Data from: Molecular and morphological evidence reveals a new species of Antiphytum (Echiochiloideae, Boraginaceae) from Guerrero, Mexico
Creators: name: Mendoza-Díaz, Nidia
name: Ochoterena, Helga
name: Moore, Michael J.
name: Flores-Olvera, Hilda
Publisher: name: Zenodo
Year: 2021
Subjects: Antiphytum brevicalyx
microstructural characters
markers analyses
Antiphytum
distance table
matrices
Boraginales
Boraginaceae
Echiochiloideae
phylogenies

description: Molecular and morphological evidence supports a new species in the genus <i>Antiphytum</i> from the Sierra Madre del Sur, in the state of Guerrero, Mexico, here described as <b><i>A. brevicalyx</i></b>. This species is unique in the genus by possessing a calyx shorter than the corolla tube at anthesis; it is similar to <i>A. floribundum</i> 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 <i>ndhF-rpl32 </i>sequences representing seven of the eight North American species of the genus besides the proposed new species, accessions of <i>A. brevicalyx<b> </b></i>form a well-defined clade within <i>Antiphytum</i>, corroborating its distinctive morphology. However, the analyses do not resolve the phylogenetic position of <i>A. brevicalyx </i>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. Funding provided by: National Science Foundation<br>Crossref Funder Registry ID: http://dx.doi.org/10.13039/100000001<br>Award Number: DEB 1054539
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).