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74 results for “Streptococcus pyogenes”
Supplemental material of the Streptococcus pyogenes whole genome MLST schema deposited in Chewie-NS
<p>This supplemental material includes the lists of accession numbers for the Blackwell et al. and NCBI RefSeq assemblies used to populate the whole genome MLST schema for <em>Streptococcus pyogenes</em>, the UniProt identifiers of the reference proteomes used for schema annotation and the set of complete genomes, and associated metadata, used for schema creation.</p> <p>The wgMLST schema was created with <a href="https://github.com/B-UMMI/chewBBACA">chewBBACA</a> and is publicly available at <a href="https://chewbbaca.online/species/1/schemas/1">chewie-NS</a>, where a more detailed description of schema creation, annotation and curation can be found.</p>
Data and code for: Dihydrothiazolo ring-fused 2-pyridone antimicrobial compounds effectively treat Streptococcus pyogenes skin and soft tissue infection
<p>We have developed GmPcides from a peptidomimetic dihydrothiazolo ring-fused 2-pyridone scaffold that have antimicrobial activities against a broad-spectrum of Gram-positive pathogens. Here we examine the treatment efficacy of GmPcides using skin and soft tissue infection (SSTI) and biofilm formation models by <em>Streptococcus pyogenes</em>. Screening our compound library for minimal inhibitory (MIC) and minimal bactericidal (MBC) concentrations identified GmPcide PS757 as highly active against <em>S. pyogenes</em> . Treatment of <em>S. pyogenes</em> biofilm with PS757 revealed robust efficacy against all phases of biofilm formation by preventing initial biofilm development, ceasing biofilm maturation and eradicating mature biofilm. In a murine model of <em>S. pyogenes</em> SSTI, subcutaneous delivery of PS757 resulted in reduced levels of tissue damage, decreased bacterial burdens and accelerated rates of wound-healing, which were associated with down-regulation of key virulence factors, including M protein and the SpeB cysteine protease. These data demonstrate that GmPcides show considerable promise for treating <em>S. pyogenes</em> infections.</p>
Supplemental material of "An annotated whole-genome multilocus sequence typing schema for scalable high resolution typing of Streptococcus pyogenes"
<p>This supplemental material includes the genome assemblies, associated metadata and analysis results for five datasets used to define a publicly available annotated wgMLST schema for <em>S. pyogenes</em> and to evaluate its suitability for high resolution typing. A brief description for each file in the dataset is available in the included README file. Raw sequencing data and sample metadata for the 265 isolates included in Dataset1 have been deposited in the European Nucleotide Archive (ENA) under Project <a href="https://www.ebi.ac.uk/ena/browser/view/PRJEB49967?show=reads">PRJEB49967</a>.</p> <p>The wgMLST schema was created with <a href="https://github.com/B-UMMI/chewBBACA">chewBBACA</a> and is publicly available at <a href="https://chewbbaca.online/species/1/schemas/1">chewie-NS</a>, where a more detailed description of schema creation, annotation and curation can be found.</p>
Data and code for: Dihydrothiazolo ring-fused 2-pyridone antimicrobial compounds effectively treat Streptococcus pyogenes skin and soft tissue infection
Open the record for dataset details and reuse information.
Data for: Pangenome evaluation of gene essentiality in Streptococcus pyogenes
<p>This is the raw output files of analyses using methods within the <a href="https://transit.readthedocs.io/en/latest/">Transit</a> toolkit on <em>Streptococcus pyogenes</em> transposons sequencing datasets. In total there are nine datasets of both Tn5-like and Himar1-like transposons.</p> <p>Information about read handling and analysis of the data can be found in the publication: https://doi.org/10.1101/2023.08.29.555273 </p>
Supplementary Movies: "Probing the dynamics of Streptococcus pyogenes Cas9 endonuclease bound to sgRNA complex using hydrogen-deuterium exchange mass spectrometry"
<p>Movies related to the article "Probing the dynamics of Streptococcus pyogenes Cas9 endonuclease bound to sgRNA complex using hydrogen-deuterium exchange mass spectrometry" in the International Journal of Molecular Science. "MD_Movie_Cas9_sgRNA_DNA" is the video of SpCas9-sgRNA-DNA complex behavior during 50 ns molecular dynamics simulation. In this movie, SpCas9 protein domains are shown in the following colors: REC lobe (green), CTD (blue), RuvC (pink), L-I-II (yellow), Arg (violet), and HNH (orange). RNA presented in cyan, and DNA -in dark blue.</p> <p>Movies "SpCas9_HeatMap" and "SpCas9-sgRNA_HeatMap" show the hydrogen exchange levels superimposed onto the protein structure obtained from MD trajectories. Relative uptake level presented at the time points of 10 s, 30 s, 1 min, 2 min, 5 min, 10 min, 30 min, 60 min, 120 min, 240 min, 360 min, and 480 min. The exchange scale is shown in a rainbow color scheme, where blue corresponds to the minimum uptake, while red corresponds to the highest observed uptake.</p>
Streptococcus pyogenes pharyngitis elicits diverse antibody responses to key vaccine antigens influenced by the imprint of past infections.
<p>Here you will find the raw data (RawData.RData) and code (CHIVAS_SEROLOGY_Code.Rmd, an R Markdown file) for generating the analysis and figures for the following publication:</p> <p><strong><em>Streptococcus pyogenes</em> pharyngitis elicits diverse antibody responses to key vaccine antigens influenced by the imprint of past infections.</strong></p> <p>Joshua Osowicki1,2,3 #, Hannah R Frost1 #, Kristy I Azzopardi1, Alana L Whitcombe4, Reuben McGregor4, Lauren H. Carlton4, Ciara Baker1, Loraine Fabri1,5,6, Manisha Pandey7, Michael F Good7, Jonathan R. Carapetis8,9,10, Mark J Walker11,12,13, Pierre R Smeesters1,2,5,6, Paul V Licciardi2,14, Nicole J Moreland4 *, Danika L Hill15 *, Andrew C Steer1,2,3 *</p> <p>Provided in the RData file are the following items: </p> <p><strong>Dataframes: </strong></p> <p>"outcome" : clinical variables associated with human challenge for each participant</p> <p>"data" : ELISA and functional antibody responses for human challenge participants. Each timepoint and isotype for each antigen as seperate column)</p> <p>"data_long": Data equivalent to "data" file but in long format, i.e. One column for each antigen, timepoint and isotype as factors. </p> <p>"data.melt" : Data equivalent to "data" file but in longer format , i.e. timepoint, isotype and antigen as factors, 'value' as ELISA AU. </p> <p>"luminex" : IgG responses to 6 antigens analysed by luminex bead-based assay in human challenge participants.</p> <p>"luminex.children" : IgG responses to 6 antigen analysed by luminex bead-based assay in children</p> <p><strong>Vectors:</strong></p> <p>"pharyngitis" : participant "id" for the 19 individuals that developed pharyngitis. </p> <p>"Antigen.Order" : relates to "Main" antigen classification used in Figure 2</p> <p>'additional" : relates to "Additional </p> <p><strong>Function: </strong></p> <p>"custom_theme" : used as a theme when using ggplot to graph. </p> <p>Adobe Illustrator or Inkscape were used to generate the final image files for publication, with some graph editing to axes labels, font size, adding p-values etc. </p> <p> </p> <p><em><strong>Additional files: </strong></em></p> <p> 3 .csv files have been included for download</p> <p>"ELISA_data_wide_format.csv", a wide format data table of 25 human challenge individuals and 219 variables. Equivalent to the 'data' dataframe in the RData file</p> <p>"CHIVAS_luminex.csv", a long format data table of 25 human challenge participants at 1 week, 1 month, and 3 months. Equivalent to the 'luminex' dataframe in the RData file. </p> <p>"Luminex.children.csv", a datatable of 6 luminex variables for 39 children (healthy and post pharyngitis). Equivalent to the 'luminex.children' dataframe in the RData file. </p> <p> </p>
Changes in emm types and superantigen gene content of Streptococcus pyogenes causing invasive infections in Portugal - Dataset
<p>Properties of <em>Streptococcus</em> <em>pyogenes</em> isolated from invasive infections in Portugal between 2000 and 2015.</p>
Streptococcus Pyogenes Carriage Acquisition and Transmission Study
ClinicalTrials.gov study NCT05117528. IPD Sharing: YES. Countries: 1. Publications: 2.
Controlled Human Infection for Vaccination Against Streptococcus Pyogenes
ClinicalTrials.gov study NCT03361163. IPD Sharing: NO. Countries: 1. Publications: 3.
Prophylactic Effect of Probiotic Streptococcus Salivarius eK12 Against Recurrent Streptococcus Pyogenes Pharyngotonsillitis Infection in Pediatrics
ClinicalTrials.gov study NCT06370208. IPD Sharing: NO. Countries: 1. Publications: 6.
Characterisation of the genetic mutation driving enhanced superantigen SpeA expression in Streptococcus pyogenes M1UK (initial)
GEO Series GSE212238. Streptococcus pyogenes. 18 samples. Type: Expression profiling by high throughput sequencing.
Bioplatforms Australia: Antibiotic Resistant Sepsis Pathogens Framework Initiative - Streptococcus pyogenes SP444
GEO Series GSE152821. Streptococcus pyogenes. 12 samples. Type: Expression profiling by high throughput sequencing.
Characterisation of the genetic mutation driving enhanced superantigen SpeA expression in Streptococcus pyogenes M1UK (second SP1448)
GEO Series GSE212242. Streptococcus pyogenes. 9 samples. Type: Expression profiling by high throughput sequencing.
RNAseq transcriptome analysis of Streptococcus pyogenes HKU16 and an isogenic gshT mutant. Manuscript title: Streptococcus pyogenes hijacks host glutathione for growth and innate immune evasion
GEO Series GSE198061. Streptococcus pyogenes. 6 samples. Type: Expression profiling by high throughput sequencing.
Bioplatforms Australia: Antibiotic Resistant Sepsis Pathogens Framework Initiative - Streptococcus pyogenes PS006
GEO Series GSE152822. Streptococcus pyogenes. 12 samples. Type: Expression profiling by high throughput sequencing.
Expression analysis of Streptococcus pyogenes MGAS315 induced with XIP pheromone
GEO Series GSE37974. Streptococcus pyogenes MGAS315; Streptococcus pyogenes NZ131. 2 samples. Type: Expression profiling by genome tiling array.
DNA methylation from a Type I restriction modification system influences gene expression and virulence in Streptococcus pyogenes [RNA-seq]
GEO Series GSE130427. Streptococcus pyogenes. 6 samples. Type: Expression profiling by high throughput sequencing.
DNA methylation from a Type I restriction modification system influences gene expression and virulence in Streptococcus pyogenes
GEO Series GSE130429. Streptococcus pyogenes. 7 samples. Type: Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing.
Insert in CovS Gene Distinguishes a Pharyngeal and a Blood Isolate of Streptococcus pyogenes Found in the Same Individual.
GEO Series GSE21316. Streptococcus pyogenes. 2 samples. Type: Expression profiling by array.
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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.