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350 results for “antibacterial”
Dataset / Code: Targeted protein degradation in mycobacteria uncovers antibacterial effects and potentiates antibiotic efficacy
<p><strong>Targeted protein degradation in mycobacteria uncovers antibacterial effects and potentiates antibiotic efficacy</strong></p> <p><strong> </strong></p> <p>Harim I. Won<sup>1,#</sup>, Samuel Zinga<sup>1,#</sup>, Olga Kandror<sup>1</sup>, Tatos Akopian<sup>1</sup>, Ian D. Wolf<sup>1</sup>, Jessica T.P. Schweber<sup>1</sup>, Ernst W. Schmid<sup>2</sup>, Michael C. Chao<sup>1</sup>, Maya Waldor<sup>1</sup>, Eric J. Rubin<sup>1,*</sup>, Junhao Zhu<sup>1,3,*</sup></p> <p><strong> </strong></p> <p><sup>1</sup>Department of Immunology and Infectious Diseases, Harvard T.H. Chan School of Public Health, Boston, Massachusetts 02115, USA.</p> <p><sup>2</sup>Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Blavatnik Institute, Boston, Massachusetts 02115, USA.</p> <p><sup>3</sup>CAS Key Laboratory of Pathogen Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China.</p> <p><sup>#</sup>These authors contributed equally to this work.</p> <p>*Corresponding authors: <a href="mailto:zhujh@im.ac.cn">zhujh@im.ac.cn</a> (J.Z.), <a href="mailto:erubin@hsph.harvard.edu">erubin@hsph.harvard.edu</a> (E. J. R.)</p> <p><strong> </strong></p> <p><strong>Abstract</strong></p> <p>Proteolysis-targeting chimeras (PROTACs) represent a new therapeutic modality involving selectively directing disease-causing proteins for degradation through proteolytic systems. Our ability to exploit targeted protein degradation (TPD) for antibiotic development remains nascent due to our limited understanding of which bacterial proteins are amenable to a TPD strategy. Here, we use a genetic system to model chemically-induced proximity and degradation to screen essential proteins in <em>Mycobacterium smegmatis </em>(<em>Msm</em>)<em>, </em>a model for the human pathogen <em>M. tuberculosis </em>(<em>Mtb</em>). By integrating experimental screening of 72 protein candidates and machine learning, we find that drug-induced proximity to the bacterial ClpC1P1P2 proteolytic complex leads to the degradation of many endogenous proteins, especially those with disordered termini. Additionally, TPD of essential <em>Msm </em>proteins inhibits bacterial growth and potentiates the effects of existing antimicrobial compounds. Together, our results provide biological principles to select and evaluate attractive targets for future <em>Mtb</em> PROTAC development, as both standalone antibiotics and potentiators of existing antibiotic efficacy.</p> <p> </p>
Dataset for: The antibacterial activity of peptide dendrimers and polymyxin B increases sharply above pH 7.4
<p>The upload contains additional primary data associated with the publication, including raw data in the original file format whenever possible.</p> <p>Data content: HRMS, HPLC-MS, pH titration, CD, MD, TEM</p> <p> </p>
Antibacterial Hydrogel Adhesives based on Bifunctional Telechelic Dendritic-Linear-Dendritic Block Copolymers
<p><span>Antibiotic resistant pathogens have been declared by WHO as one of the major public health threats facing humanity.<span> </span>For that reason, there is an urgent need for materials with inherent antibacterial activity able to replace the use of antibiotics, and in this context, hydrogels have emerged as a promising strategy. Herein, we introduce the next generation of cationic hydrogels with antibacterial activity and high versatility that can be cured on demand in less than twenty seconds by using Thiolene Click Chemistry (TEC) in aqueous conditions. The approach capitalizes on a two-component system: i) telechelic polyester based Dendritic-Linear-Dendritic (DLDs) block copolymers of different generations heterofunctionalized with allyl and ammonium groups, as well as ii) polyethylene glycol (PEG) crosslinkers functionalized with thiol groups. These hydrogels resulted in highly tunable materials where the antibacterial performance can be adjusted by modifying the crosslinking density. Off-stoichiometric hydrogels showed narrow antibacterial activity directed towards Gram-negative bacteria. The presence of pending allyls opens up many possibilities for functionalization with biologically interesting molecules. <span> </span>As a proof-of-concept, hydrophilic cysteamine hydrochloride as well as N-hexyl-4-mercaptobutanamide, as an example of a thiol with a hydrophobic alkyl chain, generated three-component networks. In the case of cysteamine derivatives, a broader antibacterial activity was noted than the two-component networks, inhibiting also the growth of Gram-positive bacteria. Additionally, these systems presented high versatility, with storage modulus values ranging from 270 to 7024 Pa and different stability profiles ranging from 1 to 56 days in swelling experiments. Good biocompatibility towards skin cells as well as strong adhesion to multiple surfaces, place these hydrogels as interesting alternatives to conventional antibiotics.</span></p>
Dataset for the article "Capping agent control over the physicochemical and antibacterial properties of ZnO nanoparticles".
<p>Dataset for the article "Capping agent control over the physicochemical and antibacterial properties of ZnO nanoparticles".</p> <p>David Rutherford1, Markéta Šlapal Bařinková1, Thaiskang Jamatia2, Pavol Šuly2, Martin Cvek2, Bohuslav Rezek1</p> <p><br>1 Faculty of Electrical Engineering, Czech Technical University in Prague, Technická 2, 16227 Prague, Czech Republic<br>2 Centre of Polymer systems, Tomas Bata University in Zlin, Trida T. Bati 5678, 760 01 Zlín, Czech Republic</p> <p><br>Dataset description:</p> <p>240909 UV-vis_capped_ZnO.xlsx UV-vis spectroscopy<br>220623 ZnO Zlin Zn ion.xlsx Zinc ion measurement<br>230511 dls_zeta_data.xlsx DLS & zeta potential measurement<br>230221 ZnO_Zlin_MIC_MASTER.xlsx Minimum inhibitory concentration</p>
Antibacterial Cu or Zn-MOFs Based on the 1,3,5-Tris-(styryl)benzene Tricarboxylate
<p>Metal–organic frameworks (MOFs) are highly versatile materials. Here, two novel MOFs, branded as IEF-23 and IEF-24 and based on an antibacterial tricarboxylate linker and zinc or copper cations, and holding antibacterial properties, are presented. The materials were synthesized by the solvothermal route and fully characterized. The antibacterial activity of IEF-23 and IEF-24 was investigated against Staphylococcus epidermidis and Escherichia coli via the agar diffusion method.<br>These bacteria are some of the most broadly propagated pathogens and are more prone to the development of antibacterial resistance. As such, they represent an archetype to evaluate the efficiency of novel antibacterial treatments. MOFs were active against both strains, exhibiting higher activity against Staphylococcus epidermidis. Thus, the potential of the developed MOFs as antibacterial agents was proved.</p>
FESEM after antibacterial test on Ti- bulk metallic glass compared with Ti6Al4V
<p>Field Emission scanning electron microscopy of Ti40Zr10Cu36Pd14 and Ti6Al4V after 24 h of antibacterial test with Aggregatibacter</p>
Field Emission Scanning Electron microscopy from Zr-Cu-Ag metallic glass coatings after antibacterial test with E.Coli
<p>Field Emission Scanning Electron Microscopy Figures from metallic glass (Zr-Cu-Ag) antibacterial coatings. Coatings have the name SP in their file name. The non-coated comparison is PBT. This is after the antibacterial test with <em>E.coli</em> after 24 hours. </p>
Metabolic profiling and antibacterial activity of tree wood extracts obtained under variable extraction conditions
<p>Scripts and dataset for Vinchira-Villarraga et al., 2024 "Metabolic profiling and antibacterial activity of tree wood extracts obtained under variable extraction conditions". The files label as A1, C6, H2/HCN2 and O1 correspond to the dataset obtained for Ash, Cherry, Horse-chestnut and Oak respectively. </p> <p>_batch.xml files contains the script for the pre-processing of .mzML mass spectrometry data created on MzMine 3.2.8. The file can be uploaded to newer versions of MzMine, but due to the addition of new modules, some parameters name have changed.</p> <p>_SIRIUS.mfg files contains the mass spectrometry data of each dataset for analysis in SIRIUS. The files were used for chemical formula prediction, classification and compound annotation using SIRIUS 5.0</p> <p>_quant.csv correspond to the output matrix as it was obtained from MzMine without noise, adducts and highly variable features filtering.</p> <p>_abundance.csv correspond to the output matrix after noise, adducts and highly variable features filtering.</p>
Figure 5 in Morphofunctional characterization and antibacterial activity of haemocytes from Octopus vulgaris
Figure 5. Micrograph of Octopus vulgaris cultured haemocytes showing phagocytic activity. Arrows indicate the phagocytosed yeast particles. Scale bar = 10 μm.
Figure 8 in Morphofunctional characterization and antibacterial activity of haemocytes from Octopus vulgaris
Figure 8. Bactericidal activity of Octopus vulgaris haemocyte crude methanolic acid extract (HMAE). The graph shows the inibition of E. coli growth in the presence of increasing concentrations of HMAE: at 0.2 μg/ml HMAE the bacterial growth is dramatically reduced, while at 0.8 μg/ml it is completely inhibited.
Figure 1 in Morphofunctional characterization and antibacterial activity of haemocytes from Octopus vulgaris
Figure 1. Differential interference contrast micrographs showing different types of haemocytes in culture plate: (A) haemoblast-like cell without pseudopodia; (B) two hyalinocytes connecting each other with pseudopodia; (C) well-attached granulocyte showing dendritic pseudopodia formation; (D) graph showing the ratio among the three haemocyte types. Scale bar = 5 μm.
Figure 4 in Morphofunctional characterization and antibacterial activity of haemocytes from Octopus vulgaris
Figure 4. Light microscopy micrographs of Octopus vulgaris haemocytes processed with enzymatic histochemistry analysis: (A) granulocytes showing a peroxidase activity localized as dark brown deposits; (B) haemoblast-like cells with phenol oxidase activity; (C) hyalinocytes with phenol oxidase activity; (D) granulocytes showing phenol oxidase activity. Scale bar = 5 μm.
Figure 3 in Morphofunctional characterization and antibacterial activity of haemocytes from Octopus vulgaris
Figure 3. Light microscopy micrographs of haemocytes stained with Giemsa/May–Grünwald stain: (A) acidophilic haemoblast-like cells (arrowheads) and granulocytes with acidophilic cytoplasm and cells (arrows); (B) hyalinocytes with basophilic nucleus and cytoplasm filled with vacuoles and few granules; (C) granulocytes cells with basophilic cytoplasm. Scale bar 5 μm.
In vitro antibacterial activity of microbial natural products against bacterial pathogens of veterinary and zoonotic relevance
<p>Supplemental material to the publication "<i>In vitro</i> antibacterial activity of microbial natural products against bacterial pathogens of veterinary and zoonotic relevance"</p>
Determination of antibacterial and photothermal properties of novel composites based on graphene oxide/reduced graphene oxide, gold nanoparticles, and graphene quantum dots
<p>HR-TEM.zip - HR-TEM files, file type .jpg</p> <p>FTIR.zip - FTIR spectra, file type .spa</p> <p>Photoluminescence.zip - PL spectra, file type .opju</p> <p>UV-Vis.opju - Origin file with UV-Vis spectra combined</p> <p>Raman 532 nm.opju - Origin file with Raman spectra combined</p> <p>ABDA.opju - Origin file with singlet oxygen production measurements</p> <p>Contact angle.png - Image with contact angle values</p> <p>Antibacterial analysis.png - Image representing antibacterial growth inhibition analysis</p> <p>XRD.zip - XRD spectra, file type .dat</p>
Light-activated molecular machines display broad spectrum antibacterial action
<p>TEM images of <em>E. coli</em> treated with 1% DMSO or 0.5x MIC of different visible light-activated molecular machines. Light-activated molecular machines (MM) are synthetic molecular structures that, following light activation, undergo successive unidirectional rotation that results in a drilling-like rapid motion that can thrust the motor through biological membranes. Transmission electron microscopy (TEM) images revealed that treatment of <em>E. coli</em> with 0.5x MIC of different MM (DL-654, DL-877, DL-878) followed by activation with 42.6 J cm<sup>-2</sup> of 405 nm light resulted in substantial changes in cell morphology including the detachment of the inner membrane from the cell wall, damage to peptidoglycan, distortion of the cell surface, and formation of outer membrane vesicles, denoting membrane and periplasmic stress, that were not evident in 1% DMSO-treated and irradiated cells. </p>
Figure 4 in Synthesis of silver nanoparticles using Lactobacillus bulgaricus and assessment of their antibacterial potential
Figure 4. Absorption spectrum of AgNPs synthesized by Lactobacillus bulgaricus having clear peak at 410 nm.
Figure 2 in Synthesis of silver nanoparticles using Lactobacillus bulgaricus and assessment of their antibacterial potential
Figure 2. Lactobacillus bulgaricus synthesis of Ag-NPs: (a) AgNO3 (control); (b) Reaction mixture before synthesis; (c) Reaction mixture after synthesis.
Figure 1 in Synthesis of silver nanoparticles using Lactobacillus bulgaricus and assessment of their antibacterial potential
Figure 1. Morphological and microscopic properties of Lactobacillus bulgaricus. (a) Lactobacillus stained with gram stain under light microscope (X100); (b) Lactobacillus on MRS agar medium, 37 °C, 48 h.
Figure 7 in Synthesis of silver nanoparticles using Lactobacillus bulgaricus and assessment of their antibacterial potential
Figure 7. Antibacterial effect of Ag-NPs and antibiotics against (a) Staphylococcus epidermis (b) Salmonella (c) Staphylococcus aureus.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.