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John Helmann

@johnhelmann.bsky.social
2.1K followers 618 following 48 posts

Professor at Cornell Univ. Bacillus subtilis physiology and stress responses (metal homeostasis, redox stress, antibiotic resistance & cell envelope). EIC of Mol Microbiol.

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John Helmann @johnhelmann.bsky.social · 23/09/2026
Bacillus subtilis biofilm formation is strongly stimulated by manganese. New results from Sachla et al. show that a Mn export protein (MeeY) and YybP are important for biofilm regulation, maturation, and proper matrix metalation 🎉🧪🦠 #Microsky www.nature.com/articles/s41...
nature.com
MeeY and YybP, two proteins regulated by manganese-sensing riboswitches, are required for Bacillus subtilis biofilm formation - npj Biofilms and Microbiomes
npj Biofilms and Microbiomes - MeeY and YybP, two proteins regulated by manganese-sensing riboswitches, are required for Bacillus subtilis biofilm formation
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John Helmann @johnhelmann.bsky.social · 09/09/2026
Most cells require carbonic anhydrase and/or bicarbonate import to sustain pools of soluble inorganic carbon (SIC=CO2+HCO3-). Here, we identify proteins required for SIC homeostasis in Bacillus subtilis and identify a mutation that bypasses their requirement. www.biorxiv.org/content/10.6...
biorxiv.org
Physiological Roles of Carbonic Anhydrases and an MpsAB-like Bicarbonate Transporter in Bacillus subtilis
Carbonic anhydrase (E.C. 4.2.1.1) is an enzyme that catalyzes the reversible hydration of CO2 to carbonic acid (H2CO3), which dissociates to bicarbonate (HCO3-) at intracellular pH. Copious amounts of...
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George O'Toole (he/him/his) @geiselbiofilm.bsky.social · 08/09/2026
New in JB: Rangarajan and Waters review the role of divalent metals, particularly Mn2+, Mg2+, Zn2+, Ca2+, and Fe2+, in c-di-GMP signaling, including how these metals impact DGC and PDE enzyme activity. journals.asm.org/doi/10.1128/... @asm.org #JBacteriol @microsky.bsky.social
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Prof. Ruth Ley FRS @microbiome.bsky.social · 19/08/2026
A great review by the great @staceyheaver.bsky.social - all about bacterial lipids and their interactions with the host 🧪🧫🦠
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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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Maria Mercedes (Mechas) Zambrano @mezambra.bsky.social · 20/08/2026
A beautiful perspective on science and the global impact of journals like JB. A journal that grows older and stays young | Journal of Bacteriology journals.asm.org/doi/10.1128/...
journals.asm.org
A journal that grows older and stays young | Journal of Bacteriology
Few journals in microbiology carry the history, continuity, and influence of the Journal of Bacteriology (JB). Since its founding in 1916, JB has published for more than a century and has served as a ...
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anna brogan @apbrogan.bsky.social · 18/08/2026
This is now published! For those interested in microbial mechanotransduction: www.cell.com/current-biol...
cell.com
Microbial GAIN domains undergo autoproteolysis and enable release of diverse cell-surface-associated proteins
Brogan and Rudner report the identification of a microbial autoproteolytic domain that is structurally homologous to the GAIN domain of eukaryotic adhesion GPCRs. Rather than participating in transmem...
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Kelley Gallagher @kelleygallagher.bsky.social · 07/08/2026
Excited to share our lab's first paper on the evolution of a c-di-GMP-controlled sigma factor: journals.asm.org/doi/10.1128/...
journals.asm.org
Regulatory divergence and functional diversification of a c-di-GMP-controlled sigma factor in Actinomycetota | mSystems
Mounting global responses to dynamic environmental conditions is a crucial function that bacterial cells must perform. Global regulatory networks are most often studied in individual species, however,...
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John Helmann @johnhelmann.bsky.social · 22/06/2026
Yesha Patel here reviews how mutations in RNAP contribute to antibiotic resistance, with examples from both laboratory evolution and clinical settings. www.sciencedirect.com/science/arti... This work builds on two of her prior papers (PMIDs: 36779708 and 39908144). #MicroSky #antibiotics
sciencedirect.com
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Suckjoon Jun’s lab at UCSD @junlab.bsky.social · 18/06/2026
1/ Out today in Science (@science.org): a result a decade in the making, and one that changed how I think about what cells are doing when they grow. We found a bacterium that grows slower than it could. And we found the molecular switch that lets us reverse it.
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Molecular Microbiology @molmicrounihoh.bsky.social · 16/06/2026
🫴 Cannibalism shapes biofilm structure and composition in Bacillus subtilis: | mBio journals.asm.org/doi/10.1128/... @mbio.bsky.social #subtiwiki
journals.asm.org
Cannibalism shapes biofilm structure and composition in Bacillus subtilis | mBio
Programmed cell death (PCD) is a ubiquitous and crucial mechanism to structure eukaryotic multicellular tissues. PCD-like processes have also been described in bacteria, but their contribution to mult...
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Jan-Ulrik Dahl (Dahl lab, ISU) @janulrikdahl.bsky.social · 10/06/2026
Published in Infection and Immunity, Gracious Donkor and I explore the diverse mechanisms microbes employ to withstand ROS-mediated stress and discuss recent efforts to harness oxidative stress responses as a potential strategy for developing new antimicrobials. journals.asm.org/doi/10.1128/...
journals.asm.org
Implications of bacterial exposure to reactive oxygen and chlorine species | Infection and Immunity
Molecular oxygen (O2) is the preferred terminal electron acceptor of the electron transport chain due to its high redox potential and is therefore an essential driver of cellular metabolism in aerobic...
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John Helmann @johnhelmann.bsky.social · 09/06/2026
New insights into copper physiology in Bacillus subtilis. The outlines of the pathway for copper import and trafficking to support aerobic growth are emerging. Work led by Grayson Barnes, with support from our collaborators. doi.org/10.1128/mbio... #microsky #metalsinbiology
doi.org
Pathways of copper import and utilization that support respiration in Bacillus subtilis | mBio
Copper is a critical micronutrient for bacteria; however, it is toxic in excess. This leads to the cell having tightly regulated import and export systems to prevent intoxication while having sufficient copper for cellular needs. Copper export has been well studied, but copper import and the effects of copper starvation are less defined. In this article, we characterize the Bacillus subtilis high-affinity copper importer YcnJ. We show that under copper limitation, the cell is deficient in copper-containing oxidases, which leads to respiratory defects. Copper imported by YcnJ is proposed to function in a pathway with other proteins implicated in the assembly of respiratory oxidases. More generally, this work contributes to the underexplored area of copper import and trafficking in bacteria.
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Luiz Pedro Carvalho, PhD @luizcarvalholab.bsky.social · 04/06/2026
@agnese75.bsky.social's work is out. She shows that under iron starvation M. tuberculosis splits flux through the Krebs cycle and secretes metabolites, akin of fermentation. Why is this important? Metabolic flexibility is what makes it so hard to kill in vivo. elifesciences.org/reviewed-pre...
elifesciences.org
Mycobacterium tuberculosis partitions the Krebs cycle under iron starvation
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Clay Fuqua @fuquaclay.bsky.social · 04/06/2026
See our new latest pre-print for a study led by grad student Ian Reynolds, with current and former undergrads Isabel Westin and Caleb Wood in the lab. A study that goes to show how so many cell surface processes are connected to each other in bacteria. www.biorxiv.org/content/10.6...
biorxiv.org
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Julia Frunzke @frunzkelab.bsky.social · 04/06/2026
Now out in @pnas.org 🥳 "DNA-intercalating antiphage molecules trigger abortive infection through mutual destruction and synergize with bacterial immunity" --> bad timing can kill you, even as a virus. www.pnas.org/doi/10.1073/... @spp2330.bsky.social, @mibinet.bsky.social, @dfg.de
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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Gerry Wright @gdwantibiotics.bsky.social · 04/06/2026
The latest from the lab. Manikomycin, a new cyclic depsipeptide antibiotic from an 'old' source, the oxytetracycline producer Streptomyces rimosus. Still lots to be learned from this genus! Manikomycin blocks the E-site of the bacterial ribosome. A first. links.springernature.com/f/a/Q0JMeeZK...
links.springernature.com
A natural depsipeptide antibiotic binds the E-site of the bacterial ribosome - Nature
Improved fractionation strategies can identify antibiotics with previously unseen scaffolds and mechanisms, exemplified by manikomycin from Streptomyces rimosus, which acts by targeting the E-site of ...
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Julia Frunzke @frunzkelab.bsky.social · 03/06/2026
Please RT: Registration is ongoing for our International Symposium "Microbial Networking - from organelles to cross-kingdom communities" organized as highlight of the first funding period of CRC 1535 @mibinet.bsky.social www.sfb1535.hhu.de/internationa... @dfg.de, @hhu.de, @fz-juelich.de
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Cameron Thrash @jcamthrash.bsky.social · 20/05/2026
A redox- and proton-coupled inner membrane transporter mediates copper import to the bacterial cytoplasm www.pnas.org/doi/10.1073/... #jcampubs
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 16/05/2026
Mutations in MreB suppress β-lactam sensitivity upon c-di-AMP accumulation in Listeria monocytogenes www.biorxiv.org/content/10.64898/20…
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Ahmad Jomaa @jomaalab.bsky.social · 13/05/2026
Excited to share our work uncovering SNOR, a ribosome-associated factor that promotes translation restart after dormancy published in Nature!! This was, as usual, a wonderful collaborative effort between our group and the Mattei Lab @simonemattei.bsky.social @embl.org www.nature.com/articles/s41...
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Youssef El Mouali @youssefelmouali.bsky.social · 07/05/2026
New paper out in @cp-cellhostmicrobe.bsky.social! Microbes evolving with modern lifestyles 🧬🦠 S. copri uses PerR to manage oxygen stress, but some strains acquired OxyR via HGT, boosting oxygen tolerance. These strains are enriched in industrialized populations. www.cell.com/cell-host-mi...
cell.com
Biogeography-associated emergence of enhanced oxygen tolerance in the abundant human gut commensal Segatella copri
El Mouali and Tawk et al. characterize the oxygen-tolerance response in the human gut-residing bacterium Segatella copri. They identified a subset of strains that acquired an additional oxygen regulat...
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Hypothesis Fund @hypothesisfund.bsky.social · 16/04/2026
5/ Awardee @heatherfeaga.bsky.social is investigating how bacteria decide when to go dormant💤 (ie, form spores). Her project could lead to important new advancements in the management of spore-forming bacteria in the environment, hospitals, & food supply. 🎉 Congrats Dr. Feaga! 🙏 #HFScout Dipti Nayak
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John Helmann @johnhelmann.bsky.social · 14/03/2026
tagging @doerrlab.bsky.social New work from Tobi Dorr's lab (Cornell): Beta-lactam exposure can deplete nucleotide levels, and targeting nucleotide synthesis synergizes with β-lactam-mediated killing in V. cholerae, Klebsiella pneumoniae and E. coli.
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BejaLabTechnion @bejalab.bsky.social · 25/02/2026
Convergent MurJ flippase inhibition by phage lysis proteins www.nature.com/articles/s41...
nature.com
Convergent MurJ flippase inhibition by phage lysis proteins - Nature
A common mechanism of inhibition of the essential lipid II flippase MurJ by three distinct phage-encoded single-gene lysis proteins provides insights into potential new targets for antimicrobial devel...
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Ákos T Kovács @evolvedbiofilm.bsky.social · 25/02/2026
See our newest manuscript dissecting emergent functions in a multispecies biofilm (metabolite cross-feeding, siderophore induction and cross-species utilization) that translates to plant growth promotion Great work by @jiyuxie.bsky.social and Xinli Sun www.biorxiv.org/content/10.6...
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Kathryn (Katy) Appler @katyappler.bsky.social · 18/02/2026
At long last! Check out the link to our publication in @nature.com to learn more. doi.org/10.1038/s415... 12/12
doi.org
Oxygen metabolism in descendants of the archaeal-eukaryotic ancestor - Nature
Sequencing of marine sediments finds 136 newly identified Heimdallarchaeia and several novel lineages, and indicates that Heimdallarchaeia evolved distinct metabolic capabilities from other Asgar...
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Yves Brun lab @brunlabcaulo.bsky.social · 18/02/2026
Thank you for highlighting our paper on how septal PG hydrolysis licenses a second wave of PG transpeptidation during cell separation! www.nature.com/articles/s41.... I will do a thread when the page set version is out.
nature.com
Cell wall hydrolysis promotes a second wave of transpeptidation to achieve cell separation following septation in Bacillus subtilis - Nature Communications
Cell division in many Gram-positive bacteria involves the synthesis of a peptidoglycan septum that is then hydrolyzed to facilitate cell separation. Here the authors show that, after septum formation,...
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Grainger Lab @graingerlab.bsky.social · 06/02/2026
@ewarman.bsky.social has followed up on her discovery of bidirectional promoters in bacteria by defining their basic rules for regulation and links to gene expression noise... academic.oup.com/nar/article/...
academic.oup.com
Bidirectional promoters in Escherichia coli: regulatory rules and implications for gene expression noise
Abstract. In prokaryotes, bidirectional promoters are pseudo-symmetrical DNA sequences that stimulate divergent transcription. Ubiquitous, and far more lik
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Nature Communications @natcomms.nature.com · 02/02/2026
#Microbiology The anti-tuberculosis drug bedaquiline targets the mycobacterial ATP synthase, but how that leads to bacterial death is unclear Here the authors clarify how bedaquiline works @jnblab.bsky.social @morwan.me #TBSky #antibiotics #AMR dlvr.it/TQjZ0W
Cartoon representing the mycobacterial oxidative phosphorylation system, including cytochromes, NDH-2, and ATP synthase. Taken from Figure 1 of the article.
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Syma Khalid @sykhalid.bsky.social · 02/02/2026
A gift of an article from the inimitable Colin Kleanthous as he says a moving farewell to his laboratory. A brave, unrepentant and scientifically brilliant journey is described - please have a read, friends. www.jbc.org/article/S002...
jbc.org
Bacteriocin biophysics: From protein-protein interaction models to navigators of the bacterial cell envelope
Bacteriocins are toxins deployed by bacteria to kill their competitors. Here, I reflect on my laboratory’s work on protein bacteriocins and their immunity proteins from Gram-negative bacteria. We unco...
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Freya Harrison @friendlymicrobe.bsky.social · 29/01/2026
Why should microbiologists be interested in historical infection remedies, and how can we best investigate them for antimicrobial discovery? Thoroughly enjoyed co-writing this Microbiology Primer with @tosinorababa.bsky.social www.microbiologyresearch.org/content/jour... #MicroSky #Ancientbiotics
microbiologyresearch.org
Microbial Primer: Ancientbiotics – making modern antimicrobials from historical infection remedies
The modern antibiotic era began in the early twentieth century, but humans have long used materials from the natural world to attempt to treat the symptoms of infection. In this primer, we will discus...
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christoph_STCmicrobeblog @christophstc.bsky.social · 28/01/2026
www.planktoscope.org
planktoscope.org
PlanktoScope
Open and frugal modular imaging platform for citizen oceanography
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 23/01/2026
CuiT is a Cu importer required for metal homeostasis in Salmonella enterica www.biorxiv.org/content/10.64898/20…
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Rock Lab @rocklabtb.bsky.social · 17/01/2026
Congrats @regolab.bsky.social! 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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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 15/01/2026
Regulatory divergence and functional diversification of a c-di-GMP-controlled sigma factor in Actinomycetota www.biorxiv.org/content/10.64898/20…
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Wiep Klaas Smits (ExpBac/CMAT) @smitslab.bsky.social · 12/01/2026
The Bacillus subtilis class A penicillin-binding protein 4 (PBP4) requires an accessory protein RpdA www.biorxiv.org/content/10.6...
biorxiv.org
The Bacillus subtilis class A penicillin-binding protein 4 (PBP4) requires an accessory protein RpdA
Peptidoglycan (PG) synthesis is essential to maintain cell integrity during bacterial growth and division. In Bacillus subtilis, PG synthesis involves class A PBPs that act independently and class B P...
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Molecular Microbiology @molmicrounihoh.bsky.social · 11/01/2026
🫴 A mechanotransduction mechanism for antibiotic defense in Gram-positive bacteria (Bacillus subtilis, with some interesting suppressor mutants): In Structure www.cell.com/structure/fu... #subtiWiki #subtilis
cell.com
A mechanotransduction mechanism for antibiotic defense in Gram-positive bacteria
In this issue of Structure, Yu et al. show that the Bacillus subtilis ytr operon encodes two distinct ABC transporters. The authors present the cryo-EM structures of YtrEF in the apo and ADP-vanadate-...
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Jeremy Baskin @jeremybaskin.bsky.social · 07/01/2026
Thrilled to share our latest study, led by @reikatei.bsky.social, in @natchembio.nature.com! We began by asking a simple question—how do cells know if they have too much of a lipid in a particular membrane, and how do they respond to rectify this imbalance? www.nature.com/articles/s41... More info 👇
nature.com
Membrane editing with proximity labeling reveals regulators of lipid homeostasis - Nature Chemical Biology
Coupling an optogenetic lipid-modifying enzyme with proximity labeling reveals protein networks and mechanisms regulating lipid homeostasis in the membranes of target organelles.
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Christina Stallings @stallingslab.bsky.social · 06/01/2026
Registration is open for the 2026 Gordon Research Conference on Microbial Stress Response to be held on July 19-24 2026!! Submit your abstract by February 15th to be considered for a short talk. Apply now before it fills up!! Hope to see you there!! www.grc.org/microbial-st...
grc.org
2026 Microbial Stress Response Conference GRC
The 2026 Gordon Research Conference on Microbial Stress Response will be held in South Hadley, Massachusetts. Apply today to reserve your spot.
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Ute Hellmich @hellmichgroup.bsky.social · 31/12/2025
🧪HAPPY 2026 EVERYONE!!!! 🥂🍾🥳 When you enjoy your bubbly this evening, do spare a thought about carbonic anhydrase - it's an amazing enzyme (almost as fast as 2025 felt! 😜), and it turns out, it's also responsible for tasting CO2's "fizziness"!!! 🍾 www.science.org/doi/10.1126/...
science.org
The Taste of Carbonation
The enzyme carbonic anhydrase mediates the taste sensation of carbonated drinks.
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Heather Feaga @heatherfeaga.bsky.social · 30/12/2025
This work was also our first time doing membrane localization (way to go Cassidy)! And so proud of Bella’s gorgeous Paenibacillus tree showing the distribution of the transmembrane containing Spo0B! Also it’s the lab’s first paper without ribosomes 🫨, but don’t worry - the ribosomes made the Spo0B!
Microscopy images showing membrane localization of Spo0B fused to GFPPhylogenetic tree showing that most species within Paenibacillus have a transmembrane domain containing Spo0B
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Willem van Schaik @wvschaik.bsky.social · 27/12/2025
Interesting new paper on Enterococcus lactis (the species formerly known as Clade B E. faecium) 'The Mannose Phosphotransferase System in Enterococcus lactis Is Essential for Gastrointestinal Colonization' onlinelibrary.wiley.com/doi/abs/10.1...
onlinelibrary.wiley.com
The Mannose Phosphotransferase System in Enterococcus lactis Is Essential for Gastrointestinal Colonization
Enterococcus lactis, a recently established species that was previously classified as Enterococcus faecium clade B. Given its recent taxonomic classification, studies on this bacterium are scarce, an...
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Amir Mitchell @amitchell.bsky.social · 22/12/2025
Our recent paper in npj Antimicrobials and Resistance is a great example of scientific serendipity: after staring at thousands of bacterial growth curves over many studies, we started wondering whether the curve shapes themselves carry mechanistic information 1/9 🦠🧪 www.nature.com/articles/s44...
nature.com
Predicting drug inactivation by changes in bacterial growth dynamics - npj Antimicrobials and Resistance
npj Antimicrobials and Resistance - Predicting drug inactivation by changes in bacterial growth dynamics
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Luiz Pedro Carvalho, PhD @luizcarvalholab.bsky.social · 22/12/2025
We’re excited to share our latest study that reshapes our understanding of Mycobacterium tuberculosis (Mtb) lipid composition, with major implications for drug discovery, immunity, and vaccine development. www.nature.com/articles/s41... A thread.
nature.com
Mycobacterium tuberculosis overcomes phosphate starvation by extensively remodelling its lipidome with phosphorus-free lipids - Nature Communications
Here, the authors show that Mycobacterium tuberculosis manipulates lipid metabolism to overcome host restriction, by remodelling its lipidome and utilising host lipids as an alternative phosphate sour...
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Ákos T Kovács @evolvedbiofilm.bsky.social · 18/12/2025
The FsrA-Mediated Iron-Sparing Response Regulates the Biosynthesis of the Epipeptide EPE in Bacillus subtilis #MolMicrobiol by Sarah Miercke, Rabea Ghandour, Kai Papenfort and Thorsten Mascher onlinelibrary.wiley.com/doi/10.1111/...
onlinelibrary.wiley.com
The FsrA‐Mediated Iron‐Sparing Response Regulates the Biosynthesis of the Epipeptide EPE in Bacillus subtilis
Under iron-limited conditions, FsrA base-pairs with the intergenic region between epeX and epeE, enhancing epeE translation and triggering EPE production. Toxin-mediated cell lysis releases nutrients....
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Ákos T Kovács @evolvedbiofilm.bsky.social · 06/12/2025
Contribution of the Bacillus subtilis ytrGABCDEF operon to antibiotic stress adaptation Microbiology Spectrum from from Michaela Wenzel at Chalmer University of Technology, Gothenburg journals.asm.org/doi/10.1128/...
journals.asm.org
Contribution of the Bacillus subtilis ytrGABCDEF operon to antibiotic stress adaptation | Microbiology Spectrum
The Bacillus subtilis ytrGABCDEF operon is a reliable and specific marker for the inhibition of cell wall biosynthesis by antibiotics. It has therefore advanced as a common reporter in transcriptomic,...
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Ákos T Kovács @evolvedbiofilm.bsky.social · 06/12/2025
Spx inhibits expression of the SwrA•DegU master flagellar activator in Bacillus subtilis -in JBacteriol journals.asm.org/doi/10.1128/...
journals.asm.org
Spx inhibits expression of the SwrA•DegU master flagellar activator in Bacillus subtilis | Journal of Bacteriology
Bacterial flagella are elaborate machines that are inserted through the bacterial cell envelope. The regulation of flagellar gene expression is organized in hierarchical tiers that largely correlate w...
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Jennifer Goff, PhD @jlgoff.bsky.social · 24/11/2025
journals.asm.org/doi/10.1128/... We have a new paper out, led by my PhD student Linda! Ni and Cu are common co-occurring contaminants. They are also synergistic in their toxicity. We examined the mechanisms of this synergism, finding that sulfur assimilation and Fe-S cluster biogenesis are targets.
journals.asm.org
The molecular basis of the synergistic toxicity of nickel and copper, common environmental co-contaminants | Applied and Environmental Microbiology
Many environments are contaminated by metals. These metals are toxic to the microorganisms that inhabit these environments and carry out important ecosystem services. While much is known about bacteri...
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Jörg Stülke @joergstuelke.bsky.social · 29/10/2025
Cool new paper on the structure and possible function of the type VII ABC transporter YtrEF in cell wall remodeling in Bacillus subtilis! #SubtiWiki www.sciencedirect.com/science/arti...
sciencedirect.com
Structural analysis of a Gram-positive type VII ABC transporter induced by cell wall-targeting antibiotics
Bacteria utilize a variety of mechanisms to remodel the cell wall in response to environmental and antimicrobial stress. In the model organism Bacillu…
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