8 Works

Data from: Re-mating across years and intra-lineage polygyny are associated with greater than expected levels of inbreeding in wild red deer

Katie V. Stopher, Daniel H. Nussey, Tim H. Clutton-Brock, Fiona Guinness, Alison Morris, Josephine M. Pemberton, T. H. Clutton-Brock, F. Guinness, A. Morris & J. M. Pemberton
The interaction between philopatry and non-random mating has important consequences for the genetic structure of populations, influencing co-ancestry within social groups but also inbreeding. Here, using genetic paternity data, we describe mating patterns in a wild population of red deer (Cervus elaphus) which are associated with marked consequences for co-ancestry and inbreeding in the population. Around a fifth of females mate with a male with whom they have mated previously, and further, females frequently mate...

Data from: Genome sequence of dwarf birch (Betula nana) and cross-species RAD markers

Nian Wang, Marian Thomson, William J. A. Bodles, Robert M. M. Crawford, Harriet V. Hunt, Alan Watson Featherstone, Jaume Pellicer & Richard J. A. Buggs
New sequencing technologies allow development of genome-wide markers for any genus of ecological interest, including plant genera such as Betula (birch) that have previously proved difficult to study due to widespread polyploidy and hybridisation. We present a de novo reference genome sequence assembly, from 67X short read coverage, of Betula nana (dwarf birch) – a diploid that is the keystone woody species of sub-arctic scrub communities but of conservation concern in Britain. We also present...

Data from: Post-hatching parental care masks the effects of egg size on offspring fitness: a removal experiment on burying beetles

Katy M. Monteith, Clare Andrews, Per T. Smiseth, K. M. Monteith, C. Andrews & P. T. Smiseth
Parents can increase the fitness of their offspring by allocating nutrients to eggs and/or providing care for eggs and offspring. Although we have a good understanding of the adaptive significance of both egg size and parental care, remarkably little is known about the co-evolution of these two mechanisms for increasing offspring fitness. Here, we report a parental removal experiment on the burying beetle Nicrophorus vespilloides in which we test whether post-hatching parental care masks the...

Data from: Intergenerational effects of inbreeding in Nicrophorus vespilloides: offspring suffer fitness costs when either they or their parents are inbred

Sarah N. Mattey, Luke Strutt, Per T. Smiseth, S. N. Mattey, L. Strutt & P. T. Smiseth
Inbreeding depression is the reduction in fitness caused by mating between related individuals. Inbreeding is expected to cause a reduction in offspring fitness when the offspring themselves are inbred, but outbred individuals may also suffer a reduction in fitness when they depend on care from inbred parents. At present, little is known about the significance of such intergenerational effects of inbreeding. Here, we report two experiments on the burying beetle Nicrophorus vespilloides, an insect with...

Data from: Approximate Bayesian computation for modular inference problems with many parameters: the example of migration rates

Simon Aeschbacher, Andreas Futschik, Mark A. Beaumont, S. Aeschbacher, A. Futschik & M. A. Beaumont
We propose a two-step procedure for estimating multiple migration rates in an approximate Bayesian computation (ABC) framework, accounting for global nuisance parameters. The approach is not limited to migration, but generally of interest for inference problems with multiple parameters and a modular structure (e.g. independent sets of demes or loci). We condition on a known, but complex demographic model of a spatially subdivided population, motivated by the reintroduction of Alpine ibex (Capra ibex) into Switzerland....

Data from: Genome-wide patterns of divergence and gene flow across a butterfly radiation

Nicola J. Nadeau, Simon H. Martin, Krzysztof M. Kozak, Camilo Salazar, Kanchon K. Dasmahapatra, John W. Davey, Simon W. Baxter, Mark L. Blaxter, James Mallet & Chris D. Jiggins
The Heliconius butterflies are a diverse recent radiation comprising multiple levels of divergence with on-going gene flow between species. The recently sequenced genome of Heliconius melpomene allowed us to investigate the genomic evolution of this group using dense RAD marker sequencing. Phylogenetic analysis of 54 individuals robustly supported reciprocal monophyly of H. melpomene and H. cydno and refuted previous phylogenetic hypotheses that H. melpomene may be paraphylectic with respect to H. cydno. H. timareta also...

Data from: Detecting genes for variation in parasite burden and immunological traits in a wild population: testing the candidate gene approach

Emily A. Brown, Jill G. Pilkington, Dan H. Nussey, Kathryn A. Watt, Adam D. Hayward, Rachel Tucker, Andrea L. Graham, Steve Paterson, Dario Beraldi, Josephine M. Pemberton, Jon Slate, E. A. Brown, R. Tucker, J. Slate, J. G. Pilkington, D. Beraldi, J. M. Pemberton, A. L. Graham & S. Paterson
Identifying the genes underlying phenotypic variation in natural populations can provide novel insight into the evolutionary process. Here we test the candidate gene approach to identifying loci involved in variation in gastrointestinal parasite burden, in a wild population of Soay sheep. A comprehensive literature review, Gene Ontology databases, and comparative genomics resources were used to generate a list of candidate genes. In a pilot study these candidates, along with 50 random genes, were then sequenced...

Data from: Special features of RAD Sequencing data: implications for genotyping

John W. Davey, Timothée Cezard, Pablo Fuentes-Utrilla, Cathlene Eland, Karim Gharbi & Mark L. Blaxter
RAD Sequencing (RAD-Seq) is an economical and efficient method for SNP discovery and genotyping. As with other sequencing-by-synthesis methods, RAD-Seq produces stochastic count data and requires sensitive analysis to develop or genotype markers accurately. We show that there are several sources of bias specific to RAD-Seq that are not explicitly addressed by current genotyping tools, namely restriction fragment bias, restriction site heterozygosity and PCR GC content bias. We explore the performance of existing analysis tools...

Registration Year

  • 2012
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Resource Types

  • Dataset
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Affiliations

  • University of Edinburgh
    8
  • University of Cambridge
    3
  • Princeton University
    1
  • Royal Botanic Gardens
    1
  • Queen Mary University of London
    1
  • University College London
    1
  • University of St Andrews
    1
  • Institute of Science and Technology Austria
    1
  • University of Vienna
    1
  • University of Liverpool
    1
  • University of Bristol
    1
  • University of Sheffield
    1