Data from: Systematic revision of the pocket gopher genus Orthogeomys

Spradling, Theresa A.

Demastes, James W.

Hafner, David J.

Milbach, Paige L.

Cervantes, Fernando A.

Hafner, Mark S.

Published Oct 22, 2016 on Dryad. https://doi.org/10.5061/dryad.t0n42

Cite this dataset

Spradling, Theresa A. et al. (2016). Data from: Systematic revision of the pocket gopher genus Orthogeomys [Dataset]. Dryad. https://doi.org/10.5061/dryad.t0n42

Abstract

Pocket gophers of the genus Orthogeomys show unusually high morphological and ecological diversity compared to other genera in the family Geomyidae. Whereas this diverse group once was divided into 3 genera (Merriam 1895), a revision by Russell (1968) recognized only Orthogeomys, with Merriam’s original genera relegated to subgeneric status as Heterogeomys, Macrogeomys, and Orthogeomys. Recent studies have called into question the monophyly of Orthogeomys, as well as the validity of 4 currently recognized Orthogeomys species. To date, the taxonomic validity of only 1 of these species has been verified (Hafner et al. 2014). In this analysis, the first to include all 11 recognized species of the genus, we examine 3 mitochondrial and 2 nuclear gene sequences (4,352 base pairs) and analyze cranial morphology to explore relationships within the genus. Our data support a taxonomic revision that restricts the genus Orthogeomys to a single species (O. grandis) and combines the subgenera Heterogeomys and Macrogeomys into the resurrected genus, Heterogeomys (7 species). In addition, 3 currently recognized species of Orthogeomys are synonymized as follows: O. cuniculus with O. grandis; H. thaeleri with H. dariensis; and H. matagalpae with H. cherriei. A synonymy and a key to the species of the genera Orthogeomys and Heterogeomys are provided.

Usage notes

S17734

*BEAST analysis from trimmed, aligned sequences for the 5 genes, which yielded a total sequence length of 4,352 bp for 35 pocket gophers, with the 3 mitochondrial genes, Cytb, COI, and ND2 contributing 1,140, 1,460, and 488 bp, respectively, and the 2 nuclear genes, Bfib and IRBP, contributing 429 and 835 bp, respectively. Partition Finder indicated 3 partitions for the data: Cytb + COI (partition 1), ND2 (partition 2), and Bfib + IRBP (partition 3). Molecular substitution models suggested by jModelTest were GTR + I + G for partitions 1 and 2 and K80 + I for partition 3.

S1.– Species-tree analysis (*BEAST) with posterior probabilities.

S1 starbeast.pdf

S2.–Results of a principal component analysis of 91 specimens representing the 7 species of the subgenus Macrogeomys.

S2.pdf

S3.–Results of a principal component analysis and a discriminant function analysis of 28 specimens representing the 3 small-sized species of the subgenus Macrogeomys (M. cherriei, M. matagalpae, and M. underwoodi).

S3.pdf

S4.–Results of a principal component analysis and a discriminant function analysis of 35 specimens representing the 3 medium-sized species of the subgenus Macrogeomys (M. dariensis, M. heterodus, and M. thaeleri).

S4.pdf