DOI: 10.5061/dryad.r07202b
title: Data from: Molecular and morphological evidence reveals a new species of Antiphytum (Echiochiloideae, Boraginaceae) from Guerrero, Mexico

description: Molecular and morphological evidence supports a new species in the genus
 Antiphytum from the Sierra Madre del Sur, in the state of Guerrero,
 Mexico, here described as A. brevicalyx. This species is unique in the
 genus by possessing a calyx shorter than the corolla tube at anthesis; it
 is similar to A. floribundum in inflorescence arrangement, but differs
 from that species in lacking a basal leaf rosette and having appendages on
 the corolla throat. According to phylogenetic analysis of nuclear ITS and
 plastid ndhF-rpl32 sequences representing seven of the eight North
 American species of the genus besides the proposed new species, accessions
 of A. brevicalyx form a well-defined clade within Antiphytum,
 corroborating its distinctive morphology. However, the analyses do not
 resolve the phylogenetic position of A. brevicalyx within the genus.
description: Supplementary_Material
 1 Supplementary material
 with the matrices in nexus format used for the phylogenetic analyses and
 the consensus trees of each individual marker. Also, the table with the
 average nucleotide differences among species of Antiphytum calculated from
 the combined ITS+ndhF-rpl32 nucleotide matrix.   
 Supplementary_Material
 2 Supplementary material
 with the aligned matrices (PhyDE format) of ITS and ndhF-rpl32 markers,
 indicating with labels the microstructural characters. In nexus format, is
 included the concatenated matrix of nucleotide and coded motifs. One pdf
 file contains the retrieved trees (most parsimonious o strict consensus)
 of each marker and a table with the average nucleotide differences among
 species of Antiphytum calculated from the combined ITS+ndhF-rpl32
 nucleotide matrix. The second pdf contains the list of microstructural
 characters according to the corresponding aligned matrix.
description: Total DNA was isolated from herbarium specimens or fresh leaves
 dried in silica gel for 53 accessions representing seven North American
 species of <i>Antiphytum</i> and seven accessions of the
 proposed new species. Sequences of the nuclear internal transcribed spacer
 (ITS) and the plastid <i>ndhF-rpl32 </i>spacer were amplified
 using the primer pairs ITS4 and ITS5 (White et al. 1990) and the newly
 designed primers rpl32.4R and ndhF.40R.Bor (GAAGTACGYTTTTTTGGAACTGC;
 ACATAGGAACTGTWAGTGGAAG), respectively. Sequence chromatograms were edited,
 assembled and manually aligned with PhyDE 0.9971 (Müller et al. 2010);
 SSRs and polynucleotide regions were annotated in both individual marker
 matrices and the corresponding aligned positions were used to label the
 base pair number(s) in the motif codifications. Gaps were
 coded using simple indel coding according to Simmons and Ochoterena (2000)
 and microstructural characters were coded according to Ochoterena (2009);
 both were added to the nucleotide concatenated matrix to build the final
 matrix for the analysis. The concatenated matrix was analyzed in WinClada
 to remove non-informative characters prior to analysis.
 Phylogenetic analyses were performed with the parsimony
 criterion using TNT 1.1 (Goloboff et al. 2000) alternating the four new
 technology search (NTS) strategies. The same procedure and analyses were
 also conducted for each locus separately. For descriptive
 comparative purposes, distances among the concatenated sequences of the
 <i>Antiphytum </i>species<i> </i>were calculated
 as absolute nucleotide differences using PAUP 4.0a165 (Swofford
 2003).