7 Works

Data from: Insights into the origin and distribution of biodiversity in the Brazilian Atlantic forest hotspot: a statistical phylogeographic study using a low-dispersal organism

Marta Riutort, Marta Álvarez-Presas, Alejandro Sánchez-Gracia, Fernando Carbayo & Julio Rozas
The relative importance of the processes that generate and maintain biodiversity is a major and controversial topic in evolutionary biology with large implications for conservation management. The Atlantic Forest of Brazil, one of the world's richest biodiversity hotspots, is severely damaged by human activities. To carry out an efficient conservation policy, a good understanding of spatial and temporal biodiversity patterns and their underlying evolutionary mechanisms is required. With this aim, we performed a comprehensive phylogeographic...

Data from: Combining animal personalities with transcriptomics resolves individual variation within a wild-type zebrafish population and identifies underpinning molecular differences in brain function

Sonia Rey, Sebastian Boltana, Reynaldo Vargas, Nerea Roher & Simon MacKenzie
Resolving phenotype variation within a population in response to environmental perturbation is central to understanding biological adaptation. Relating meaningful adaptive changes at the level of the transcriptome requires the identification of processes that have a functional significance for the individual. This remains a major objective towards understanding the complex interactions between environmental demand and an individual's capacity to respond to such demands. The interpretation of such interactions and the significance of biological variation between individuals...

Data from: A pragmatic approach to the analysis of diets of generalist predators: the use of next-generation sequencing with no blocking probes

Josep Piñol, Victoria San Andrés, Elizabeth L. Clare, Gisela Mir & William O. C. Symondson
Predicting whether a predator is capable of affecting the dynamics of a prey species in the field implies the analysis of the complete diet of the predator, not simply rates of predation on a target taxon. Here, we employed the Ion Torrent next-generation sequencing technology to investigate the diet of a generalist arthropod predator. A complete dietary analysis requires the use of general primers, but these will also amplify the predator unless suppressed using a...

Data from: Upstream analyses create problems with DNA-based species delimitation

Melisa Olave, Eduard Solà & L. Lacey Knowles
Genetic-based delimitation of species typically involves a multistep process in which DNA data are analyzed with a series of different programs. Although the performance of the programs associated with each step has been evaluated separately, no analysis has considered how errors in the upstream assignment of individuals to putative species impacts the accuracy of species delimited in downstream analyses, such as those associated with the coalescent-based Bayesian program bpp. Here we show that because the...

Data from: Dancing together and separate again: gymnosperms exhibit frequent changes of fundamental 5S and 35S rRNA genes (rDNA) organisation

Ales Kovařík & Sonia Garcia
In higher eukaryotes, the 5S rRNA genes occur in tandem units and are arranged either separately (S-type arrangement) or linked to other repeated genes, in most cases to rDNA locus encoding 18S–5.8S–26S genes (L-type arrangement). Here we used Southern blot hybridisation, PCR and sequencing approaches to analyse genomic organisation of rRNA genes in all large gymnosperm groups, including Coniferales, Ginkgoales, Gnetales and Cycadales. The data are provided for 27 species (21 genera). The 5S units...

Data from: Molecular phylogenetics of Gobioidei and phylogenetic placement of European gobies

Ainhoa Agorreta, Diego San Mauro, Ulrich Schliewen, James L. Van Tassell, Marcelo Kovačić, Rafael Zardoya & Lukas Rüber
Gobioidei is one of the largest suborders of teleost fishes, with nearly 2000 extant species currently recognized. They have a worldwide distribution and show a spectacular variety in morphology, ecology, and behavior. Despite their importance, phylogenetic relationships among many groups of gobioids (including some of the major lineages) still remain poorly understood. In this study, we analyze sequence data of five molecular markers (two mitochondrial and three nuclear) averaging 6000 bp for 222 species of...

Data from: Can long-range PCR be used to amplify genetically divergent mitochondrial genomes for comparative phylogenetics? A case study within spiders (Arthropoda: Araneae).

Andrew G. Briscoe, Sarah Goodacre, Susan E. Masta, Martin I. Taylor, Miquel A. Arnedo, David Penney, John Kenny, Simon Creer & Sara Goodacre
The development of second generation sequencing technology has resulted in the rapid production of large volumes of sequence data for relatively little cost, thereby substantially increasing the quantity of data available for phylogenetic studies. Despite these technological advances, assembling longer sequences, such as that of entire mitochondrial genomes, has not been straightforward. Existing studies have been limited to using only incomplete or nominally intra-specific datasets resulting in a bottleneck between mitogenome amplification and downstream high-throughput...

Registration Year

  • 2013
    7

Resource Types

  • Dataset
    7

Affiliations

  • University of Barcelona
    7
  • Bangor University
    1
  • Institute of Biophysics
    1
  • University of Michigan-Ann Arbor
    1
  • Portland State University
    1
  • University of Nottingham
    1
  • University of Manchester
    1
  • University of Navarra
    1
  • Museo Nacional de Ciencias Naturales
    1
  • University of Sao Paulo
    1