteria oxidize ammonium into nitrite or nitrate under aerobic conditions, while the anaerobic ammonia-oxidizing bacteria utilize nitrite to oxidize ammonium into nitrogen gas under...

biorxiv.org
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BioAI hit a data wall 🧱BaseData tries to shatter it 💥 9.8 B 🧬 protein sequences + >1 M 🦠 unseen species, gathered with enforceable benefit-sharing 🤝, expand known diversity >10× 🌍 Next-gen bio-FMs just got rocket fuel 🚀
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We have a 3-year postdoc position in our group at the HIFMB to study plasmids and plasmids systems of the marine environment to survey their utility in microbial responses to environmental change. Please see the official job ad here and spread the word: jobs.awi.de/Vacancies/2002/D…
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Cameron Thrash@jcamthrash4 Jun 2025
Differential Expression of Core Metabolic Functions in Candidatus Altiarchaeum Inhabiting Distinct Subsurface Ecosystems enviromicro-journals.onlinel…

Differential Expression of Core Metabolic Functions in Candidatus Altiarchaeum Inhabiting Distinct...

Major differences between Candidatus Altiarchaeum species living in two distinct subsurface ecosystems as determined via metatranscriptomics. Genes overly expressed in different Ca. Altiarchaea in...

enviromicro-journals.onlinelibrary.wiley.com
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Cameron Thrash@jcamthrash2 Jun 2025
Enhancing genome recovery across metagenomic samples using MAGmax biorxiv.org/content/10.1101/…

Enhancing genome recovery across metagenomic samples using MAGmax

Summary The number of metagenome-assembled genomes (MAGs) is rapidly increasing with the growing scale of metagenomic studies, driving fast progress in microbiome research. Sample-wise assembly has...

biorxiv.org
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