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Zeynep Baharoglu

@zeynepbaharoglu.bsky.social
2.2K followers 1.4K following 494 posts

RNA modifications, antibiotic tolerance, bacterial stress, non coding RNAs, Vibrio cholerae. EPICS lab - Institut Pasteur & EGM (IBPC, CNRS)

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Reposted by Zeynep Baharoglu
STCmicrobeblog @stcmicrobeblog.bsky.social · 27/09/2026
#RNASky #MicroSky
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 27/09/2026
Loss of restriction-modification methyltransferases drives persistence to fluoroquinolones in Pseudomonas aeruginosa www.biorxiv.org/content/10.6...
biorxiv.org
Loss of restriction-modification methyltransferases drives persistence to fluoroquinolones in Pseudomonas aeruginosa
The resurgence of phage therapy has renewed interest in the interplay between phage resistance and antibiotic susceptibility and has stimulated research in the emergent field of non-canonical cellular...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 25/09/2026
Sparsomycin inhibits translation through a conserved mechanism across all domains of life academic.oup.com/nar/article/...
academic.oup.com
Sparsomycin inhibits translation through a conserved mechanism across all domains of life
Abstract. Sparsomycin (SPA) is a broad-spectrum inhibitor of protein synthesis with activity across all three domains of life. Although SPA has long been k
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 25/09/2026
An RNA Language Model trained on sequence alone reveals the structural logic of Internal Ribosome Entry Sites www.biorxiv.org/content/10.6...
biorxiv.org
An RNA Language Model trained on sequence alone reveals the structural logic of Internal Ribosome Entry Sites
Millions of RNA sequences are readily available, but the structures that determine their function are not. Picornaviruses initiate translation through Internal Ribosome Entry Sites (IRESes), RNA eleme...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 25/09/2026
Fluorescent proteins misreport ribosome abundance under translation inhibition www.biorxiv.org/content/10.6...
biorxiv.org
Fluorescent proteins misreport ribosome abundance under translation inhibition
Fluorescent proteins are widely used as quantitative reporters of protein abundance in living cells. Here we show that this relationship can break down under translation inhibition: the cellular ribos...
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Reposted by Zeynep Baharoglu
Institut Pasteur Education @pasteuredu.bsky.social · 17/09/2026
𝗝𝗼𝗶𝗻 𝘁𝗵𝗲 𝗠𝗢𝗢𝗖 Resistance to Antibacterial Agents, 𝗲𝗻𝗿𝗼𝗹𝗹𝗺𝗲𝗻𝘁 𝗶𝘀 𝗻𝗼𝘄 𝗼𝗽𝗲𝗻! 👉 Register here: www.fun-mooc.fr/en/courses/r... 💬 Course in English with subtitles (English/French/Spanish) 📆 Course access starts: November 3, 2026 🎓 100% free and self-paced. Paid Certificate Option @amazeld.bsky.social
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 20/09/2026
Bacterial growth rate in populations and single cells 🦠💫 www.nature.com/articles/s41... beautiful review by Petra Levin and Jue Wang
nature.com
Bacterial growth rate in populations and single cells - Nature Microbiology
In this Perspective, Levin and Wang give a brief history of bacterial growth rate and discuss how it is connected to nutrient availability and macromolecule synthesis, with a focus on (p)ppGpp as a ce...
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Reposted by Zeynep Baharoglu
STCmicrobeblog @stcmicrobeblog.bsky.social · 19/09/2026
ribosomologists take note👇 just button up your CsdA coat if you get too cold... #MicroSky
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 17/09/2026
16S rRNA Modifications Are Dispensable for Viability but Collectively Optimize Ribosome Biogenesis and Translation Initiation in Escherichia coli www.biorxiv.org/content/10.6...
biorxiv.org
16S rRNA Modifications Are Dispensable for Viability but Collectively Optimize Ribosome Biogenesis and Translation Initiation in Escherichia coli
Ribosomal RNAs contain numerous conserved nucleotide modifications, yet the functional importance of most of these modifications remains unclear. In Escherichia coli , deletion of individual 16S rRNA ...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 17/09/2026
Ribosome profiling reveals translational dynamics between an archaeal virus and its host www.biorxiv.org/content/10.6...
biorxiv.org
Ribosome profiling reveals translational dynamics between an archaeal virus and its host
Host-virus interactions remain poorly understood in archaea, whose information processing systems harbor a mosaic of bacterial and eukaryotic features. Here, we used complementary multiomics to invest...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 17/09/2026
Single-molecule nanopore sequencing reveals spatial coordination of rRNA modifications in human ribosomes www.biorxiv.org/content/10.6...
biorxiv.org
Single-molecule nanopore sequencing reveals spatial coordination of rRNA modifications in human ribosomes
Ribosomal RNA has a high density of epitranscriptomic modifications essential for faithful translation, and their levels vary across cell types and in disease. Typically, rRNA modifications are quanti...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 15/09/2026
Circular-pre-rRNA-dependent and -independent rRNA maturation pathways in Archaea rnajournal.cshlp.org/content/earl...
rnajournal.cshlp.org
Circular-pre-rRNA-dependent and -independent rRNA maturation pathways in Archaea
A monthly journal publishing high-quality, peer-reviewed research on all topics related to RNA and its metabolism in all organisms
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 12/09/2026
Pyridoxal-phosphate-dependent biosynthesis of aminovaleramide by AvaS in tRNA 🦠💫 Discovery of AvaS, the enzyme cqtqlyzing ava2C modificqtion on tRNA-ile www.nature.com/articles/s41...
nature.com
Pyridoxal-phosphate-dependent biosynthesis of aminovaleramide by AvaS in tRNA - Nature Chemical Biology
Sun, Wu et al. identify AvaS as a pyridoxal-phosphate-dependent RNA-modifying enzyme, producing the tRNA modification ava2C from k2C in bacteria and plants and linking RNA chemistry to translational r...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 12/09/2026
Acquisition and erosion of toxin-antitoxin systems in bacterial chromosomes 🦠 academic.oup.com/mbe/advance-...
academic.oup.com
Validate User
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 12/09/2026
Actuation of CRP activating region 3 by formylation modulates the Vibrio cholerae response to oxidative DNA damage 🦠 www.pnas.org/doi/10.1073/...
pnas.org
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 11/09/2026
Atlas of stress-induced changes in yeast tRNA modification levels www.biorxiv.org/content/10.6... with a major impact of pH on U34 modification
biorxiv.org
Atlas of stress-induced changes in yeast tRNA modification levels
Transfer RNA (tRNA) modifications are essential for accurate translation and cellular adaptation to environmental changes. Although short-term modification dynamics are well documented, the impact of ...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 11/09/2026
Resistance to antibacterial peptide nucleic acids through altered ribosome function 🦠 www.biorxiv.org/content/10.6...
biorxiv.org
Resistance to antibacterial peptide nucleic acids through altered ribosome function
When used as antibacterial agents, Peptide Nucleic Acid (PNAs) are generally designed to base-pair with complementary sequences of an essential mRNA and block translation initiation. Although bacteria...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 11/09/2026
Full-length transcriptomics and proteomics reveal how genome minimization reshapes gene expression in synthetic bacteria 🦠 www.biorxiv.org/content/10.6...
biorxiv.org
Full-length transcriptomics and proteomics reveal how genome minimization reshapes gene expression in synthetic bacteria
JCVI-syn1.0 (Syn1.0) and JCVI-syn3A (Syn3A), genetically synthetic and genome-reduced versions of the naturally occurring bacterium Mycoplasma mycoides, are landmark platforms for defining the gene se...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 08/09/2026
N4-Acetylcytidine enhances synthetic mRNA translation yield and fidelity www.nature.com/articles/s41... and the original paper
nature.com
N4-Acetylcytidine enhances synthetic mRNA translation yield and fidelity - Nature
Different RNA modifications elicit different translation elongation rates for in vitro transcribed mRNAs that result in disparate translation outputs and fidelity, as shown here for N4-acetylcytidine ...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 08/09/2026
Ac4C adds a new letter to the mRNA medicine lexicon bu Kristin Koutmou, www.cell.com/molecular-ce...
cell.com
Ac4C adds a new letter to the mRNA medicine lexicon
Therapeutic mRNAs rely heavily on the incorporation of the RNA modification N1- methylpseudouridine for their efficacy. Schiffers et al. present N4-acetylcytidine as a robust alternative that further ...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 06/09/2026
☀️ 🌘 RNA Modifications Newsletter -End of summer reading for people who find modified nucleosides relaxing. Highlights: anticodon-loop crosstalk, MiaA/tryptophan attenuation, ribosomes missing >10 rRNA modifications causing wrong conformations, and growth-dependent remodeling of the tRNA pool.
rnamodifupdates.substack.com
☀️ 🌘 RNA Modifications Newsletter - End of summer 2026 edition
Issue #13
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 06/09/2026
High-throughput recovery of integron cassettes for gene discovery screens 🦠💫 tool for discovering new genes www.nature.com/articles/s41...
nature.com
High-throughput recovery of integron cassettes for gene discovery screens - Nature Microbiology
Integron insertion sites engineered into counterselection markers allow large-scale and high-throughput capture of integron-encoded genes from genetically tractable bacteria or DNA samples.
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Reposted by Zeynep Baharoglu
STCmicrobeblog @stcmicrobeblog.bsky.social · 28/08/2026
(pneumococcus) cell divisionists take note👇 a super 🧵 for #MicroSky
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 26/08/2026
A generalized growth law for translation- and transcription-targeting antibiotics captures drug interactions 🦠💊 www.biorxiv.org/content/10.6...
biorxiv.org
A generalized growth law for translation- and transcription-targeting antibiotics captures drug interactions
Bacterial growth laws quantitatively connect intracellular resource allocation to growth rate, enabling accurate predictions of physiology and antibiotic responses. Yet these laws have been rigorously...
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Reposted by Zeynep Baharoglu
Sebastian Baumgarten @sebbaumgarten.bsky.social · 19/08/2026
The singular job of all known ribosomes: synthesizing protein. Enter the malaria parasite. In our new work, we show that Plasmodium evolved an entire new kind that does just the opposite - inhibit mRNA translation. www.biorxiv.org/content/10.6...
biorxiv.org
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Reposted by Zeynep Baharoglu
Ronald Breaker @ronbreaker.bsky.social · 25/08/2026
Our new paper in PNAS reports the presence of Na+ and Li+ #aptamer RNAs in mammals. The latter hints at natural roles for #lithium in humans and provides direct links to #BipolarDisorder. Now seeking funding to study Li+ biology and create new therapeutics.
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 24/08/2026
16S ribosomal RNA modification drives transcript-specific translation efficiency 🦠 with RsmH/MraW in B. subtilis www.sciencedirect.com/science/arti...
sciencedirect.com
https://www.sciencedirect.com/science/article/pii/S2211124726009654
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 24/08/2026
Nicotinamide-Based Covalent Inhibitors of tRNA (m1G37) Methyltransferase (TrmD) to Increase Antibacterial Activity 🦠 pubs.acs.org/amclct/artic...
pubs.acs.org
Nicotinamide-Based Covalent Inhibitors of tRNA (m1G37) Methyltransferase (TrmD) to Increase Antibacterial Activity
Abstract. Bacterial tRNA (m1G37) methyltransferase (TrmD) is an essential enzyme required for accurate translation and represents an attractive antibacteri
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
28% resistant infections to last resort antibiotics... www.pasteur.fr/en/home/rese...
pasteur.fr
Antibiotic Resistance: in Africa, urinary tract infections may become untreatable
A study by the Institut Pasteur and Pasteur Network Institutes, published in JAMA Network Open, reveals a rapid decline in the effectiveness of antibiotics against urinary tract infections in six Afri...
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Reposted by Zeynep Baharoglu
Springer Nature @springernature.com · 19/08/2026
The world’s oceans are on the brink of setting an all-time heat record, reaching temperatures that could roil marine ecosystems and sap the ocean’s ability to take up carbon dioxide from the air. spklr.io/63329ERgzW 🧪
spklr.io
Ocean temperatures set to break all-time record: what’s next?
High sea surface temperatures are expected to weaken ocean carbon sinks and damage coral reefs.
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
Structural adaptations for enhanced translation kinetics in evolved ribosomes academic.oup.com/nar/article/...
academic.oup.com
Structural adaptations for enhanced translation kinetics in evolved ribosomes
Abstract. The ribosomal RNA sequence governs translation dynamics, yet understanding how changes beyond the conserved catalytic centers influence kinetics
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
Short-chain fatty acids activate the glutamate-dependent acid resistance system via the tRNA-modifying Mnm pathway in Escherichia coli journals.asm.org/doi/10.1128/...
journals.asm.org
Short-chain fatty acids activate the glutamate-dependent acid resistance system via the tRNA-modifying Mnm pathway in Escherichia coli | Journal of Bacteriology
Survival of enteric bacteria in the gastrointestinal tract depends on their ability to sense and respond to diverse forms of acid stress. This study identifies oxygen limitation, growth phase,…
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
Cryo-EM reveals that Escherichia coli tRNA-transglycosylase can bind and act upon two tRNAs doi.org/10.1073/pnas...
doi.org
https://doi.org/10.1073/pnas.260189512
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
Selective Reprogramming of Ribosome Assembly and Translational Control during Bacterial Growth Phase Transitions doi.org/10.1021/acso...
doi.org
Selective Reprogramming of Ribosome Assembly and Translational Control during Bacterial Growth Phase Transitions
Abstract. Most bacteria in natural environments experience prolonged nutrient limitation resembling the stationary phase and only intermittently encounter
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
Harmonized nucleoside mass spectrometry enables reproducible cross-platform RNA modification quantification www.biorxiv.org/content/10.6...
biorxiv.org
https://www.biorxiv.org/content/10.64898/2026.07.17.739095v1
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
A variant rRNA serves as a translational repressor in Plasmodium falciparum www.biorxiv.org/content/10.6...
biorxiv.org
https://www.biorxiv.org/content/10.64898/2026.06.17.732804v2
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
Selective dissociation of vacant 70S ribosomes by RsfS promotes bacterial adaptation to nutrient starvation www.biorxiv.org/content/10.1...
biorxiv.org
https://www.biorxiv.org/content/10.1101/2024.03.23.586405v2
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
Quantitative profiling of basal and stress-induced ribosome collisions www.biorxiv.org/content/10.6...
biorxiv.org
https://www.biorxiv.org/content/10.64898/2026.07.21.739814v1
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
T4 phage RNA is NAD-capped and alters the NAD-cap epitranscriptome of Escherichia coli during infection www.biorxiv.org/content/10.1...
biorxiv.org
https://www.biorxiv.org/content/10.1101/2024.04.04.588121v2
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
Atlas of stress-induced changes in yeast tRNA modification levels www.biorxiv.org/content/10.6...
biorxiv.org
https://www.biorxiv.org/content/10.64898/2026.08.17.745200v1
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
Anticodon nucleotide modifications affect translational tuning by the ribosomal CAR surface www.biorxiv.org/content/10.6...
biorxiv.org
https://www.biorxiv.org/content/10.64898/2026.07.29.740946v1
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
A revised genome annotation of the model cyanobacterium Synechocystis based on start and stop codon-enriched ribosome profiling and proteogenomics www.biorxiv.org/content/10.6...
biorxiv.org
https://www.biorxiv.org/content/10.64898/2025.12.20.695498v3
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 19/08/2026
Queuosine tRNA modification regulates translational adaptation and virulence of Leishmania mexicana journals.plos.org/plosbiology/...
journals.plos.org
Queuosine tRNA modification regulates translational adaptation and virulence of Leishmania mexicana
Regulation of gene expression in the protozoan parasite Leishmania mexicana is known to be largely post-transcriptional, but the control of these processes is still not fully understood. This study…
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 18/08/2026
academic.oup.com/nar/article/... 🦠
academic.oup.com
The leading region of many plasmids is adapted for translational efficiency
Abstract. To successfully transfer, conjugative plasmids must overcome a recipient cell’s defence mechanisms. The leading region of many plasmids—the first
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Reposted by Zeynep Baharoglu
Frances Yap @ribo1214.bsky.social · 18/08/2026
#RNASky @zeynepbaharoglu.bsky.social
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 17/08/2026
stress ribosomes? 🦠 Deletion of the ribosomal protein gene rpmJ activates zntA transcription through a translation-dependent mechanism in Escherichia coli doi.org/10.64898/202...
doi.org
https://doi.org/10.64898/2026.08.06.743257
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 17/08/2026
academic.oup.com/nar/article/...
academic.oup.com
Comprehensive post-transcriptional modification profiles in individual Staphylococcus aureus tRNA species
Abstract. Post-transcriptional modifications modulate transfer RNA (tRNA) structure, stability, and codon decoding properties, contributing to translation
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 17/08/2026
academic.oup.com/nar/article/... 🦠
academic.oup.com
MiaA-mediated tRNA modifications couple tryptophan attenuation and changes in tRNA abundance to complex phenotypes in Pseudomonas aeruginosa
Abstract. Transfer RNA (tRNA)-modifying enzymes are emerging as key regulators of bacterial physiology. MiaA, a tRNA isopentenyltransferase, is well studie
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 17/08/2026
A detailed molecular picture of protein folding during active translation doi.org/10.64898/202...
doi.org
https://doi.org/10.64898/2026.07.03.736445
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 17/08/2026
Climate change and AMR 🦠https://www.nature.com/articles/s41579-026-01285-z
nature.com
Climate change and antimicrobial resistance - Nature Reviews Microbiology
In this work, Kalanxhi and Laxminarayan review the evidence supporting the links between climate change and antimicrobial resistance, highlight opportunities for action and identify areas wherein furt...
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