Exploring the human small intestinal luminal microbiome via a newly developed ingestible sampling device Abstract. Because accessing the small intestine is technically challenging, studies of the small intestinal microbiome are predominantly conducted in patie

Exploring the human small intestinal luminal microbiome via a newly developed ingestible sampling device url: academic.oup.com/ismecommun/a....
I am proud to have contributed to this work with Alexandre Tronel, Thomas Soranzo (Pelican Health), @alegouellec.bsky.social + all other co-authors.

New article on equitable reuse of public sequencing data, published in @natmicrobiol.nature.com!
Led by the Data reuse core team @lhug.bsky.social @environmicrobio.bsky.social Cristina Moraru, @geomicrosoares.bsky.social, @folker.bsky.social and with Anke Heyer and The Data Reuse Consotrium!

The role of mobile genetic elements in adaptation of the microbiota to the dynamic human gut ecosystem

#CurrOpinMicrobiol from @lgbacteria.bsky.social

www.sciencedirect.com/science/arti...

Phylosymbiosis between primates and their gut mycobiomes. Top left: Sample-wise mycobiome composition for each host species. The most abundant fungal genera and classes (Sordariomycetes, Saccharomycetes, and Dothiomycetes) are shown in colored bars, where the lightest color in the gradient designates the sum of all other genera in that fungal class. Light gray shows all other less abundant fungal genera. Top right: Primate phylogeny (left; scale bar shows MYA) and fungal Bray–Curtis beta diversity relationships based on 99% OTUs and aggregated by host species (right; shown with bootstrap support for branch placement and scale bar for relative branch lengths). Bottom: Cophylogenetic fungi with time-calibrated sequence divergences match hominid divergence times. Nucleotide sequence divergence of cophylogenetic fungi was calibrated to the Homo-Pan split (6 Ma), which was then used to estimate the Homo/Pan-G. gorilla split (7.1–9.2 Ma), shown with fungal icons. Estimated speciation times fall within the expected 7.1–9.2 Ma (dark orange) or 6–10 Ma (light orange)

#Fungi in the gut #microbiome ( #mycobiome) are somewhat neglected. This study of gut fungal profiles across natural populations of humans & non-human primates, by @symbionticism.bsky.social &co, reveals significant fungal cospeciation patterns in #hominids @plosbiology.org 🧪 plos.io/46LX4zD

Microbial risks triggered by oral administration of antibiotics in fish aquaculture persist long after the legally mandated antibiotic withdrawal time - Nature Water Florfenicol treatment substantially increased the abundance and mobility of antibiotic resistance genes (ARGs) in the common carp gut microbiome. The resistome and mobilome profiles failed to return t...

🐟💊🦠Our new study in @natwater.nature.com 🐟💊🦠

"Microbial risks triggered by oral administration of antibiotics in fish aquaculture persist long after the legally mandated antibiotic withdrawal time"

www.nature.com/articles/s44...

#microsky #amr
1/8

Mutations in the circadian cycle drive adaptive plasticity in cyanobacteria | PNAS Circadian clocks allow organisms to anticipate daily fluctuations in light and temperature, but how this anticipatory role promotes adaptation to d...

I am so proud to be part of this work, that we initiated Fernando de la Cruz and I, when he was on sabbatical in my lab in 2009... it took so much time for this achievement, 1000 thanks to Raúl Fernández-López! this brought me back to my PhD on cyanobacteria genetics. www.pnas.org/doi/10.1073/...

Phages with a broad host range are common across ecosystems - Nature Microbiology Proximity-ligation-based sequencing from 111 samples and 5 environments reveals that a substantial proportion of phages infect multiple species.

You like phages ? In this publication, we use metaHiC and our new version of the MetaTOR pipeline to challenge the traditional view of phages with a narrow host range.
@rkoszul.bsky.social @natmicrobiol.nature.com @cnrs.fr @institutpasteur.bsky.social

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

Exclusion systems preserve host cell homeostasis and fitness, ensuring successful dissemination of conjugative plasmids and associated resistance genes Abstract. Plasmid conjugation is a major driver of antibiotic resistance dissemination in bacteria. In addition to genes required for transfer and maintena

Exclusion systems, far from slowing down plasmid spread, are in fact essential to preserve host cell viability and thereby ensure the successful dissemination of conjugative plasmids and antibiotic resistance genes.

@nfrk92.bsky.social
@narjournal.bsky.social

academic.oup.com/nar/article/...

Towards the integration of antibiotic resistance gene mobility into environmental surveillance and risk assessment - npj Antimicrobials and Resistance npj Antimicrobials and Resistance - Towards the integration of antibiotic resistance gene mobility into environmental surveillance and risk assessment

Excited to share our new Perspective in npj Antimicrobials & Resistance:

"Towards the integration of antibiotic resistance gene mobility into environmental surveillance and risk assessment.”

www.nature.com/articles/s44...

1/3

#AMR #microsky

Iron-respiring microbes could have a role in sulfur cycling A species of bacteria grows when both ferrihydrite and sulfide are present, but not when either is absent.

Nice summary from Songcan & Marc 🙏 on our discovery of a new microbial energy metabolism 🦠 🧫 ⚡ 🔌

Microbial Iron oxide respiration coupled to Sulfide Oxidation (MISO)

@nature.com Research Briefing 😍 doi.org/10.1038/d415...

📰 Original paper www.nature.com/articles/s41...

#microsky #microbiomesky

Efficient sequence alignment against millions of prokaryotic genomes with LexicMap - Nature Biotechnology LexicMap uses a fixed set of probes to efficiently query gene sequences for fast and low-memory alignment.

Sometimes you meet absolutely incredible bioinfo-magicians.
It was a huge privilege when @shenwei356.bsky.social
joined our group for a year on an @embl.org sabbatical.
While here, he developed a new way of aligning to
millions of bacteria, called LexicMap 1/n
www.nature.com/articles/s41...

The hospital sink drain microbiome as a melting pot for AMR transmission to nosocomial pathogens - npj Antimicrobials and Resistance npj Antimicrobials and Resistance - The hospital sink drain microbiome as a melting pot for AMR transmission to nosocomial pathogens

Delighted to have this review out with @jpjhall.bsky.social!

We discuss the risk of transmission of antimicrobial resistance in the hospital sink drain microbiome, highlight studies providing evidence of transfer, and consider strategies to mitigate these risks 🪠🦠

doi.org/10.1038/s442...

The hospital sink drain biofilm resistome is independent of the corresponding microbiota, the environment and disinfection measures In hospitals, the transmission of antibiotic-resistant bacteria (ARB) may occur via biofilms present in sink drains, which can lead to infections. Des…

Very excited to share our study published in Water Research: " The hospital sink drain biofilm resistome is independent of the corresponding microbiota, the environment and disinfection measures." Great collaborative effort @TIMC @chugrenoblealpes.bsky.social www.sciencedirect.com/science/arti...

Changing climate and socioeconomic factors contribute to global antimicrobial resistance - Nature Medicine Forecast models of bacterial antimicrobial resistance (AMR) surveillance records from 101 countries reveal that the global burden of AMR is associated with the impact of climate change intertwined wit...

Climate change is projected to worsen #AMR in LMICs, due to poor healthcare infrastructure and environmental vulnerability. Development strategies (improving sanitation, healthcare access, immunization) are more effective combating AMR than reducing antibiotic use.

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

Our paper on how integrons are biobanks of novel minimal defense systems is now out www.science.org/doi/10.1126/... Two main conclusions on this excellent work led by @eloilittner.bsky.social @baptistedarracq.bsky.social 1/n

I invite you to read our Preprint and learn about our unique analysis approach and insights on the microbiome of healthy individuals by combining targeted and semi targeted metabolomics, microbiota characterisation and cultoromics analysis. A. Tronel; T. Soranzo @alegouellec.bsky.social and team!

Profiling the human luminal small intestinal microbiome using a novel ingestible medical device The invasive nature of sample collection for studying the small intestinal (SI) microbiome often results in its poor characterization. This study evaluated a novel ingestible medical device (MD) for S...

I am very proud to have played an important role in this exciting collaboration: I am very excited to share this fantastic Preprint from Pelican Health about their revolutionary ingestible sampling device to collect samples from the human luminal small intestine.
www.medrxiv.org/content/10.1...

Profiling the human luminal small intestinal microbiome using a novel… | Elena Buelow I am very excited to share this fantastic Preprint from Pelican Health about their revolutionary ingestible sampling device to collect samples from the human luminal small intestine. I invite you to ...

www.linkedin.com/posts/elena-...

Very much needed and relevant!

Genomic epidemiology and phylodynamics of Acinetobacter baumannii bloodstream isolates in China - Nature Communications The genomic epidemiology of Acinetobacter baumannii, which is rising in virulence and multidrug resistance, was explored. This study examined bloodstream infection isolates from Chinese patients in 20...

Interesting paper

Genomic epidemiology and phylodynamics of Acinetobacter baumannii bloodstream isolates in China

'A. baumannii is evolving from a low-virulence, multidrug-resistant pathogen to a more virulent one'

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

Our new paper out in STOTEN:

Plastic-mediated transformation: A new route to navigate plasmid-borne antibiotic resistance genes

led by Ifra Ferheen & Roberto Spurio

doi.org/10.1016/j.sc...
#amr

OCEAN WITH DAVID ATTENBOROUGH | OFFICIAL TRAILER | GLOBAL CINEMA EVENT FROM MAY 8 | Altitude Films YouTube video by Altitude Films

Just got my tickets 🎦
youtu.be/cIZAdCtKT_g

We are hiring! - Please share

We have an open postdoc or PhD position in aquatic ecology with a research focus on fish ecology and the application of molecular tools in ecological research.

Join us at @tudresden.bsky.social Institute for Hydrobiology

www.verw.tu-dresden.de/StellAus/ste...

New paper from Gerry Wright and colleagues just landed.

New antibiotic that kills drug-resistant bacteria discovered in technician’s garden The molecule targets bacteria in a way that other drugs don’t.

New antibiotic that kills drug-resistant bacteria discovered in technician’s garden www.nature.com/articles/d41...

Release of extracellular DNA by Pseudomonas sp. as a major determinant for biofilm switching and an early indicator for cell population control Biological sciences; Microbiology; Microbiofilms

Release of extracellular DNA by Pseudomonas sp. as a major determinant for biofilm switching and an early indicator for cell population control

@cp-iscience.bsky.social from Frank Delvigne

www.cell.com/iscience/ful...

Plasmid conjugation drives within–patient plasmid diversity Plasmids are well-known vehicles of antimicrobial resistance (AMR) gene dissemination. Through conjugation, plasmid-encoded AMR genes are spread among neighbouring bacteria, irrespective of their stra...

... and finally the paper is out on microbial genomics!

www.microbiologyresearch.org/content/jour...

THIS IS HUGE! Researchers at Stanford University have developed a dual-antibody treatment that remains effective against ALL SARS-CoV-2 variants by targeting a less-mutable part of the virus. This breakthrough could lead to longer-lasting therapies that OUTPACE viral evolution. 🧪🧵⬇️

Can a microbial community become an evolutionary individual? Microbial communities provide crucial services for human well-being, driving an interest in designing and controlling them towards optimised or novel …

Can a microbial community become an evolutionary individual?

#CurrOpinMicrobiol by @salazarafra.bsky.social and @saramitri.bsky.social

www.sciencedirect.com/science/arti...

Mass lysis of predatory bacteria drives the enrichment of antibiotic resistance in soil microbial communities Saha et al. show that the predatory bacterium M. xanthus enriches the frequency of antibiotic-resistant bacteria in soil communities. This occurs because starvation-induced mass lysis of M. xanthus ce...

Nice to see how this project developed through the years & published in @currentbiology.bsky.social by Saheli Saha et al from @iamsamayp.bsky.social group 👏

Mass lysis of predatory bacteria drives the enrichment of antibiotic resistance in soil microbial communities

www.cell.com/current-biol...