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380 results for “Clostridium”
Public dataset for Antibiotic Prophylaxis for Surgical Site Infections as a Risk Factor for Infection with Clostridium difficile
<p>This is the minimal publicly available dataset for the manuscript titled "Antibiotic Prophylaxis for Surgical Site Infections as a Risk Factor for Infection with Clostridium difficile". We have also included the data dictionary. </p>
Supplementary materials for Phylogenomics and genetic analysis of solvent-producing Clostridium species
<p>The genus <em>Clostridium</em> is a large and diverse group within the Bacillota (formerly Firmicutes), whose members can encode useful complex traits such as solvent production, gas-fermentation, and lignocellulose breakdown. We describe 270 genome sequences of solventogenic clostridia from a comprehensive industrial strain collection assembled by Professor David Jones that includes 194 <em>C. beijerenckiI, </em>57 <em>C. saccharobutylicum</em>, 4 <em>C. saccharoperbutylacetonicum</em>, 5 <em>C. butyricum</em>, 7 <em>C. acetobutylicum</em>, and 3 <em>C. tetanomorphum </em>genomes. We report methods, analyses and characterization for phylogeny, key attributes, core biosynthetic genes, secondary metabolites, plasmids, prophage/CRISPR diversity, cellulosomes and quorum sensing for the 6 species. The expanded genomic data described here will facilitate engineering of solvent-producing clostridia as well as non-model microorganisms with innately desirable traits. Sequences could be applied in conventional platform biocatalysts such as yeast or <em>Escherichia coli </em>for enhanced chemical production. Recently, gene sequences from this collection were used to engineer <em>Clostridium autoethanogenum</em>, a gas-fermenting autotrophic acetogen, for continuous acetone or isopropanol production<em>, </em>as well as butanol, butanoic acid, hexanol and hexanoic acid production. </p>
Supplementary material - Eggerthella lenta DSM 2243 alleviates bile acid stress response in Clostridium ramosum and Anaerostipes caccae by transformation of bile acids
<p>The word document is a collection of supplementary figures and tables. <br> The excel file is a collection of raw data from experiments.</p>
Fig.1 in Population Dynamics And Characterization Of Clostridium Macerans On Host Plant Of Flax
Fig.1. The AUDPC of Clostridium macerans as pathogen on the genotypes of flax during ontogenesis. abcd - AUDPC followed by the same letters in each column are not statistically significant by LSD0.05 (1.69).
Fig.2 in Population Dynamics And Characterization Of Clostridium Macerans On Host Plant Of Flax
Fig.2. Correlation coefficient between disease severity index of Clostridium macerans and sum of precipitation (mm). * − correlation significant at p≤0.05, ** − correlation significant at p≤0.01
An Intravenous Pancreatic Cancer Therapeutic: Characterization of CRISPR/Cas9n-modified Clostridium novyi-Non Toxic Supplementary Information Histology Slides Part 2
<p>H&E and Gram stained whole slide scans for blinded cohorts from publication titled ‘An Intravenous Pancreatic Cancer Therapeutic: Characterization of CRISPR/Cas9n-modified <em>Clostridium novyi-</em>Non Toxic’ published in PLOS One 2023.</p> <p>Excerpt from methods section of publication detailing acquisition of this data: "Formalin-fixed tissue samples were processed for paraffin embedding by the means of dehydration, clearing and paraffin infiltration (Lynx II Tissue Processor). The paraffin embedded tissue samples were sectioned using a Leica Rotatory Microtome RM2125 RTS at 5um thickness. Designated tissue sections were subsequently de-paraffined and stained with H&E and gram staining as per standard histology protocols (Leica Autostainer XL). Whole slide scanning (WSI) was performed by a Panoramic 250 whole slide scanner at 20x magnification (3D Histech) using a Carl-Zeiss Plan-Apochromat 20x / NA 0.8 objective."</p> <p>Please note when downloading the image files that the folder containing all of the .data files <strong>cannot</strong> contain the corresponding .mxrs file. The .mxrs and the folder containing the .data files <strong>must</strong> have identical names and be at the same file level (as uploaded). Files of this type can be opened by the open source software FIJI or QuPath, among others.</p> <p>Cohorts have been uploaded with viewers blinded to treatment groups to allow for unbiased review should it be desired, with a cohort key uploaded separately (doi: ##). Files are grouped so that all major organs from a single mouse are in the same compressed folder.</p>
An Intravenous Pancreatic Cancer Therapeutic: Characterization of CRISPR/Cas9n-modified Clostridium novyi-Non Toxic Supplementary Information Histology Slides Part 5
<p>H&E and Gram stained whole slide scans for blinded cohorts from publication titled ‘An Intravenous Pancreatic Cancer Therapeutic: Characterization of CRISPR/Cas9n-modified <em>Clostridium novyi-</em>Non Toxic’ published in PLOS One 2023.</p> <p>Excerpt from methods section of publication detailing acquisition of this data: "Formalin-fixed tissue samples were processed for paraffin embedding by the means of dehydration, clearing and paraffin infiltration (Lynx II Tissue Processor). The paraffin embedded tissue samples were sectioned using a Leica Rotatory Microtome RM2125 RTS at 5um thickness. Designated tissue sections were subsequently de-paraffined and stained with H&E and gram staining as per standard histology protocols (Leica Autostainer XL). Whole slide scanning (WSI) was performed by a Panoramic 250 whole slide scanner at 20x magnification (3D Histech) using a Carl-Zeiss Plan-Apochromat 20x / NA 0.8 objective."</p> <p>Please note when downloading the image files that the folder containing all of the .data files <strong>cannot</strong> contain the corresponding .mxrs file. The .mxrs and the folder containing the .data files <strong>must</strong> have identical names and be at the same file level (as uploaded). Files of this type can be opened by the open source software FIJI or QuPath, among others.</p> <p>Cohorts have been uploaded with viewers blinded to treatment groups to allow for unbiased review should it be desired, with a cohort key uploaded separately (doi: ##). Files are grouped so that all major organs from a single mouse are in the same compressed folder.</p>
An Intravenous Pancreatic Cancer Therapeutic: Characterization of CRISPR/Cas9n-modified Clostridium novyi-Non Toxic Supplementary Information Histology Slides Part 4
<p>H&E and Gram stained whole slide scans for blinded cohorts from publication titled ‘An Intravenous Pancreatic Cancer Therapeutic: Characterization of CRISPR/Cas9n-modified <em>Clostridium novyi-</em>Non Toxic’ published in PLOS One 2023.</p> <p>Excerpt from methods section of publication detailing acquisition of this data: "Formalin-fixed tissue samples were processed for paraffin embedding by the means of dehydration, clearing and paraffin infiltration (Lynx II Tissue Processor). The paraffin embedded tissue samples were sectioned using a Leica Rotatory Microtome RM2125 RTS at 5um thickness. Designated tissue sections were subsequently de-paraffined and stained with H&E and gram staining as per standard histology protocols (Leica Autostainer XL). Whole slide scanning (WSI) was performed by a Panoramic 250 whole slide scanner at 20x magnification (3D Histech) using a Carl-Zeiss Plan-Apochromat 20x / NA 0.8 objective."</p> <p>Please note when downloading the image files that the folder containing all of the .data files <strong>cannot</strong> contain the corresponding .mxrs file. The .mxrs and the folder containing the .data files <strong>must</strong> have identical names and be at the same file level (as uploaded). Files of this type can be opened by the open source software FIJI or QuPath, among others.</p> <p>Cohorts have been uploaded with viewers blinded to treatment groups to allow for unbiased review should it be desired, with a cohort key uploaded separately (doi: ##). Files are grouped so that all major organs from a single mouse are in the same compressed folder.</p>
CO2SMOS Project_Clostridium autoethanogenum 2,3-BDO - zenodo
<p><span>CO2SMOS’ task 3.1.1 aims at optimizing syngas fermentation process parameters for 2,3-BDO production using improved Clostridium spp. This dataset compiles the fermentation conditions and growth and 2,3-BDO production parameters as well as the chromatograms used to quantify that production</span></p>
Efficacy and Safety of Clostridium Botulinum Toxin Type A to Improve Appearance of Moderate to Severe Glabellar Lines
ClinicalTrials.gov study NCT02353871. IPD Sharing: YES. Countries: 2. Publications: 1.
Study of a Candidate Clostridium Difficile Toxoid Vaccine in Subjects at Risk for C. Difficile Infection
ClinicalTrials.gov study NCT01887912. IPD Sharing: YES. Countries: 26. Publications: 1.
Supplementary materials for Phylogenomics and genetic analysis of solvent-producing Clostridium species
Open the record for dataset details and reuse information.
Increasing the thermodynamic driving force of the phosphofructokinase reaction in Clostridium thermocellum
<p>Glycolysis is an ancient, widespread, and highly conserved metabolic pathway that converts glucose into pyruvate. In the canonical pathway, the phosphofructokinase (PFK) reaction plays an important role in controlling flux through the pathway. <em>Clostridium thermocellum</em> has an atypical glycolysis and uses pyrophosphate (PPi) instead of ATP as the phosphate donor for the PFK reaction. The reduced thermodynamic driving force of the PPi-PFK reaction shifts the entire pathway closer to thermodynamic equilibrium, which has been predicted to limit product titers. In this work, we replace the PPi-PFK reaction with an ATP-PFK reaction. We demonstrate that the local changes are consistent with thermodynamic predictions: the ratio of fructose 1,6-bisphosphate to fructose-6-phosphate increases, and the reverse flux through the reaction (determined by <sup>13</sup>C labeling) decreases. The final titer and distribution of fermentation products, however, do not change, demonstrating that the thermodynamic constraints of the PPi-PFK reaction are not the sole factor limiting product titer.</p>
TECdisplay data for Clostridium beijerinckii pfl ZTP riboswitch variant libraries
<p>Transcription termination/antitermination efficiency data for the <em>Clostridium beijerinckii</em> <em>pfl</em> ZTP riboswitch variant libraries. Data were generated using the Transcription Elongation Complex Display (TECdisplay) procedure.</p>
Efficacy of Oral Vancomycin Prophylaxis for Prevention of Recurrent Clostridium Difficile Infection
ClinicalTrials.gov study NCT03462459. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Study of CB-183,315 in Participants With Clostridium Difficile Infection
ClinicalTrials.gov study NCT01085591. IPD Sharing: YES. Countries: 2. Publications: 1.
Antimicrobial Stewardship Program for Clostridium Difficile Infection.
ClinicalTrials.gov study NCT02951481. IPD Sharing: NO. Countries: 1. Publications: 5.
Fecal Microbiota Transplant (FMT) Plus Fidaxomicin for Severe or Fulminant Clostridium Difficile Infection
ClinicalTrials.gov study NCT03760484. IPD Sharing: NO. Countries: 1. Publications: 1.
Evaluation of Fidaxomicin in the Treatment of Clostridium Difficile Infection (CDI)
ClinicalTrials.gov study NCT04070352. IPD Sharing: UNDECIDED. Countries: 1. Publications: 5.
Bezlotoxumab (MK-6072) Versus Placebo in Children With Clostridium Difficile Infection (CDI) (MK-6072-001)
ClinicalTrials.gov study NCT03182907. IPD Sharing: YES. Countries: 17. Publications: 1.
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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)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
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.