Andrea Quagliariello
@microquaglia.bsky.social
📤 66
📥 283
📝 4
reposted by
Andrea Quagliariello
Vivek Mutalik
7 days ago
#microsky
add a skeleton here at some point
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Andrea Quagliariello
SPAAM
7 days ago
This new study takes a closer look at eukaryotic reference genomes. 🧬 By mapping microbial-like regions across thousands of plant & animal assemblies, it helps make ancient eDNA analyses more accurate.
#MetagenomicsMonday
#SPAAM
#aDNA
#metagenomics
#eDNA
doi.org/10.1093/giga...
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Improving taxonomic inference from ancient environmental metagenomes by masking microbial-like regions in reference genomes
Abstract. Ancient environmental DNA is increasingly vital for reconstructing past ecosystems, particularly when paleontological and archaeological tissue r
https://doi.org/10.1093/gigascience/giaf108
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Andrea Quagliariello
Cell Press
23 days ago
DNA from Napoleon’s 1812 army identifies the pathogens likely responsible for the army’s demise during their Russian retreat.
www.cell.com/current-biol...
Nicolás Rascovan & colleagues
@currentbiology.bsky.social
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Andrea Quagliariello
The Microbiota Vault
about 2 months ago
A new Species Survival Commission (SSC) has been established by the International Union for Conversation of Nature (IUCN). Microbiota Vault collaborators are among the founding members:
doi.org/10.1038/s415...
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Launching the IUCN Microbial Conservation Specialist Group as a global safeguard for microbial biodiversity - Nature Microbiology
Nature Microbiology - Launching the IUCN Microbial Conservation Specialist Group as a global safeguard for microbial biodiversity
https://doi.org/10.1038/s41564-025-02113-5
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Andrea Quagliariello
SPAAM
about 2 months ago
What lived in Arctic Norway ~80,000 years ago? ❄️🦌 Ancient sediments from a cave reveal 46 taxa of mammals, birds & fish — a unique cold-adapted coastal ecosystem.
#MetagenomicsMonday
#SPAAM
#aDNA
doi.org/10.1073/pnas...
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A 75,000-y-old Scandinavian Arctic cave deposit reveals past faunal diversity and paleoenvironment | PNAS
During the last glacial period (~118 to 11.7 ka), the Arctic has been characterized by a major redistribution of flora and fauna as a consequence o...
https://doi.org/10.1073/pnas.2415008122
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For those engaged in studies on the hologenome and its relevance to One Health
www.alocongress.com/pangenome2025
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PANGENOME2025
The biology of prokaryotic cells is directly dependent on the differential gene pools that characterize each cell or strain. This has been a fundamental aspect of epidemiology for delimiting outbreaks...
https://www.alocongress.com/pangenome2025
2 months ago
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Andrea Quagliariello
Katerina Guschanski
2 months ago
In the now published study
doi.org/10.1111/1755...
,
@markella-morait.bsky.social
shows just how widespread dental calculus is and how to make to work for your favourite
#mammal
.
#metagenomics
#aDNA
#museums
add a skeleton here at some point
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Andrea Quagliariello
SPAAM
2 months ago
#MetagenomicsMonday
A new study shares 174 archaeological dental calculus metagenomes from across the UK, spanning multiple periods. With rich metadata and rigorous quality control, the dataset opens new doors to exploring ancient microbiome through time.
doi.org/10.1016/j.di...
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An extensive archaeological dental calculus dataset spanning 5000 years for ancient human oral microbiome research
Archaeological dental calculus can provide detailed insights into the ancient human oral microbiome. We offer a multi-period, multi-site, ancient shot…
https://doi.org/10.1016/j.dib.2025.111770
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Andrea Quagliariello
Gretchen Goldman, PhD
3 months ago
My new
@science.org
editorial on the role of scientists in defending democracy is out today. As authoritarianism takes hold in the US, we must fight for the democratic principles that enable a free society and scientists have a key role. I hope you'll join us.
www.science.org/doi/10.1126/...
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Scientists’ role in defending democracy
The United States’ democratic leadership, commitment to freedom of expression, and investment in the pursuit of knowledge have long enabled its preeminence in science and technology. Yet today we are ...
https://www.science.org/doi/10.1126/science.aea9328
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reposted by
Andrea Quagliariello
Waggoner Lab
3 months ago
Perspective
@natcomms.nature.com
A reconceptualized framework for human microbiome transmission in early life
www.nature.com/articles/s41...
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I strongly recommend considering this opportunity to work with a great scientist and friend in an exceptional place.
add a skeleton here at some point
4 months ago
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Andrea Quagliariello
Microbes.Info
5 months ago
Detailed atlas reveals how
#pesticides
affect gut
#bacteria
and hints at
#probiotic
interventions ... |
#toxic
|
#microbes
|
#chemicals
|
#inflammation
| Via
@sciencex.bsky.social
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Detailed atlas reveals how pesticides affect gut bacteria and hints at probiotic interventions
While emerging evidence suggests pesticides can be toxic to the mix of microorganisms in the digestive system, a new study is the first to map changes to specific gut bacteria based on interactions between...
https://medicalxpress.com/news/2025-06-atlas-reveals-pesticides-affect-gut.html
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Andrea Quagliariello
Nature Communications
5 months ago
The Microbiota Vault Initiative: Safeguarding Earth's microbial heritage for future generations #Microbiomes4Life @gilbertjacka.bsky.social
https://bit.ly/4kifmvX
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reposted by
Andrea Quagliariello
Cell Host & Microbe
5 months ago
Single-tooth prediction of childhood caries: • Dental plaque microbiota patterns in children are predictive of tooth-specific caries development. • Spatial-MiC model, integrating microbial and spatial data, improves caries forecasting with 93% accuracy
www.cell.com/cell-host-mi...
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Andrea Quagliariello
Segata Lab
6 months ago
Let us introduce a new subspecies: ✨Catenibacterium mitsuokai subsp. tridentinum✨ Plus, we also propose a taxonomic reclassification of publicly available reference genomes belonging to the C. mitsuokai sp. More details ⬇️
www.microbiologyresearch.org/content/jour...
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Description of Catenibacterium mitsuokai subsp. tridentinum subsp. nov., an anaerobic bacterium isolated from human faeces, and emended description of C. mitsuokai
A recent metagenomic survey has revealed an unknown bacterial clade within the Catenibacterium mitsuokai species to be significantly more prevalent in non-urbanized populations, compared to urbanized ...
https://www.microbiologyresearch.org/content/journal/ijsem/10.1099/ijsem.0.006798
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6 months ago
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Andrea Quagliariello
Microbiology Society
6 months ago
The UK Health Security Agency has released an updated antimicrobial stewardship tool to guide healthcare professionals in prescribing the most appropriate antimicrobial to patients to preserve antimicrobial efficacy. Find out more
microb.io/452uTvL
👈
#KnockingOutAMR
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Antibiotic 'Access' list updated for the UK
UKHSA has published an updated antimicrobial stewardship tool
https://microb.io/452uTvL
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reposted by
Andrea Quagliariello
Nature Communications
6 months ago
Genetic compatibility and environmental co-occurrence drive the dissemination of
#AntibioticResistance
genes Co-occurrence of bacteria in the human
#microbiome
and
#wastewater
contributes to gene transfer
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Genetic compatibility and ecological connectivity drive the dissemination of antibiotic resistance genes - Nature Communications
The dynamics of antimicrobial resistance gene transfer remain unclear. Here, by integrating bacterial genome and metagenome data with machine learning the authors show that genetic incompatibility is a main limiting factor, while co-occurrence of bacteria in the human microbiome and wastewater contributes to gene transfer.
https://bit.ly/4mwKM43
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reposted by
Andrea Quagliariello
Nature Reviews Microbiology
6 months ago
New online! A gut fungus protects the liver
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A gut fungus protects the liver
Nature Reviews Microbiology, Published online: 21 May 2025; doi:10.1038/s41579-025-01194-7This study reports that that a gut fungus produces a secondary metabolite that protects against metabolic disease in mice.
https://www.nature.com/articles/s41579-025-01194-7?utm_source=bluesky&utm_medium=social&utm_campaign=nrmicro
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reposted by
Andrea Quagliariello
Microbiology Society
6 months ago
Save the date! Understanding and Predicting Microbial Evolutionary Dynamics 2025 will be held on 26-27 November in Liverpool:
microb.io/MicroEvo25
#MicroEvo25
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Understanding and predicting microbial evolutionary dynamics - 2025 meeting
26 - 27 November 2025 - Liverpool, UK
https://microb.io/MicroEvo25
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Andrea Quagliariello
ASM
7 months ago
Did you know gut bacteria make vitamins? 🦠💊In
#MMBR
, discover mechanisms of microbiota vitamin biosynthesis, how interactions between microbiota members contribute to vitamin production, the role of diet and more. Read the review:
asm.social/2mF
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Andrea Quagliariello
Physalia-courses@Online
7 months ago
🚨 Machine learning for multi-omics integration course with
@oskolkov.bsky.social
This course covers key ML methods for integrating multi-omics data. Participants will learn how to apply supervised, unsupervised, and ML techniques to biological datasets.
www.physalia-courses.org/courses-work...
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Machine Learning for Multi-Omics Integration
9-11 June 2025 To foster international participation, this course will be held online
https://www.physalia-courses.org/courses-workshops/multiomics/
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Andrea Quagliariello
Nikolay Oskolkov
7 months ago
If you use Kraken for profiling microbial / environmental / ancient metagenomic data, please check this preprint where I benchmark filtering strategies of Kraken outputs on simulated microbial and environmental metagenomic samples, and provide recommendations for optimal filtering thresholds
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Andrea Quagliariello
Nature Microbiology
7 months ago
Now online! 🖥️🧬🦠 A computational framework to integrate microbial GWAS and single-cell RNA-sequencing profiles of 24 human organs reveals interactions between the host cells and microbes
#MicroSky
www.nature.com/articles/s41...
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Integrating microbial GWAS and single-cell transcriptomics reveals associations between host cell populations and the gut microbiome - Nature Microbiology
A computational framework to integrate microbial GWAS and single-cell RNA-sequencing profiles of 24 human organs reveals interactions between the host cells and microbes.
https://www.nature.com/articles/s41564-025-01978-w?utm_source=bluesky&utm_medium=social&utm_campaign=nmicrobiol
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reposted by
Andrea Quagliariello
Feargal Ryan
8 months ago
Delighted our study (7+ years in the making) is out today in Nature. In a nutshell, 48 hours of antibiotics in week 1 led to impaired vaccine responses up to 15 months later in infants. We show (in-vivo) a probiotic can fix it
#microbiome
#science
#immunology
www.nature.com/articles/s41...
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Bifidobacteria support optimal infant vaccine responses - Nature
Neonatal antibiotic use is shown to reduce immune response to infant vaccines, accompanied by reduced abundance of Bifidobacteria in the gut microbiota, with experiments in mice indicating that probio...
https://www.nature.com/articles/s41586-025-08796-4
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Andrea Quagliariello
Gut Microbiota for Health
8 months ago
Microbiome data analysis faces methodological challenges from design to execution of studies Scientists provide guidance on best practices of statistical analyses in microbiome studies
@naturemicrobiol.bsky.social
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Planning and describing a microbiome data analysis - Nature Microbiology
We provide guidance on the planning, execution and description of statistical analyses in microbiome studies.
https://www.nature.com/articles/s41564-025-01944-6
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www.nature.com/articles/d41...
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New antibiotic that kills drug-resistant bacteria discovered in technician’s garden
The molecule targets bacteria in a way that other drugs don’t.
https://www.nature.com/articles/d41586-025-00945-z
8 months ago
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Andrea Quagliariello
Kelly Zamudio
8 months ago
On why racial and other affinity groups are so important! "The current political climate is tremendously hostile for BIPOC scientists. Affinity groups provide solace and a loving community, but the burden of resistance cannot fall on the most marginalized."
www.science.org/doi/10.1126/...
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Protect US racial affinity groups
On its first day, the Trump administration released several executive orders terminating diversity, equity, and inclusion (DEI) programs, calling them “illegal,” “immoral,” and “discriminatory” (1, 2)...
https://www.science.org/doi/10.1126/science.adq4733
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Andrea Quagliariello
Microbiome Virtual International Forum
8 months ago
Our guest moderator 🇮🇹 Fabiana Canini introduced
#MVIF
37 panel speaker: 🇩🇪 Nicole Dublier
@nicoledubilier.bsky.social
with her talk: Life in the dark: The microbiomes of mussels from deep-sea hydrothermal vents
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Andrea Quagliariello
Biancamaria Bonucci
8 months ago
Join us in Turin!!!🦠🔥🫡
add a skeleton here at some point
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reposted by
Andrea Quagliariello
Maria Elena Martino
9 months ago
Hurry up, early birds! 🐦 Abstract submissions and registrations to join us at the
#TMHMS25
Symposium are now open!
add a skeleton here at some point
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Andrea Quagliariello
From the Labs at Baylor College of Medicine
9 months ago
A new study illuminates the dynamics of the
#phage
-
#bacteria
world in the human
#gut
#microbiome
.
@miketisza.bsky.social
@naturemicrobiol.bsky.social
@bcmhouston.bsky.social
#SCregeen
#BCMMicrobiome
blogs.bcm.edu/2025/02/25/f...
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Understanding the world within: study reveals new insights into phage–bacteria interactions in the gut microbiome
By evaluating temporal trends in the guts of developing children, this study helps to lay the groundwork for therapeutics and diagnostics leveraging the microbiome and its constituents.
https://blogs.bcm.edu/2025/02/25/from-the-labs-understanding-the-world-within-study-reveals-new-insights-into-phage-bacteria-interactions-in-the-gut-microbiome/
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Andrea Quagliariello
Elin Videvall
9 months ago
Press release about our latest giraffe diet-microbiome study here:
www.eurekalert.org/news-release...
@animecol-uu.bsky.social
@brown-ibes.bsky.social
#microbiome
#diet
#metabarcoding
#giraffe
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Unexpected discoveries in study of giraffe gut flora
The gut bacteria of giraffes are not primarily determined by what they eat, but by the species they belong to. This is shown in a new study from Uppsala University and Brown University in which resear...
https://www.eurekalert.org/news-releases/1074520
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Andrea Quagliariello
Taylor priest
9 months ago
AntiDefenseFinder: a tool for the automated annotation of 156 anti-defense systems in DNA sequences -
academic.oup.com/nar...
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Exploring the diversity of anti-defense systems across prokaryotes, phages and mobile genetic elements
Abstract. The co-evolution of prokaryotes, phages and mobile genetic elements (MGEs) has driven the diversification of defense and anti-defense systems ali
https://academic.oup.com/nar/article/53/1/gkae1171/7919512
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Andrea Quagliariello
Magdalena Skipper
10 months ago
Expanding the human gut microbiome atlas of Africa Low- & middle-income countries, in which approximately 84% of the world’s population lives, are not equitably represented in large-scale gut microbiome research 🧪
@natureportfolio.nature.com
www.nature.com/articles/s41...
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Expanding the human gut microbiome atlas of Africa - Nature
A cross-sectional study from four African countries shows the importance of investigating the gut microbiome in previously under-represented populations and provides a framework for equitable microbio...
https://www.nature.com/articles/s41586-024-08485-8
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