Variation of the plastid markers in <i>Pinus</i> section <i>Trifoliae</i>.

<p>Above: The proportion of variable sites for each of the five markers. Below: the total number of variable sites per codon position for the three protein coding regions.</p

Geographic distribution of individual samples of <i>Pinus</i> section <i>Trifoliae</i>.

<p>Three of the 191 individuals are of unknown provenance.</p

Chronogram for <i>Pinus</i> section <i>Trifoliae</i> using three calibration points and lineage-through-time plot.

<p>Chronogram for section <i>Trifoliae</i>. The outgroup has been removed. The two secondary calibration points inferred from a previous relaxed molecular clock are indicated with an asterisk (*), and a fossil calibration point attributed to the California closed-cone pines is indicated with a double asterisk (**). The corresponding lineage-through-time plot is given on the upper left. The transition from speciation to coalescence branching processes gave nonsignificant test results.</p

Maximum likelihood tree.

<p>Bootstrap values greater than 50% are shown at branches. A. <i>Pinus</i> subsection <i>Australes</i>. Images from top to bottom are of <i>P</i><i>. lumholtzii</i>, <i>P</i><i>. herrerae</i>, <i>P</i><i>. oocarpa</i>, <i>P</i><i>. chihuahuana</i>, and <i>P</i><i>. attenuata</i>. B. <i>Pinus</i> subsections <i>Ponderosae</i> and <i>Contortae</i>. Images from top to bottom are <i>P</i><i>. scopulorum</i>, <i>P</i><i>. douglasiana</i>, <i>P</i><i>. pseudostrobus</i> var. <i>apulcensis</i>, <i>P</i><i>. coulteri</i>, and <i>P</i><i>. contorta</i>. The branch leading to the outgroups has been truncated.</p

Full Mexican Chile Pepper Collection Genotype Table

Genotype table in variant call format for all 32,623 SNPs identified in the Mexican chile pepper collection of this study. Includes genotypes from both plants in each population

Genotype table for entire chile pepper collection

Genotype table for entire chile pepper collection, in variant call format. Includes one individual per each accession, and only SNPs of sufficient quality, for comparison between the chile pepper collection from Mexico and the global collection