Genetic differentiation of Spanish strains of <i>X</i>. <i>arboricola</i> pv. <i>pruni</i> from seven provinces (n ≥ 12) estimated by F_ST (above the diagonal) and R_ST (below the diagonal) pairwise comparisons based on MLVA data.

<p>Genetic differentiation of Spanish strains of <i>X</i>. <i>arboricola</i> pv. <i>pruni</i> from seven provinces (n ≥ 12) estimated by F_ST (above the diagonal) and R_ST (below the diagonal) pairwise comparisons based on MLVA data.</p

MDS representation of the distances among 264 strains of <i>X</i>. <i>arboricola</i> pv. <i>pruni</i>.

<p>Countries of origin are represented by different symbols. MDS axes 1–2, 1–3 and 1–4 described 59.3%, 47.4% and 44.4% of the total variation, respectively.</p

Categorical minimum spanning tree from MLVA data (239 strains and 119 haplotypes) representing the genetic diversity of the Spanish strains of <i>X</i>. <i>arboricola</i> pv. <i>pruni</i> in relation with its province of origin.

<p>Dot diameter represents the number of strains per haplotype. Numbers represent the 18 genetic clusters identified. Haplotypes in the same genetic cluster are up to quadruple locus variants. Thick links indicate single locus variants and thin links indicates double locus variants. Shaded areas show different clonal complexes in genetic clusters 1 and 2 and are identified with letters (A-E). Genetic clusters not enclosed in dashed lines are formed by a unique clonal complex or singleton. *Indicates the primary founder haplotype.</p

TR markers tested on Spanish strains of <i>X</i>. <i>arboricola</i> pv. <i>pruni</i> (n = 239), primers, PCR conditions, number of alleles and Nei’s genetic diversity (H_T).

<p>TR markers tested on Spanish strains of <i>X</i>. <i>arboricola</i> pv. <i>pruni</i> (n = 239), primers, PCR conditions, number of alleles and Nei’s genetic diversity (H_T).</p

Genetic diversity estimated from MLVA data of <i>X</i>. <i>arboricola</i> pv. <i>pruni</i> for the strains from 11 sampled Spanish provinces.

<p>Genetic diversity estimated from MLVA data of <i>X</i>. <i>arboricola</i> pv. <i>pruni</i> for the strains from 11 sampled Spanish provinces.</p

Chronological detection of outbreaks of <i>Xanthomonas arboricola</i> pv. <i>pruni</i> in Spain.

<p>1, Badajoz, 2002; 2, Valencia, 2003; 3, Zaragoza, 2004; 4, Alicante, 2006; 5, Huesca, 2008; 6, Lleida, 2008; 7, Teruel, 2009; 8, Navarra, 2009; 9, Mallorca, 2010; 10, Tarragona, 2011; 11, Huelva, 2012. In brackets, number of isolates per province.</p

Plot describing the discriminatory power (expressed as G/N, the ratio between the number of haplotypes and the number of strains) in relation to the number of TR loci assayed.

<p>Black dashes represent the range of G/N ratios. Red dashes indicate 2.5 and 97.5% quantiles. Red dots indicate the median G/N values.</p

Minisatellite and primer description, amplification conditions, number of alleles and Nei's genetic diversity (H_T) for 31 minisatellite markers tested on strains of <i>Xanthomonas citri</i> pv. <i>citri</i> from a worldwide strain collection.

a<p>Italicized loci are proposed for routine analyses (MLVA-12).</p>b<p>As annotated in the IAPAR 306 genome; -: intergenic; NA: not appropriate.</p

Categorical minimum spanning tree from MLVA-31 data (129 strains –72 haplotypes) representing the genetic diversity within a worldwide strain collection of <i>Xanthomonas citri</i> pv. <i>citri</i> in relation with its pathological diversity.

<p>Dot diameter and color are representative of the number of strains per haplotype and pathotype, respectively (red: pathotype A; blue: pathotype A*; green: pathotype A^w). Numbers in dots are for haplotype numbers. Numbers along the links indicate the number of polymorphic TR loci distinguishing haplotypes. Haplotypes in a same colored ellipse were assigned to a same genetic cluster by Discriminant Analysis of Principal Components. Dashed ellipses indicate subclusters, as defined by goeBURST <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0098129#pone.0098129-Francisco1" target="_blank">[49]</a>.</p

Genetic and pathological diversity and geographical origin of <i>Xanthomonas citri</i> pv. <i>citri</i> strains within the four DAPC clusters.

a<p>N number of isolates; N_H number of haplotypes; H_E within-cluster Nei's genetic diversity; NA not appropriate.</p>b<p>Subclustering was performed based on clonal complexes identified by goeBURST for DAPC clusters containing at least ten haplotypes (see materials and methods) <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0098129#pone.0098129-Francisco1" target="_blank">[49]</a>.</p>c<p>A single pathotype A* strain (JF90-8 from Oman) was assigned to DAPC cluster 2.</p