Details of assembly methods and in silico genotyping for Moraxella

  • All MLST-like typing methods in EnteroBase are derived from a genome assembly of sequenced reads. For an explanation of this method, see here

  • For a general description of the in silico typing method, see here

MLST – Classic

Ribosomal MLST (Jolley, 2012)

8 Loci

53 Loci

Conserved Housekeeping genes

Ribosomal proteins

Highly conserved; Low resolution

Highly conserved; Medium resolution

Different scheme for each species/genus

Single scheme across tree of life

Note that more schemes are currently implemented for Salmonella, Escherichia and Yersinia (and it may be worth reviewing the relevant pages in the documentation for a broader comparison of schemes).

8 Gene MLST

Classic MLST scheme is described in Wirth et al (2007) Genome Res. 17: 1647-1656.

Genes included in 8 gene MLST (together with the length of sequence used for MLST taken from table 1 in the above cited paper):

Gene

Length

ppa

393

mutY

426

trpE

372

efp

414

fumC

465

glyBeta

537

adk

471

abcZ

429

Ribosomal MLST (rMLST)