26,412 Works

Data from: Deep mitochondrial divergence in Baja California populations of an aquilopelagic elasmobranch: the golden cownose ray

Jonathan Sandoval-Castillo & Axayácatl Rocha-Olivares
Assessing the realized effect of dispersal in the genetic makeup of a species has significant evolutionary, ecological, and economical consequences. Here, we investigate the genetic diversity and population differentiation in the aquilopelagic golden cownose ray Rhinoptera steindachneri from the Gulf of California (GC) and the Pacific coast of Baja California (PCBC) using the mitochondrial NADH2 gene. Low levels of genetic diversity were found with only 4 polymerase chain reaction-restriction fragment length polymorphism haplotypes among 76...

Data from: Stalking the fourth domain in metagenomic data: searching for, discovering, and interpreting novel, deep branches in phylogenetic trees of phylogenetic marker genes

Dongying Wu, Martin Wu, Aaron Halpern, Douglas B. Rusch, Shibu Yooseph, Marvin Frazier, J. Craig Venter & Jonathan A. Eisen
BACKGROUND: Most of our knowledge about the ancient evolutionary history of organisms has been derived from data associated with specific known organisms (i.e., organisms that we can study directly such as plants, metazoans, and culturable microbes). Recently, however, a new source of data for such studies has arrived: DNA sequence data generated directly from environmental samples. Such metagenomic data has enormous potential in a variety of areas including, as we argue here, in studies of...

Facilitation Experiment Data

Eliot J. B. McIntire & Alex Fajardo
Data from the seedling experiment.

Lupinus.online.FigureS3.04.26.11

Christopher S. Drummond, Ruth J. Eastwood, Silvia T. S. Miotto & Colin E. Hughes
SUPPLEMENTARY FIGURE S3. Net diversification rates (r = lineages/million years) in Lupinus estimated under the MEDUSA birth–death likelihood model, including relative extinction (ε = birth/death) as a free parameter. MEDUSA analyses were conducted using 1000 trees randomly selected from the posterior distribution of constrained pure–birth Bayesian MCMC tree searches in BEAST, pruned to the infrageneric skeleton topology in Figure 3 of the main text. Surface plots show the frequency (ƒ) of estimates from replicate MEDUSA...

Cayetano-et-al-C-maculatus-data

Luis Cayetano, Alexei A. Maklakov, Robert C. Brooks & Russell Bonduriansky
Morphometric data for Callosobruchus maculatus beetles from 16 replicate artificial evolution lines.

Data from: Fitness benefits and costs of cold acclimation in Arabidopsis thaliana

Ying Zhen, Preeti Dhakal & Mark C Ungerer
When resources are limited, there is a tradeoff between growth/reproduction and stress defense in plants. Most temperate plant species, including Arabidopsis thaliana, can enhance freezing tolerance through cold acclimation at low but non-freezing temperatures. Induction of the cold acclimation pathway should be beneficial in environments where plants frequently encounter freezing stress, but might represent a cost in environments where freezing events are rare. In A. thaliana, induction of the cold acclimation pathway critically involves a...

Data from: The evolutionary genetics of acquisition and allocation in the wing dimorphic cricket, Gryllus firmus.

Elizabeth Griep King, Derek A Roff & Daphne J Fairbairn
The evolutionary trajectories of trade-offs are ultimately governed by the evolution of the underlying physiological processes of the acquisition and subsequent allocation of resources. In this study, we focused directly on acquisition and allocation as traits and estimated their genetic architecture in the trade-off between flight capability and reproduction in the cricket, Gryllus firmus. To determine the evolutionary genetics of acquisition and allocation both within and between resource environments we performed a large-scale quantitative genetic...

Tobler_etal_tolerance

Michael Tobler, Maura Palacios, Lauren J Chapman, David Bierbach, Martin Plath, Lenin Arias-Rodriguez, Francisco J García De León, Mariana Mateos & Igor Mitrofanov
Sulfide tolerance in Poecilia mexicana and P. sulphuraria from sulfidic and non-sulfidic habitats.

descriptive statistics of microsatellite loci

Eva Ursprung, Max Ringler, Robert Jehle & Walter Hödl
full list of descriptive statistics for the seven microsatellite loci

Trawl survey data Rockall Scotland 1986 2008

Francis Neat, Neil Campbell, Francis Neat & Neil Campbell
Trawl survey data for Rockall plateau and west coast of scotland between depths of 90-250 m. See 'read me' sheet in file for further details.

Benesh_etal_dryad_full_dataset

Daniel P. Benesh, James C. Chubb & Geoff A. Parker

Data from: Gene discovery in the Antarctic fur seal (Arctocephalus gazella) skin transcriptome

Joseph I Hoffman
Next-generation sequencing provides a powerful new approach for developing functional genomic tools for nonmodel species, helping to narrow the gap between studies of model organisms and those of natural populations. Consequently, massively parallel 454 sequencing was used to characterize a normalized cDNA library derived from skin biopsy samples of twelve Antarctic fur seal (Arctocephalus gazella) individuals. Over 412 Mb of sequence data were generated, comprising 1.4 million reads of average length 286 bp. De novo...

Brownie rag1 input file for males

Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna, Ben J Evans, Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna & Ben J Evans
Brownie rag1 input file for males

Tschirren_TLR2sequences

Barbara Tschirren, Lars Råberg, Helena Westerdahl, Barbara Tschirren, Lars Råberg & Helena Westerdahl
DNA sequences of the entire coding region of the Toll-like receptor 2 (TLR2) gene of Myodes glareolus, Myodes rutilus, Myodes smithii, Myodes andersoni, Myodes rufocanus, Myodes rex, Chionomys nivalis, Microtus agrestis, Microtus arvalis, Microtus oeconomus, Arvicola amphibius, Apodemus alpicola, Apodemus flavicollis, Apodemus sylvaticus, Micromys minutus, Mus musculus, Rattus norvegicus

RAG1 tree

Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna, Ben J Evans, Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna & Ben J Evans
Consensus topology recovered from MrBayes analysis of RAG1 sequences

RAG1 sequences

Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna, Ben J Evans, Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna & Ben J Evans
Rag1 nexus file used for MrBayes

Brownie mtDNA input file for females

Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna, Ben J Evans, Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna & Ben J Evans
Brownie mtDNA input file for females

OUCH mtDNA input file for males

Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna, Ben J Evans, Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna & Ben J Evans
OUCH mtDNA input file for males

Data from: Efficient screening of transgenic plant lines for ecological research

Klaus Gase, Arne Weinhold, Tohir Bozorov, Stefan Schuck & Ian T Baldwin
Plants stably transformed to manipulate the expression of genes mediating ecological performance have profoundly altered research in plant ecology. Agrobacterium-mediated transformation remains the most effective method of creating plants harboring a limited number of transgene integrations of low complexity. For ecological/physiological research, the following requirements must be met: 1) the regenerated plants should have the same ploidy level as the corresponding wild type plant and 2) contain a single transgene copy in a homozygous state;...

Locality information

Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna, Ben J Evans, Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna & Ben J Evans
Locality information for genetic samples in this study

Unique MtDNA sequences

Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna, Ben J Evans, Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna & Ben J Evans
see README file for key to mtDNA unique sequences; each unique sequence corresponds to one or more field codes, each of which corresponds to an individual frog.

Partial Mantel: Phil male morph distance

Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna, Ben J Evans, Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna & Ben J Evans
Philippine limnonectes male morphological distances for partial mantel test

Partial Mantel: Phil mtDNA genetic distance

Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna, Ben J Evans, Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna & Ben J Evans
Philippine limnonectes mitochondrial DNA genetic distances for partial mantel test

Partial Mantel: Phil RAG1 genetic distance

Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna, Ben J Evans, Mohammad Iqbal Setiadi, Jimmy A McGuire, Rafe M Brown, Mohammad Zubairi, Djoko T Iskandar, Noviar Andayani, Jatna Supriatna & Ben J Evans
Philippine limnonectes rag1 genetic distances for partial mantel test

Data from: Mitochondrial phylogeny of the Chrysis ignita (Hymenoptera: Chrysididae) species group based on simultaneous Bayesian alignment and phylogeny reconstruction

Villu Soon & Urmas Saarma
The ignita species group within the genus Chrysis includes over 100 cuckoo wasp species, which all lead a parasitic lifestyle and exhibit very similar morphology. The lack of robust, diagnostic morphological characters has hindered phylogenetic reconstructions and contributed to frequent misidentification and inconsistent interpretations of species in this group. Therefore, molecular phylogenetic analysis is the most suitable approach for resolving the phylogeny and taxonomy of this group. We present a well-resolved phylogeny of the Chrysisignita...

Registration Year

  • 2011
    26,412

Resource Types

  • Dataset
    26,412

Affiliations

  • French National Centre for Scientific Research
    75
  • Duke University
    42
  • University of British Columbia
    38
  • The University of Texas at Austin
    31
  • Centre for Ecology & Hydrology
    26
  • University of Montpellier
    20
  • University of Sheffield
    19
  • University of Cambridge
    18
  • University of Oxford
    17
  • Centre d'Ecologie Fonctionnelle et Evolutive
    16