5 Works

Data from: PartitionFinder: combined selection of partitioning schemes and substitution models for phylogenetic analyses.

Robert Lanfear, Brett Calcott, Simon Y. W. Ho & Stephane Guindon
In phylogenetic analyses of molecular sequence data, partitioning involves estimating independent models of molecular evolution for different sets of sites in a sequence alignment. Choosing an appropriate partitioning scheme is an important step in most analyses because it can affect the accuracy of phylogenetic reconstruction. Despite this, partitioning schemes are often chosen without explicit statistical justification. Here, we describe two new objective methods for the combined selection of best-fit partitioning schemes and nucleotide substitution models....

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...

Data from: The pipid root

Adam J. Bewick, Frédéric J. J. Chain, Joseph Heled & Ben J. Evans
The estimation of phylogenetic relationships is an essential component of understanding evolution. Accurate phylogenetic estimation is difficult, however, when internodes are short and old, when genealogical discordance is common due to large ancestral effective population sizes or ancestral population structure, and when homoplasy is prevalent. Inference of divergence times is also hampered by unknown and uneven rates of evolution, the incomplete fossil record, uncertainty in relationships between fossil and extant lineages, and uncertainty in the...

Data from: Mapping habitats in a marine reserve showed how a 30-year trophic cascade altered ecosystem structure

Kévin Leleu, Brice Remy-Zephir, Roger Grace & Mark John Costello
Time-series studies have reported trophic cascades in land, freshwater and marine environments in many geographic areas. However, the spatial extent of habitats, a key metric of ecosystem structure, has not been mapped in these studies. Marine reserves can provide experimental, before-after and inside-outside (control-impacted), situations for assessing the impact of fishing on ecosystems. We mapped seabed habitats and their associated communities (biotopes) in New Zealand’s oldest marine reserve for comparison with pre-reserve maps created about...

Data from: Paternity assignment and demographic closure in the New Zealand southern right whale

Emma L. Carroll, Simon J. Childerhouse, Mark Christie, Shane Lavery, Nathalie Patenaude, Alana Alexander, Rochelle Constantine, Debbie Steel, Laura Boren & Charles Scott Baker
The identification and characterisation of reproductively isolated subpopulations or ‘stocks’ is essential for effective conservation and management decisions. This can be difficult in vagile marine species like marine mammals. We used paternity assignment and ‘gametic recapture’ to examine the reproductive autonomy of southern right whales (Eubalaena australis) on their New Zealand (NZ) calving grounds. We derived DNA profiles for 34 mother-calf pairs from skin biopsy samples, using sex-specific markers, 13 microsatellite loci and mtDNA haplotypes....

Registration Year

  • 2012

Resource Types

  • Dataset


  • University of Auckland
  • Oregon State University
  • Newport (United States)
  • Australian National University
  • National Autonomous University of Mexico
  • McMaster University
  • Aix-Marseille University
  • University of Sydney
  • Max Planck Institute for Evolutionary Biology
  • Australian Antarctic Division