6 Works

Data from: Parallel tagged amplicon sequencing reveals major lineages and phylogenetic structure in the North American tiger salamander (Ambystoma tigrinum) species complex

Eric M. O'Neill, Rachel Schwartz, C. Thomas Bullock, Joshua S. Williams, H. B. Shaffer, X. Aguilar-Miguel, Gabriela Parra-Olea & David W. Weisrock
Modern analytical methods for population genetics and phylogenetics are expected to provide more accurate results when data from multiple genome-wide loci are analyzed. We present the results of an initial application of parallel tagged sequencing (PTS) on a next generation platform to sequence thousands of barcoded PCR amplicons generated from 95 nuclear loci and 93 individuals sampled across the range of the tiger salamander (Ambystoma tigrinum) species complex. To manage the bioinformatic processing of this...

Data from: Arthropod diversity in a tropical forest

Yves Basset, Lukas Cizek, Philippe Cuénoud, Raphael K. Didham, François Guilhaumon, Olivier Missa, Vojtech Novotny, Frode Ødegaard, Tomas Roslin, Jürgen Schmidl, Alexey K. Tishechkin, Neville N. Winchester, David W. Roubik, Henri-Pierre Aberlenc, Johannes Bail, Héctor Barrios, Jon R. Bridle, Gabriela Castaño-Meneses, Bruno Corbara, Gianfranco Curletti, Wesley Duarte Da Rocha, Domir De Bakker, Jacques H. C. Delabie, Alain Dejean, Laura L. Fagan … & Maurice Leponce
Most eukaryotic organisms are arthropods. Yet, their diversity in rich terrestrial ecosystems is still unknown. Here we produce tangible estimates of the total species richness of arthropods in a tropical rainforest. Using a comprehensive range of structured protocols, we sampled the phylogenetic breadth of arthropod taxa from the soil to the forest canopy in the San Lorenzo forest, Panama. We collected 6,144 arthropod species from 0.48 ha and extrapolated total species richness to larger areas...

Data from: Identifying biases at different spatial and temporal scales of diversification: a case study in the Neotropical parrotlet genus Forpus

Brian Tilston Smith, Camila C. Ribas, Bret M. Whitney, Blanca E. Hernández-Baños & John Klicka
The temporal origins of the extraordinary biodiversity of the Neotropical region are highly debated. Recent empirical work has found support for alternative models on the tempo of speciation in Neotropical species further fuelling the debate. However, relationships within many Neotropical lineages are poorly understood and it is unclear how this uncertainty impacts inferences on the evolution of taxa in the region. We examined the robustness of diversification patterns in the avian genus Forpus by testing...

Data from: Understanding the formation of ancient intertropical disjunct distributions using Asian and Neotropical hinged-teeth snakes (Sibynophis and Scaphiodontophis: Serpentes: Colubridae)

Xin Chen, Song Huang, Peng Guo, Guarino R. Colli, Adrián Nieto Montes De Oca, Laurie J. Vitt, R. Alexander Pyron & Frank T. Burbrink
Numerous taxa show ancient intertropical disjunct distributions. Many can be explained by well-known processes of historical vicariance, such as the breakup of Gondwanaland. Others, such as Asian–Neotropical divergences are not as well understood. To clarify the phylogenetic position and understand biogeographic and temporal origins the geographically disjunct and morphologically unique genera of hinged-teeth snakes, Scaphiodontophis (n = 1) and Sibynophis (n = 9; Colubridae), we inferred a time-calibrated phylogeny with additional 107 taxa representing the...

Data from: Locating evolutionary precursors on a phylogenetic tree

Brigitte Marazzi, Cecile M. Ane, Marcelo F. Simon, Melissa A. Luckow, Alfonso Delgado-Salinas & Michael J. Sanderson
Conspicuous innovations in the history of life are often preceded by more cryptic genetic and developmental precursors. In many cases, these appear to be associated with recurring origins of very similar traits in close relatives (parallelisms) or striking convergences separated by deep time (“deep homologies”). Although the phylogenetic distribution of gain and loss of traits hints strongly at the existence of such precursors, no models of trait evolution currently permit inference about their location on...

Data from: Evolution of the MHC-DQB exon 2 in marine and terrestrial mammals

María José Villanueva-Noriega, Charles Scott Baker & Luis Medrano-González
On the basis of a general low polymorphism, several studies suggest that balancing selection in the class II major histocompatibility complex (MHC) is weaker in marine mammals as compared with terrestrial mammals. We investigated such differential selection among Cetacea, Artiodactyla, and Primates at exon 2 of MHC-DQB gene by contrasting indicators of molecular evolution such as occurrence of transpecific polymorphisms, patterns of phylogenetic branch lengths by codon position, rates of nonsynonymous and synonymous substitutions as...

Registration Year

  • 2012
    6

Resource Types

  • Dataset
    6

Affiliations

  • National Autonomous University of Mexico
    6
  • Universidad De Panama
    1
  • National Museum of Natural History
    1
  • University of Erlangen-Nuremberg
    1
  • Research Institute for Nature and Forest
    1
  • George Washington University
    1
  • Oregon State University
    1
  • Natural History Museum
    1
  • University of Toulouse
    1
  • University of Nevada Reno
    1