title: Development of a Single Locus Sequence Typing (SLST) Scheme for Typing Bacterial Species Directly from Complex Communities.
abstract: The protocol describes a computational method to develop a Single Locus Sequence Typing (SLST) scheme for typing bacterial species. The resulting scheme can be used to type bacterial isolates as well as bacterial species directly from complex communities using next-generation sequencing technologies.
authors.affiliation: Department of Biomedicine, Aarhus University, Wilhelms Meyers Allé 4, 8000, Aarhus, Denmark. cs@biomed.au.dk.
authors.forename: Christian F P
authors.initials: CF
authors.lastname: Scholz
authors.affiliation: Department of Biomedicine, Aarhus University, Wilhelms Meyers Allé 4, 8000, Aarhus, Denmark.
authors.forename: Anders
authors.initials: A
authors.lastname: Jensen
mesh_terms: D001419:Bacteria / Q000145:classification* / Q000235:genetics*; D015373:Bacterial Typing Techniques / Q000379:methods; D019295:Computational Biology / Q000379:methods; D056426:Genetic Loci; D016680:Genome, Bacterial; D059014:High-Throughput Nucleotide Sequencing; D054892:Metagenome; D056186:Metagenomics / Q000379:methods; D058889:Molecular Typing / Q000379:methods; D058885:Multilocus Sequence Typing; D010802:Phylogeny; D015203:Reproducibility of Results; D012984:Software
keywords: Bacterial typing; Bioinformatics; Core-genome; Genomics; MLST; SLST; Sequencing