13 Works

Data from: Constraints on the adult-offspring size relationship in protists

Franklin Caval-Holme, Jonathan L. Payne, Jan M. Skotheim & Jonathan Payne
The relationship between adult and offspring size is an important aspect of reproductive strategy. Although this filial relationship has been extensively examined in plants and animals, we currently lack comparable data for protists, whose strategies may differ due to the distinct ecological and physiological constraints on single-celled organisms. Here, we report measurements of adult and offspring sizes in 3,888 species and subspecies of foraminifera, a class of large marine protists. Foraminifera exhibit a wide range...

Data from: Phenotypic and genotypic convergences are influenced by historical contingency and environment in yeast

Aymé Spor, Daniel J. Kvitek, Thibault Nidelet, Juliette Martin, Judith Legrand, Christine Dillmann, Aurélie Bourgais, Dominique De Vienne, Gavin Sherlock & Delphine Sicard
Different organisms have independently and recurrently evolved similar phenotypic traits at different points throughout history. This phenotypic convergence may be caused by genotypic convergence and in addition, constrained by historical contingency. To investigate how convergence may be driven by selection in a particular environment and constrained by history, we analyzed nine life-history traits and four metabolic traits during an experimental evolution of six yeast strains in four different environments. In each of the environments, the...

Data from: The use of archived tags in retrospective genetic analysis of fish

Sara Bonanomi, Nina Overgaard Therkildsen, Rasmus Berg Hedeholm, Jakob Hemmer-Hansen & Einar Eg Nielsen
Collections of historical tissue samples from fish (e.g. scales and otoliths) stored in museums and fisheries institutions are precious sources of DNA for conducting retrospective genetic analysis. However, in some cases only external tags used for documentation of spatial dynamics of fish populations have been preserved. Here we test the usefulness of fish tags as a source of DNA for genetic analysis. We extract DNA from historical tags from cod collected in Greenlandic waters between...

Data from: Microevolution in time and space: SNP analysis of historical DNA reveals dynamic signatures of selection in Atlantic cod

Nina O. Therkildsen, Jakob Hemmer-Hansen, Thomas D. Als, Douglas P. Swain, M. Joanne Morgan, Edward A. Trippel, Stephen R. Palumbi, Dorte Meldrup & Einar E. Nielsen
Little is known about how quickly natural populations adapt to changes in their environment and how temporal and spatial variation in selection pressures interact to shape patterns of genetic diversity. We here address these issues with a series of genome scans in four overfished populations of Atlantic cod (Gadus morhua) studied over an 80-year period. Screening of >1000 gene-associated single-nucleotide polymorphisms (SNPs) identified 77 loci that showed highly elevated levels of differentiation, likely as an...

Data from: Forest restoration and parasitoid wasp communities in montane Hawai'i

Rachelle K. Gould, Liba Pejchar, Sara G. Bothwell, Berry Brosi, Stacie Wolny, Chase D. Mendenhall & Gretchen Daily
Globally, most restoration efforts focus on re-creating the physical structure (flora or physical features) of a target ecosystem with the assumption that other ecosystem components will follow. Here we investigate that assumption by documenting biogeographical patterns in an important invertebrate taxon, the parasitoid wasp family Ichneumonidae, in a recently reforested Hawaiian landscape. Specifically, we test the influence of (1) planting configurations (corridors versus patches), (2) vegetation age, (3) distance from mature native forest, (4) surrounding...

Data from: Signals of selection in outlier loci in a widely dispersing species across an environmental mosaic

Melissa H. Pespeni & Stephen R. Palumbi
Local adaptation reflects a balance between natural selection and gene flow and is classically thought to require the retention of locally adapted alleles. However, organisms with high dispersal potential across a spatially or temporally heterogeneous landscape pose an interesting challenge to this view requiring local selection every generation or when environmental conditions change to generate adaptation in adults. Here, we test for geographical and sequence-based signals of selection in five putatively adaptive and two putatively...

Data from: Water stress strengthens mutualism among ants, trees, and scale insects

Elizabeth G. Pringle, Erol Akçay, Ted K. Raab, Rodolfo Dirzo & Deborah M. Gordon
Abiotic environmental variables strongly affect the outcomes of species interactions. For example, mutualistic interactions between species are often stronger when resources are limited. The effect might be indirect: water stress on plants can lead to carbon stress, which could alter carbon-mediated plant mutualisms. In mutualistic ant–plant symbioses, plants host ant colonies that defend them against herbivores. Here we show that the partners' investments in a widespread ant–plant symbiosis increase with water stress across 26 sites...

Data from: Host species and environmental effects on bacterial communities associated with Drosophila in the laboratory and in the natural environment

Fabian Staubach, John F. Baines, Sven Künzel, Elisabeth M. Bik & Dmitri A. Petrov
The fruit fly Drosophila is a classic model organism to study adaptation as well as the relationship between genetic variation and phenotypes. Although associated bacterial communities might be important for many aspects of Drosophila biology, knowledge about their diversity, composition, and factors shaping them is limited. We used 454-based sequencing of a variable region of the bacterial 16S ribosomal RNA gene to characterize the bacterial communities associated with wild and laboratory Drosophila isolates. In order...

Data from: To kill a kangaroo: understanding the decision to pursue high-risk/high-gain resources

James Holland Jones, Rebecca Bliege Bird & Douglas W. Bird
In this paper, we attempt to understand hunter–gatherer foraging decisions about prey that vary in both the mean and variance of energy return using an expected utility framework. We show that for skewed distributions of energetic returns, the standard linear variance discounting (LVD) model for risk-sensitive foraging can produce quite misleading results. In addition to creating difficulties for the LVD model, the skewed distributions characteristic of hunting returns create challenges for estimating probability distribution functions...

Data from: Genome-wide evidence for speciation with gene flow in Heliconius butterflies

Simon H. Martin, Kanchon K. Dasmahapatra, Nicola J. Nadeau, Camilo Salazar, James R. Walters, Fraser Simpson, Mark Blaxter, Andrea Manica, James Mallet & Chris D. Jiggins
Most speciation events probably occur gradually, without complete and immediate reproductive isolation, but the full extent of gene flow between diverging species has rarely been characterized on a genome-wide scale. Documenting the extent and timing of admixture between diverging species can clarify the role of geographic isolation in speciation. Here we use new methodology to quantify admixture at different stages of divergence in Heliconius butterflies, based on whole genome sequences of 31 individuals. Comparisons between...

Data from: Evolutionary change during experimental ocean acidification

Melissa H. Pespeni, Eric Sanford, Tessa M. Hill, Jessica D. Hosfelt, Hannah K. Jaris, Michele LaVigne, Brian Gaylord, Elizabeth A. Lenz, Ann D. Russell, Megan K. Young & Stephen R. Palumbi
Rising atmospheric carbon dioxide (CO2) conditions are driving unprecedented changes in seawater chemistry, resulting in reduced pH and carbonate ion concentrations in the Earth’s oceans. This ocean acidification has negative but variable impacts on individual performance in many marine species. However, little is known about the adaptive capacity of species to respond to an acidified ocean, and as a result, predictions regarding future ecosystem responses remain incomplete. Here we demonstrate that ocean acidification generates striking...

Data from: Meta-analysis reveals lower genetic diversity in overfished populations

Malin L. Pinsky & Stephen R. Palumbi
While population declines can drive the loss of genetic diversity under some circumstances, it has been unclear whether this loss is a general consequence of overharvest in highly abundant marine fishes. Here, we use a phylogenetic approach across 160 species and 11,658 loci to show that allelic richness was on average 11% lower (p < 0.0001) in overharvested populations, even after accounting for the effects of body size, latitude, and other factors. Heterozygosity was 2%...

Data from: Environmental variability counteracts priority effects to facilitate species coexistence: evidence from nectar microbes

Caroline M. Tucker & Tadashi Fukami
The order of species arrival during community assembly can greatly affect species coexistence, but the strength of these effects, known as priority effects, appears highly variable across species and ecosystems. Furthermore, the causes of this variation remain unclear despite their fundamental importance in understanding species coexistence. Here, we show that one potential cause is environmental variability. In laboratory experiments using nectar-inhabiting microorganisms as a model system, we manipulated spatial and temporal variability of temperature, and...

Registration Year

  • 2013
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Affiliations

  • Stanford University
    13
  • Princeton University
    2
  • Technical University of Denmark
    2
  • University of Michigan-Ann Arbor
    1
  • Del Rosario University
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  • Stanford University School of Medicine
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  • University of Cambridge
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  • University of Edinburgh
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  • University of Lyon System
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  • French National Institute for Agricultural Research
    1