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Jose L. Balcazar

@balcjos.bsky.social
911 followers 728 following 12 posts

Senior Researcher at @icrawater.bsky.social💧 Focus on #microbiology, #AMR, #OneHealth, #biofilms, #phages, #metagenomics, and #bioinformatics

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Reposted by Jose L. Balcazar
Retraction Watch @retractionwatch.com · 21/08/2026
"We estimate that $15.08 billion (in 2025 USD) was spent globally on APCs between 2019 and 2025. Adjusted for inflation, annual spending quadrupled from $0.9 billion in 2019 to $3.7 billion in 2025, with >85% concentrated among a few large publishers."
arxiv.org
Estimating global article processing charges paid to 14 publishers for open access between 2019 and 2025
This study presents estimates of the global expenditure on article processing charges (APCs) paid to 14 publishers for open access (OA) between 2019 and 2025. APCs are charged for publishing in fully ...
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Reposted by Jose L. Balcazar
European Food Safety Authority @efsa.europa.eu · 19/08/2026
🦠 Explore antimicrobial resistance across Europe Use our interactive maps, dashboards and data visualisations to track AMR trends in E. coli, Campylobacter, Salmonella and MRSA — and better understand their impact on human and animal health. 🔗 europa.eu/!j4cwRw #AMR #AntimicrobialResistance
europa.eu
Antimicrobial resistance
Antimicrobial resistance (AMR) refers to the ability of microorganisms to withstand antimicrobial treatments.
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Jose L. Balcazar @balcjos.bsky.social · 22/08/2026
Antimicrobial resistance could be traced through wastewater under One Health approach #AMR @icrawater.bsky.social environment.ec.europa.eu/news/antimic...
environment.ec.europa.eu
Antimicrobial resistance could be traced through wastewater under One Health approach
Microbes becoming resistant to antibiotics – known as antimicrobial resistance (AMR) – is a leading threat to global health. Tracing relevant genes in sewage could help address this challenge, accordi...
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Reposted by Jose L. Balcazar
Evgenii Protasov @evgenii-protasov.bsky.social · 01/05/2026
A new family of rolling-circle replication endonucleases widespread in archaeal viruses and plasmids #microbiology #virology #viruses #archaea academic.oup.com/nar/article/...
academic.oup.com
A new family of rolling-circle replication endonucleases widespread in archaeal viruses and plasmids
Abstract. Archaea possess a remarkably diverse mobilome, but for many archaeal viruses and plasmids, even the basic processes, such as genome replication,
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Jose L. Balcazar @balcjos.bsky.social · 03/05/2026
Current understanding of viral contributions to soil carbon cycling @natrevearthenviron.nature.com #soilscience #climatechange #microbiology 📰 Read the review (in Spanish) by @munagropecuario.bsky.social mundoagropecuario.com/los-virus-pr... 🔬 Original article: doi.org/10.1038/s430...
mundoagropecuario.com
Los virus, protagonistas invisibles del clima y la fertilidad del suelo
Los virus han sido tradicionalmente vistos como agentes de enfermedad. Sin embargo, nuevas investigaciones están cambiando esta percepción. Dos estudios recientes, con participación de equipos…
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Reposted by Jose L. Balcazar
Nature Reviews Earth & Environment @natrevearthenviron.nature.com · 30/03/2026
New online! Current understanding of viral contributions to soil carbon cycling
dlvr.it
Current understanding of viral contributions to soil carbon cycling
Nature Reviews Earth & Environment, Published online: 30 March 2026; doi:10.1038/s43017-026-00774-2Growing evidence indicates that soil viruses influence carbon cycling by modulating microbial metabolism and infection dynamics through auxiliary metabolic genes. Beyond host cell lysis, viral processes might regulate carbon flow and the formation of stabilized carbon pools. Integrating viral ecology into soil carbon models and restoration strategies is essential.
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Reposted by Jose L. Balcazar
Stable Isotope Ecology (CER, Kyoto Univ.) @stableisotopeecol.bsky.social · 18/03/2026
Zhu, D., Zhang, W., Balcazar, J.L. et al. The hidden role of rhizospheric viruses in promoting nitrogen fixation in soils. #stableisotopes Nat Commun (2026). doi.org/10.1038/s414...
doi.org
The hidden role of rhizospheric viruses in promoting nitrogen fixation in soils - Nature Communications
Biological nitrogen fixation is crucial for soil fertility and is often attributed to bacteria. This study reveals that viruses can facilitate bacterial nitrogen fixation by encoding the auxiliary met...
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Reposted by Jose L. Balcazar
Trends in Microbiology @cp-trendsmicrobiol.bsky.social · 06/01/2026
Uncovering the hidden risks of microplastics in the food chain
dlvr.it
Uncovering the hidden risks of microplastics in the food chain
Microplastics pose hidden risks to the food chain by acting as vehicles for microbial colonization. The plastisphere may facilitate pathogen transfer through seafood, agricultural products, and food processing, raising major concerns for food safety. Standardized methodologies, stronger regulations, and further research are urgently needed to address these emerging risks.
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Reposted by Jose L. Balcazar
Institut Català de Recerca de l’Aigua @icrawater.bsky.social · 17/09/2025
#Notadepremsa Investigadors del @ctbeta.cat, la @univgirona.bsky.social i l’ICRA-CERCA han desenvolupat un reactor basat en biofilms i plàncton que millora de manera notable la qualitat de l’aigua en depuradores petites. 📄 Pots llegir tots els detalls aquí👉 icra.cat/noticia/un-r...
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Jose L. Balcazar @balcjos.bsky.social · 22/07/2025
Plásticos biodegradables: ¿solución ecológica o nuevo problema sanitario? @icrawater.bsky.social newsweekespanol.com/2025/07/22/p...
newsweekespanol.com
Plásticos biodegradables: ¿solución ecológica o nuevo problema sanitario? - Newsweek en Español
los plásticos biodegradables se han consolidado como una alternativa “ecológica” frente a los plásticos convencionales...
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Reposted by Jose L. Balcazar
Javier Santoyo @jsantoyo.bsky.social · 16/07/2025
Integrating comparative genomics and risk classification by assessing virulence, antimicrobial resistance, and plasmid spread in microbial communities with gSpreadComp. #Genomics #MicrobialGenomics #AMR @gigascience.bsky.social academic.oup.com/gigascience/...
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Reposted by Jose L. Balcazar
Action for Global Health @afghnetwork.bsky.social · 16/07/2025
📉 The UK once led the global fight against #AMR. Cutting The Fleming Fund undermines years of progress, weakens health systems worldwide — and puts UK health at risk. We need renewed leadership, not retreat. 👇 www.telegraph.co.uk/global-healt...
telegraph.co.uk
Major UK project to tackle AMR closed by aid cuts
Government shutters major UK aid programme to tackle antimicrobial resistance
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Reposted by Jose L. Balcazar
Gabriele Pollara @gpollara.bsky.social · 17/07/2025
Antihistamines' disturbance of the gut microbiome, contributing to susceptibility to GI infection! 😱 #IDSky #ClinMicro #AMR 🧪
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Reposted by Jose L. Balcazar
Gabriele Pollara @gpollara.bsky.social · 21/07/2025
Citrobacter freundii ain't ever been a friend of ours... now becoming even more hostile! #IDSky #ClinMicro #AMR #MedSky @lancetmicrobe.bsky.social www.thelancet.com/journals/lan...
thelancet.com
Global emergence and transmission dynamics of carbapenemase-producing Citrobacter freundii sequence type 22 high-risk international clone: a retrospective, genomic, epidemiological study
Our study provides evidence to suggest that Citrobacter species are emerging carriers of carbapenem-resistance genes. These findings provide insight into the population structure of CPC species and hi...
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Reposted by Jose L. Balcazar
Prof Sam Illingworth @samillingworth.com · 21/07/2025
🧬 Superbugs could cost $2 trillion a year by 2050 New modelling shows antibiotic-resistant infections could kill millions more and slash global GDP by $1.7 trillion annually, unless action is taken now. Cutting aid may worsen the crisis. 🔗 www.theguardian.com/society/2025... #SciComm #AMR 🧪
theguardian.com
Superbugs could kill millions more and cost $2tn a year by 2050, models show
Exclusive: Research on burden of antibiotic resistance for 122 countries predicts dire economic and health outcomes
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Reposted by Jose L. Balcazar
Javier Santoyo @jsantoyo.bsky.social · 18/06/2025
ProtPhage: a deep learning framework for phage viral protein identification and functional annotation. #PhageProteins #FunctionalAnnotation #DeepLearning #Phages #Bioinformatics 🧬 🖥️ academic.oup.com/bib/article/...
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Reposted by Jose L. Balcazar
Leticia Botella @letibosa.bsky.social · 23/06/2025
Note this down! www.vom2026.org #viruses, #bacteria, #mycoviruses, #microbes, #phages, #archaea, #RNA, #evolution, #bioinformatics, #biocontrol, #ecology
vom2026.org
Viruses of Microbes 2026 | July 6-10 in Prague, Czech Republic
The Viruses of Microbes (VoM) 2026 conference is the world’s leading event for research on viruses of microorganisms, including bacteriophages, archaeal viruses, and viruses of microbial eukaryotes.
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Reposted by Jose L. Balcazar
Trevor Lithgow @trevor-lithgow.bsky.social · 16/07/2025
Because of the forces they have to withstand being whizzed around on #flagellae, flagellotropic #phages are super stable. It turns out that the same super-stability remains long after you adapt to a host bacterium without a #flagellum rdcu.be/ewnzT
rdcu.be
Highly stable bacteriophages PIN1 and PIN2 have hallmarks of flagellotropic phages but infect immotile bacteria
npj Viruses - Bacteriophages (phages) are viruses that kill bacteria, with potential as antibacterial agents in industrial settings, agriculture, and human health. Here, we identified two phages,...
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Reposted by Jose L. Balcazar
Science X / Phys.org @sciencex.bsky.social · 20/06/2025
Phages play a key role in spreading virulence genes among Salmonella, while a bacterial gene, csrA, can limit this process, offering new insights for safer phage therapies and food safety strategies. doi.org/g9k9d9
phys.org
Caught in the crossfire: How phages spread Salmonella virulence genes
A global study uncovers the hidden role of viruses in driving bacterial evolution and highlights a surprising bacterial gene that helps fight back.
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Reposted by Jose L. Balcazar
Nature Reviews Microbiology @natrevmicro.nature.com · 11/03/2025
New online! Interactions and evolutionary relationships among bacterial mobile genetic elements
nature.com
Interactions and evolutionary relationships among bacterial mobile genetic elements
Nature Reviews Microbiology, Published online: 11 March 2025; doi:10.1038/s41579-025-01157-yIn this Review, Lang and colleagues present an overview of the current knowledge landscape regarding mobile genetic elements in bacteria, with a focus on their…
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Reposted by Jose L. Balcazar
Eduardo Rocha @epcrocha.bsky.social · 16/04/2025
New postdoc position in our lab (2 y+): evolutionary genomics of integrons and MGEs with focus on vibrio-phage interactions. Great environment @pasteur.fr for science, career building. Super collaborators @celineloot.bsky.social @amazeld.bsky.social @fredoleroux.bsky.social 3 weeks to apply!
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Jose L. Balcazar @balcjos.bsky.social · 03/04/2025
La plastisfera: una amenaza emergente para el medioambiente y la salud pública theconversation.com/la-plastisfe...
theconversation.com
La plastisfera: una amenaza emergente para el medioambiente y la salud pública
Los desechos plásticos y los microorganismos que los colonizan componen un nuevo ecosistema que puede ser crítico para la aparición de patógenos y resistencias antimicrobianas.
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Reposted by Jose L. Balcazar
José R Penadés @jrpenades.bsky.social · 27/03/2025
If you are interested in phage satellites, we hope you'll enjoy this. Fun collaboration with the Rocha, Seed, Bikard, and Chen labs! rdcu.be/efkvG
rdcu.be
Genetics, ecology and evolution of phage satellites
Nature Reviews Microbiology - In this Review, Penadés et al. explore the genetics, potential origins and life cycle of phage satellites, and they discuss the impact of these elements on the...
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Reposted by Jose L. Balcazar
Cameron Thrash @jcamthrash.bsky.social · 20/03/2025
Pangenomes suggest ecological-evolutionary responses to experimental soil warming journals.asm.org/doi/full/10.... #jcampubs
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Reposted by Jose L. Balcazar
Cameron Thrash @jcamthrash.bsky.social · 20/03/2025
Limitations of sequence dissimilarity as a predictor of prokaryotic lineage royalsocietypublishing.org/doi/full/10.... #jcampubs
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Reposted by Jose L. Balcazar
Cameron Thrash @jcamthrash.bsky.social · 21/03/2025
MicrobeRX: a tool for enzymatic-reaction-based metabolite prediction in the gut microbiome microbiomejournal.biomedcentral.com/articles/10.... #jcampubs
microbiomejournal.biomedcentral.com
MicrobeRX: a tool for enzymatic-reaction-based metabolite prediction in the gut microbiome - Microbiome
Background The gut microbiome functions as a metabolic organ, producing numerous enzymes that influence host health; however, their substrates and metabolites remain largely unknown. Results We presen...
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Reposted by Jose L. Balcazar
Cameron Thrash @jcamthrash.bsky.social · 21/03/2025
NanoASV: a snakemake workflow for reproducible field-based Nanopore full length 16S Metabarcoding amplicon data analysis academic.oup.com/bioinformati... #jcampubs
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Reposted by Jose L. Balcazar
Cameron Thrash @jcamthrash.bsky.social · 21/03/2025
Addressing the dynamic nature of reference data: a new nucleotide database for robust metagenomic classification journals.asm.org/doi/full/10.... #jcampubs
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Reposted by Jose L. Balcazar
Cameron Thrash @jcamthrash.bsky.social · 21/03/2025
Horizontal transfer of bacterial operons into eukaryote genomes academic.oup.com/gbe/advance-... #jcampubs
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Reposted by Jose L. Balcazar
European Food Safety Authority @efsa.europa.eu · 10/03/2025
🔬 Discover the latest in #AMR monitoring with our interactive data tools! Explore our data viz, story maps and dashboards for E. coli, Campylobacter, Salmonella, & MRSA Check resistance levels in humans, animals, and food – country by country for 2022-2023 Check it out here → europa.eu/!63cF6p
europa.eu
Antimicrobial resistance in Europe
Resistance of Salmonella and E. coli in food, animals and humans. Explore data country by country.
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Reposted by Jose L. Balcazar
Institut Català de Recerca de l’Aigua @icrawater.bsky.social · 08/03/2025
El 2007 érem 2 dones, i avui som 46 en un equip en creixement d’aproximadament 100 persones. 👩‍🔬💪 Aquest canvi és una mostra de l’esforç, el talent i la dedicació de totes les dones que formem part de l’equip d’ICRA. Feliç Dia Internacional de la Dona 💟 #8M
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Reposted by Jose L. Balcazar
Cameron Thrash @jcamthrash.bsky.social · 24/02/2025
Phage interactions may contribute to the population structure and dynamics of hydrothermal vent microbial symbionts www.biorxiv.org/content/10.1... #jcampubs
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Reposted by Jose L. Balcazar
Cameron Thrash @jcamthrash.bsky.social · 24/02/2025
Evaluation of Metagenome Binning: Advances and Challenges www.biorxiv.org/content/10.1... #jcampubs
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Reposted by Jose L. Balcazar
Cameron Thrash @jcamthrash.bsky.social · 24/02/2025
mettannotator: a comprehensive and scalable Nextflow annotation pipeline for prokaryotic assemblies academic.oup.com/bioinformati... #jcampubs
academic.oup.com
mettannotator: a comprehensive and scalable Nextflow annotation pipeline for prokaryotic assemblies
AbstractSummary. In recent years, there has been a surge in prokaryotic genome assemblies, coming from both isolated organisms and environmental samples. T
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Reposted by Jose L. Balcazar
Cameron Thrash @jcamthrash.bsky.social · 26/02/2025
Viroid-like “obelisk” agents are widespread in the ocean and exceed the abundance of RNA viruses in the prokaryotic fraction academic.oup.com/ismej/advanc... #jcampubs
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Reposted by Jose L. Balcazar
Cameron Thrash @jcamthrash.bsky.social · 19/02/2025
Polyphosphate: The “Dark Matter” of Bacterial Chromatin Structure onlinelibrary.wiley.com/doi/10.1111/... #jcampubs
onlinelibrary.wiley.com
Polyphosphate: The “Dark Matter” of Bacterial Chromatin Structure
Polyphosphate condensates and their contributions to nucleoid structure. Polyphosphate condensates form in the ribosome-depleted nucleoid region of bacterial cells, particularly under stress (in this...
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Reposted by Jose L. Balcazar
Emili García-Berthou @garciaberthou.bsky.social · 20/02/2025
New @mncn-csic.bsky.social @csic.es #Proyecto_Aphanius publication: doi.org/10.1186/s128...
doi.org
De novo genome hybrid assembly and annotation of the endangered and euryhaline fish Aphanius iberus (Valenciennes, 1846) with identification of genes potentially involved in salinity adaptation - BMC ...
Background The sequencing of non-model species has increased exponentially in recent years, largely due to the advent of novel sequencing technologies. In this study, we construct the Reference Genome...
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Reposted by Jose L. Balcazar
Jorge Bravo Abad @bravo-abad.bsky.social · 20/02/2025
Kraemer et al. use machine learning to model epidemics more efficiently. Their work shows faster forecasting, better handling of incomplete data, and more accurate infection estimates, pointing to improved global health decision making. www.nature.com/articles/s41...
nature.com
Artificial intelligence for modelling infectious disease epidemics - Nature
This Perspective considers the application to infectious disease modelling of AI systems that combine machine learning, computational statistics, information retrieval and data science.
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Reposted by Jose L. Balcazar
Cameron Thrash @jcamthrash.bsky.social · 19/02/2025
MARTi: a real-time analysis and visualisation tool for nanopore metagenomics www.biorxiv.org/content/10.1... #jcampubs
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Reposted by Jose L. Balcazar
Institut Català de Recerca de l’Aigua @icrawater.bsky.social · 11/02/2025
🔬💜 Avui celebrem el Dia Internacional de la Dona i la Nena en la Ciència! — 🔬💜 Today, we celebrate the International Day of Women and Girls in Science! 🔹 Which female scientist inspires you? Drop her name in the comments! 👇💬 #WomenInScience
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Reposted by Jose L. Balcazar
João Botelho @joaoftsbotelho.bsky.social · 30/01/2025
An ICE, a PICI, and a phage walk into a cell… and start crosstalking. Interesting read on how MGEs juggle interactions like pros! 🦠 academic.oup.com/ismej/articl...
academic.oup.com
Escherichia coli phage-inducible chromosomal island aids helper phage replication and represses the locus of enterocyte effacement pathogenicity island
Abstract. In this study, we identify and characterize a novel phage-inducible chromosomal island (PICI) found in commensal Escherichia coli MP1. This novel
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Jose L. Balcazar @balcjos.bsky.social · 29/01/2025
Call for papers: Special issue on bacteriophages and CRISPR-Cas for combating multidrug-resistant bacteria. Original research papers and reviews are welcome. @icrawater.bsky.social www.sciencedirect.com/special-issu...
sciencedirect.com
Microbiological Research | ScienceDirect.com by Elsevier - Microbiological Research | ScienceDirect.com by ElsevierScienceDirect
Read the latest articles of Microbiological Research at ScienceDirect.com, Elsevier’s leading platform of peer-reviewed scholarly literature
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Reposted by Jose L. Balcazar
Miss Salmonella @misssalmonella.bsky.social · 15/01/2025
Great seminar about RNAseq analysis in non-model organisms by @mgclaros.bsky.social . Interesting R-tool to easily analyze and visualize RNAseq data. Really nice! #RSeqFlow github.com/mgclaros/RSe...
github.com
GitHub - mgclaros/RSeqFlow: RSeqFlow v1.05
RSeqFlow v1.05. Contribute to mgclaros/RSeqFlow development by creating an account on GitHub.
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Reposted by Jose L. Balcazar
National Biofilms Innovation Centre (NBIC) @ukbiofilms.bsky.social · 17/01/2025
📢 @sotonbiosciences.bsky.social are seeking an Associate Professor or #Professor with experience in the #biology and mechanisms of microbial #biofilms to contribute to enhancing NBIC’s reputation as a pioneering centre for #biofilm research and #innovation Apply by 28 Feb 2025➡️ tinyurl.com/mr756rap
tinyurl.com
University of Southampton Vacancy: Professor in Microbial Biofilms - NBIC
The University of Southampton have an exciting vacancy open for an Associate Professor or Professor in Microbial Biofilms.
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Jose L. Balcazar @balcjos.bsky.social · 21/01/2025
We are thrilled to share our latest article in @pubs.acs.org “Bacterium-Phage Symbiosis Facilitates the Enrichment of Bacterial Pathogens and Antibiotic-Resistant Bacteria in the Plastisphere” #phages #AMR doi.org/10.1021/acs....
doi.org
Bacterium-Phage Symbiosis Facilitates the Enrichment of Bacterial Pathogens and Antibiotic-Resistant Bacteria in the Plastisphere
The plastisphere, defined as the ecological niche for microbial colonization of plastic debris, has been recognized as a hotspot of pathogenic and antibiotic-resistant bacteria. However, the interacti...
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Reposted by Jose L. Balcazar
Miss Salmonella @misssalmonella.bsky.social · 09/01/2025
Review highlights the transformative role of phylogenetic methods in genomics, enhancing understanding of evolutionary genetics by addressing species' data non-independence. Key for comparative studies. #Genomics #EvolutionaryBiology www.nature.com/articles/s41...
nature.com
A phylogenetic approach to comparative genomics - Nature Reviews Genetics
Controlling for phylogeny is essential in comparative genomics studies, because species, genomes and genes are not independent data points within statistical tests. The authors review the application ...
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Alex Probst @alexjprobst.bsky.social · 12/12/2024
Looking for a new target microbes for cultivation? Check out our new review on "Earth's most needed uncultivated aquatic prokaryotes"! www.sciencedirect.com/science/arti...
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Jose L. Balcazar @balcjos.bsky.social · 14/12/2024
Advancements of paper-based sensors for antibiotic-resistant bacterial species identification. doi.org/10.1038/s443...
doi.org
Advancements of paper-based sensors for antibiotic-resistant bacterial species identification - npj Biosensing
npj Biosensing - Advancements of paper-based sensors for antibiotic-resistant bacterial species identification
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Jose L. Balcazar @balcjos.bsky.social · 14/12/2024
Increased Transmission of Antibiotic Resistance Occurs in a Soil Food Chain under Pesticide Stress. doi.org/10.1021/acs....
doi.org
Increased Transmission of Antibiotic Resistance Occurs in a Soil Food Chain under Pesticide Stress
The rising spread of antibiotic resistance is a global concern, but the pathways of dissemination within soil ecosystems remain poorly understood. Here, we quantified the occurrence of antibiotic resi...
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Jose L. Balcazar @balcjos.bsky.social · 14/12/2024
Dysbiosis of gut microbiota in COVID-19 is associated with intestinal DNA phage dynamics of lysogenic and lytic infection. doi.org/10.1128/spec...
doi.org
Dysbiosis of gut microbiota in COVID-19 is associated with intestinal DNA phage dynamics of lysogenic and lytic infection | Microbiology Spectrum
Bacteriophages infect and replicate with bacteria and archaea and are closely associated with intestinal bacteria. The symbiotic relationship between gut microbiota and bacteriophages is of interest, ...
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