Details of assembly methods and in silico genotyping for *Vibrio* ===================================================================== * **All MLST-like typing methods in EnteroBase are derived from a genome assembly of sequenced reads. For an explanation of this method**, see :doc:`here ` * **For a general description of the in silico typing method**, see :doc:`here ` +----------------+---------------+-----------------+ | Ribosomal MLST | Core Genome | Whole Genome | | (Jolley, 2012) | MLST | MLST | +================+===============+=================+ | 51 Loci | 1,128 Loci | 152,249 Loci | +----------------+---------------+-----------------+ | Ribosomal | Core genes | Any coding | | proteins | | sequence | | | | | +----------------+---------------+-----------------+ | Highly | Variable; | Highly | | conserved; | High | variable; | | Medium | resolution | Extreme | | resolution | | resolution | +----------------+---------------+-----------------+ | Single scheme | Different | Different | | across tree of | scheme for | scheme for each | | life | each | species/genus | | | species/genus | | +----------------+---------------+-----------------+ Ribosomal MLST (rMLST) ---------------------- - **rMLST** is Copyright © 2010-2016, University of Oxford. rMLST is described in `Jolley et al. 2012 Microbiology 158:1005-15`_. .. _please click here: EnteroBase%20Backend%20Pipeline%3A%20nomenclature .. _Kidgell et al (2002) Infection, Genetics and Evolution. 2(1) 39-45: http://mlst.warwick.ac.uk/mlst/mlst/mlst/dbs/Ecoli/AGroup/team/markPDF/5.pdf .. _`Achtman et al. (2012) PLoS Pathog 8(6): e1002776`: http://doi.org/10.1371/journal.ppat.1002776 .. _`Jolley et al. 2012 Microbiology 158:1005-15`: http://www.ncbi.nlm.nih.gov/pubmed/22282518