Published July 17, 2020 | Version 1
Dataset Open

Neisseria gonorrhoeae clustering to reveal major European WGS-based genogroups in association with antimicrobial resistance (cgMLST and MScgMLST schemas, allelic profile matrices and GrapeTree input file)

Creators

  • 1. Bioinformatics Unit, Department of Infectious Diseases, National Institute of Health, Lisbon, Portugal
  • 2. Laboratory of Microbiology, Department of Infectious Diseases, National Institute of Health, Lisbon, Portugal
  • 3. Technology and Innovation Unit, Department of Human Genetics, National Institute of Health, Lisbon, Portugal
  • 4. Reference Laboratory of Bacterial Sexually Transmitted Infections, Department of Infectious Diseases, National Institute of Health, Lisbon, Portugal

Description

This dataset refers to the gene-by-gene analysis of 3791 Neisseria gonorrhoeae genomes from 21 European countries and includes the used cgMLST and MScgMLST loci schemas prepared for the chewBBACA core suite, as well as the associated allelic profile matrices for all genomes. Additionally a .json file is made available for direct input in the GrapTree vizualization software for data/metadata exploration. 

All novel raw sequence reads used in this study were deposited in the European Nucleotide Archive (ENA) (BioProject PRJEB36482). Additional raw sequence read data used were retrieved from the following ENA BioProjects: PRJEB14933; PRJEB2124; PRJEB23008; PRJEB26560; PRJEB9227; PRJNA275092; PRJNA348107; PRJNA473385; PRJNA315363. 

Files

Grape_Tree_input_file_MScgMLST.zip

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