Data for: A new endemic Smilax (Smilacaceae) from Tafelberg, Suriname, supported by morphometric and phylogenetic evidence
Data files
Oct 05, 2023 version files 31.80 KB
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README.md
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Smilax_integrated_simplified.csv
Oct 23, 2023 version files 4.96 MB
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matK_align.fasta
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ndhA_align.fasta
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ndhF_align.fasta
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rbcL_align.fasta
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README.md
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rpl16_align.fasta
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Smilax_integrated_simplified.csv
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smilax_plastomes_aligned_noIRB_gappy.fasta
Abstract
Taxonomy of Smilax in the Neotropics is poorly known with many undescribed species, unresolved synonymy, and regional treatments with conflicting taxon concepts. This issue is amplified in the Guiana Shield, which has arguably received the least amount of taxonomic research over the years. Here, we investigate multiple specimens from Tafelberg, Suriname that we hypothesized to represent an undescribed species. We used univariate and multivariate morphometrics to analyze linear measurements and leaf outlines to test if and how Tafelberg specimens differ from those of morphologically similar species in the Guiana Shield, Smilax lasseriana and S. maypurensis. We used a genome skimming approach to sequence and assemble plastomes, which also allowed us to extract loci previously employed in Sanger-based studies and place the putative new species in a phylogeny with expanded taxon sampling. We recovered the Smilax from Tafelberg as more closely related to species with ranges centered in eastern Brazil than to its morphologically hypothesized congeners, S. lasseriana and S. maypurensis. We describe this new species as Smilax tafelbergensis with detailed morphological comparisons to similar taxa, a distribution map, and illustration.
README
Data for: A new endemic Smilax (Smilacaceae) from Tafelberg, Suriname, supported by morphometric and phylogenetic evidence
https://doi.org/10.5061/dryad.t4b8gtj74
Description of the data and file structure
Linear measurements of morphometric data is found under the file Smilax_integrated_simplified.csv
Within Smilax_integrated_simplified.csv, the meaning of the fields of the following are below:
- Species = taxon or hypothesized taxon
- Collector = primary collector of the specimen
- Collector_no = collection number of the specimen
- Herbarium = index herbarium abbreviation (Thiers et al., continuously updated) + barcode number
- Leaf_no = numbering of nodes measured, confined only to Tafelberg specimens
- Diameter_of_stem = stem diameter (mm)
- Leaf_length = length of leaf blade (mm)
- Leaf_width = width of leaf blade (mm)
- Petiole_length = length of petiole (mm)
- Peduncle_length = length of peduncule (mm)
- Pedicel_avg = average of three pedicel lengths (mm)
- Receptecal_length = length of receptacle (mm)
- Receptacle_width = width of receptacle (mm)
- Apex_angle = angle of leaf blade apex (degrees)
- Base_angle = angle of leaf blade blade (degrees)
- Leaflength_width = ratio of "Leaf_length" to "Leaf_width"
- Receptaclelength_width = ratio of "Receptacle_length" to "Receptacle_width"
- Peduncle_petiole = ratio of "Peduncle_length" to "Petiole_length"
- Leaflength_petiole = ratio of "Leaf_length" to "Petiole_length"
Sequence alignments are found here under six different FASTA files. The following were used for the five-gene plastid (or "Sanger") dataset. The structure of the file name is "{GENE NAME}_align.fasta":
- matK_align.fasta
- ndhA_align.fasta
- ndhF_align.fasta
- rbcL_align.fasta
- rpl16_align.fasta
The remaining FASTA file not mentioned above is the plastome alignment with one of the inverted repeat regions removed before phylogenetic inference:
- smilax_plastomes_aligned_noIRB_gappy.fasta