9 Works

Data from: Integrative taxonomy resolves the cryptic and pseudo-cryptic Radula buccinifera complex (Porellales: Jungermanniopsida), including two reinstated and five new species

Matt A. M. Renner, Nicolas Devos, Jairo Patiño, Elizabeth A. Brown, Andrew Orme, Michael Elgy, Trevor Wilson, Lindsey J. Gray, Matt J. Von Konrat, Lindsey Gray, Matt Renner, Elizabeth Brown & Matt Von Konrat
Molecular data from three chloroplast markers resolve individuals attributable to Radula buccinifera in six lineages belonging to two subgenera, indicating the species is polyphyletic as currently circumscribed. All lineages are morphologically diagnosable, but one pair exhibits such morphological overlap that they can be considered cryptic. Molecular and morphological data justify the re-instatement of a broadly circumscribed ecologically variable R. strangulata, of R. mittenii, and the description of five new species. Two species Radula mittenii Steph....

Data from: Complete genome sequences provide a case study for the evaluation of gene-tree thinking

Rebecca B. Dikow & William Leo Smith
Complete genome sequences from a genus of Gammaproteobacteria, Shewanella, are used to generate a genome-wide exploration of the gene-tree species-tree dichotomy. A number of datasets were constructed and analyses were attempted. Single genes were chosen from 243 regions of collinear gene homology (128 of these 243 chosen genes are from the core Shewanella genome and 162 of 243 have the complete taxon sampling) from a previous study (Dikow, 2011) and subjected to phylogenetic analysis both...

Data from: Phylogeny and tempo of diversification in the superradiation of spiny-rayed fishes

Thomas J. Near, Alex Dornburg, Ron I. Eytan, Benjamin P. Keck, W. Leo Smith, Kristen L. Kuhn, Jon A. Moore, Samantha A. Price, Frank T. Burbrink, Matt Friedman & Peter C. Wainwright
Spiny-rayed fishes, or acanthomorphs, comprise nearly one-third of all living vertebrates. Despite their dominant role in aquatic ecosystems, the evolutionary history and tempo of acanthomorph diversification is poorly understood. We investigate the pattern of lineage diversification in acanthomorphs by using a well-resolved time-calibrated phylogeny inferred from a nuclear gene supermatrix that includes 520 acanthomorph species and 37 fossil age constraints. This phylogeny provides resolution for what has been classically referred to as the “bush at...

Data from: Shark tooth weapons from the 19th century reflect shifting baselines in Central Pacific predator assemblies

Joshua A. Drew, Christopher Philipp, Mark W. Westneat & Joshua Drew
The reefs surrounding the Gilbert Islands (Republic of Kiribati, Central Pacific), like many throughout the world, have undergone a period of rapid and intensive environmental perturbation over the past 100 years. A byproduct of this perturbation has been a reduction of the number of shark species present in their waters, even though sharks play an important in the economy and culture of the Gilbertese. Here we examine how shark communities changed over time periods that...

Data from: Temporal patterns of diversification across global cichlid biodiversity (Acanthomorpha: Cichlidae)

Caleb D. McMahan, Prosanta Chakrabarty, John S. Sparks, Wm. Leo Smith & Matthew P. Davis
The contrasting distribution of species diversity across the major lineages of cichlids makes them an ideal group for investigating macroevolutionary processes. In this study, we investigate whether different rates of diversification may explain the disparity in species richness across cichlid lineages globally. We present the most taxonomically robust time-calibrated hypothesis of cichlid evolutionary relationships to date. We then utilize this temporal framework to investigate whether both species-rich and depauperate lineages are associated with rapid shifts...

Data from: Vectored dispersal of Symbiodinium by larvae of a Caribbean gorgonian octocoral

Herman H. Wirshing, Kevin Feldheim, Andrew Baker, Kevin A. Feldheim & Andrew C. Baker
The ability of coral reefs to recover from natural and anthropogenic disturbance is difficult to predict, in part due to uncertainty regarding the dispersal capabilities and connectivity of their reef inhabitants. We developed microsatellite markers for the broadcast spawning gorgonian octocoral Eunicea (Plexaura) flexuosa (four markers) and its dinoflagellate symbiont, Symbiodinium B1 (five markers), and used them to assess genetic connectivity, specificity and directionality of gene flow among sites in Florida, Panama, Saba and the...

Data from: Genome-level homology and phylogeny of Vibrionaceae (Gammaproteobacteria: Vibrionales) with three new complete genome sequences

Rebecca B. Dikow & William Leo Smith
Background: Phylogenetic hypotheses based on complete genome data are presented for the Gammaproteobacteria family Vibrionaceae. Two taxon samplings are presented: one including all those taxa for which the genome sequences are complete in terms of arrangement (chromosomal location of fragments; 19 taxa) and one for which the genome sequences contain multiple contigs (44 taxa). Analyses are presented under the Maximum Parsimony and Maximum Likelihood optimality criteria for total evidence datasets, the two chromosomes separately, and...

Data from: Two decades of genetic profiling yields first evidence of natal philopatry and long-term fidelity to parturition sites in sharks

Kevin A. Feldheim, Samuel H. Gruber, Joseph D. DiBattista, Elizabeth A. Babcock, Steven A. Kessel, Andrew P. Hendry, Ellen K. Pikitch, Mary V. Ashley & Demian D. Chapman
Sharks are a globally threatened group of marine fishes that often breed in their natal region of origin. There has even been speculation that female sharks return to their exact birthplace to breed (“natal philopatry”), which would have important conservation implications. Genetic profiling of lemon sharks (Negaprion brevirostris) from 20 consecutive cohorts (1993-2012) at Bimini, Bahamas showed that certain females faithfully gave birth at this site for nearly two decades. At least six females born...

Data from: Extending ecological niche models to the past 120 000 years corroborates the lack of strong phylogeographic structure in the Crested Drongo (Dicrurus forficatus forficatus) on Madagascar

Jérôme Fuchs, Juan L. Parra, Steven M. Goodman, Marie Jeanne Raherilalao, Jeremy Vanderwal & Rauri C. K. Bowie
We conduct a phylogeographic study of the Crested Drongo (Dicrurus forficatus forficatus), a broadly distributed bird species on Madagascar. We first determined the demographic and spatial pattern inferred from mitochondrial and nuclear data, and then compared these results with predictions from a present to 0.120-Myr-old reconstruction of the spatial dynamics of the range of D. f. forficatus on Madagascar, enabling putative areas of stability (lineage persistence) to be detected. Weak genetic structure along an east–west...

Registration Year

  • 2013

Resource Types

  • Dataset


  • Field Museum of Natural History
  • University of Chicago
  • City University of New York
  • University of Liège
  • Columbia University
  • University of California System
  • Duke University
  • Royal Botanic Gardens
  • University of California, Berkeley
  • McGill University