Origin of the animal and food isolates.

a<p>the number of MRSA isolates is indicated in brackets.</p>b<p>the origin of one of the 13 food poisoning associated isolates is unknown.</p>c<p>NA : not applicable.</p

Minimum spanning tree of the 251 <i>S. aureus</i> isolates using MLVA-16_Orsay.

<p>Minimum spanning tree of the 251 <i>S. aureus</i> isolates (106 human-associated isolates, 98 animal-associated isolates and 47 isolates from food products among which 13 were related with food-poisoning) using MLVA-16_Orsay. Each circle represents a MLVA genotype. The size of each circle indicates the number of isolates within this MLVA genotype. The different clusters are annotated. The host origin is indicated with a specific color. Isolates involved in food poisoning events are represented by black circles. Human and food isolates are highlighted with two different hatch patterns.</p

Electrophoregrams showing multiplex PCR amplicons resolved by capillary electrophoresis

<p><b>a. PCR1</b> ten dye-colored coamplified VNTR loci. <b>b. PCR2</b> six dye-colored coamplified VNTR loci.</p

Constitution of the different MLVA schemes.

a<p>the VNTR locus name reflects genome localisation (in kb) in strain Mu50 refseq NC_002758.</p>b<p>alternative names given in the literature.</p>c<p>from <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033967#pone.0033967-Hardy1" target="_blank">[52]</a>.</p>d<p>from <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033967#pone.0033967-Schouls1" target="_blank">[23]</a>.</p>e<p>from <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033967#pone.0033967-Gilbert1" target="_blank">[53]</a>.</p>f<p>from <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033967#pone.0033967-Sabat1" target="_blank">[54]</a>.</p>g<p>MLVA14_Orsay corresponds to the 14 panel 1-panel 2 loci in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033967#pone.0033967-Pourcel1" target="_blank">[24]</a>.</p>h<p>MLVA10_Orsay corresponds to the 10 panel 1 loci in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033967#pone.0033967-Pourcel1" target="_blank">[24]</a>.</p>i<p>MLVA8_Bilthoven corresponds to the 8 loci used by <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033967#pone.0033967-Schouls1" target="_blank">[23]</a>.</p

Dendrogram of the HARMONY collection using MLVA-16_Orsay.

<p>Color coding is according to MLST clonal complex assignment whereas clustering is done according to the displayed MLVA data. Strain Id, clonal complex, sequence type, spa type, spa code and geographic origin are indicated. MLVA cluster bootstrap values are shown for the main clusters.</p

VNTRs and associated oligonucleotide primers.

<p>(*HGDI calculated on the 90 isolates from the HARMONY collection).</p>a<p>Multiplex PCR reaction.</p>b<p>Expected amplicon size for strain Mu50 RefSeq NC_002758 (by convention, corresponding number of repeated units for strain Mu50).</p>c<p>Observed allele size range: amplicons length (number of repeated units).</p