18 Works

Data from: Genomic analysis of a key innovation in an experimental Escherichia coli population

Zachary D. Blount, Jeffrey E. Barrick, Carla J. Davidson & Richard E. Lenski
Evolutionary novelties have been important in the history of life, but their origins are usually difficult to examine in detail. We previously described the evolution of a novel trait, aerobic citrate utilization (Cit+), in an experimental population of Escherichia coli. Here we analyze 29 genomes to investigate the history and genetic basis of this trait. At least three distinct clades coexisted for more than 10,000 generations prior to its emergence. The Cit+ trait originated in...

Data from: Repeatability and contingency in the evolution of a key innovation in phage lambda

Justin R. Meyer, Devin T. Dobias, Joshua S. Weitz, Jeffrey E. Barrick, Ryan T. Quick & Richard E. Lenski
The processes responsible for the evolution of key innovations, whereby lineages acquire qualitatively new functions that expand their ecological opportunities, remain poorly understood. We examined how a virus, bacteriophage λ, evolved to infect its host, Escherichia coli, through a novel pathway. Natural selection promoted the fixation of mutations in the virus’s host-recognition protein, J, that improved fitness on the original receptor, LamB, and set the stage for other mutations that allowed infection through a new...

Data from: Interannual variation in effective number of breeders and estimation of effective population size in long-lived iteroparous lake sturgeon (Acipenser fulvescens)

Thuy Yen Duong, Kim T. Scribner, Patrick S. Forsythe, James A. Crossman & Edward A. Baker
Quantifying interannual variation in effective adult breeding number (Nb) and relationships between Nb, effective population size (Ne), adult census size (N) and population demographic characteristics are important to predict genetic changes in populations of conservation concern. Such relationships are rarely available for long-lived iteroparous species like lake sturgeon (Acipenser fulvescens). We estimated annual Nb and generational Ne using genotypes from 12 microsatellite loci for lake sturgeon adults (n = 796) captured during ten spawning seasons...

Data from: Admixture mapping of male nuptial color and body shape in a recently formed hybrid population of threespine stickleback

Tiffany B. Malek, Janette W. Boughman, Ian Dworkin & Catherine L. Peichel
Despite recent progress, we still know relatively little about the genetic architecture that underlies adaptation to divergent environments. Determining whether the genetic architecture of phenotypic adaptation follows any predictable patterns requires data from a wide variety of species. However, in many organisms, genetic studies are hindered by the inability to perform genetic crosses in the laboratory or by long generation times. Admixture mapping is an approach that circumvents these issues by taking advantage of hybridization...

Data from: Mutation rate dynamics in a bacterial population reflect tension between adaptation and genetic load

Sébastien Wielgoss, Jeffrey E. Barrick, Olivier Tenaillon, Michael J. Wiser, W. James Dittmar, Stéphane Cruveiller, Béatrice Chane-Woon-Ming, Claudine Médigue, Richard E. Lenski & Dominique Schneider
Mutations are the ultimate source of heritable variation for evolution. Understanding how mutation rates themselves evolve is thus essential for quantitatively understanding many evolutionary processes. According to theory, mutation rates should be minimized for well-adapted populations living in stable environments, whereas hypermutators may evolve if conditions change. However, the long-term fate of hypermutators is unknown. Using a phylogenomic approach, we found that an adapting Escherichia coli population that first evolved a mutT hypermutator phenotype was...

Data from: Population divergence and gene flow in an endangered and highly mobile seabird

Andreanna J. Welch, Robert C. Fleischer, Helen F. James, Anne E. Wiley, Peggy H. Ostrom, Josh Adams, Fern Duvall, Nick Holmes, Jay Penniman, Keith A. Swindle & Darcy Hu
Seabirds are highly vagile and can disperse up to thousands of kilometers, therefore it can be difficult to identify the factors that promote isolation between populations. The endemic Hawaiian petrel (Pterodroma sandwichensis) is one such species. Today it is endangered, and known to breed only on the islands of Hawaii, Maui, Lanai, and Kauai. Historical records indicate that a large population formerly bred on Molokai as well, but this population has recently been extirpated. Given...

Data from: Low heritabilities, but genetic and maternal correlations between red squirrel behaviours.

Ryan W. Taylor, Adrienne K. Boon, Ben Dantzer, Denis Réale, Murray M. Humphries, Stan Boutin, Jamieson C. Gorrell, David W. Coltman & Andrew G. McAdam
Consistent individual differences in behaviour, and behavioural correlations within and across contexts, are referred to as animal personalities. These patterns of variation have been identified in many animal taxa and are likely to have important ecological and evolutionary consequences. Despite their importance, genetic and environmental sources of variation in personalities have rarely been characterized in wild populations. We used a Bayesian animal model approach to estimate genetic parameters for aggression, activity and docility in North...

Data from: The Black Queen Hypothesis: evolution of dependencies through adaptive gene loss

Richard E. Lenski, Erik R. Zinser & James Jeffrey Morris
Reductive genomic evolution is common in endosymbiotic bacteria, where it is driven by genetic drift. Genome reduction is less common in free-living organisms, but it has occurred in the numerically dominant open-ocean bacterioplankton Prochlorococcus and Pelagibacter, and in these cases the reduction appears to be driven by natural selection rather than drift. The loss of certain genes in free-living organisms may leave them dependent on co-occurring microbes for the lost metabolic functions. We present the...

Data from: Genotype-by-environment interactions for cuticular hydrocarbon expression in Drosophila simulans

Fiona C. Ingleby, David J. Hosken, Kristy Flowers, Michael F. Hawkes, Sarah M. Lane, James Rapkin, Ian Dworkin & John Hunt
Genotype-by-environment interactions (G x Es) describe genetic variation for phenotypic plasticity. Recent interest in the role of these interactions in sexual selection has identified G x Es across a diverse range of species and sexual traits. Additionally, theoretical work predicts that G x Es in sexual traits could help to maintain genetic variation, but could also disrupt the reliability of these traits as signals of mate quality. However, empirical tests of these theoretical predictions are...

Data from: Fitness of Arabidopsis thaliana mutation accumulation lines whose spontaneous mutations are known

Charles B. Fenster, Matthew Thomas Rutter, Angela J. Roles, Jeffrey K. Conner, Ruth G. Shaw, Frank Holcomb Shaw, Korbinian Schneeberger, Stephan Ossowski & Detlef Weigel
Despite the fundamental importance of mutation to the evolutionary process, we have little knowledge of the direct consequences of specific spontaneous mutations to the fitness of the organism. Combining results of whole-genome sequencing with repeated field assays of survival and reproduction, we quantify the combined effects on fitness of spontaneous mutations identified in Arabidopsis thaliana. We demonstrate that the effects are beneficial, deleterious or neutral depending on the environmental context. Some lines, bearing mutations disrupting...

Data from: Sequential mate choice and sexual isolation in threespine stickleback species

Genevieve M. Kozak, Megan L. Head, Alycia C. R. Lackey & Janette W. Boughman
Sequential mate choice strategies predict how females should alter their choosiness based on the availability of attractive males. While there are many studies on sequential mate choice within species, few have asked if females apply these strategies to interactions between species and how these strategies may affect hybridization. We tested how previous interactions with conspecific and heterospecific males affect mate preference and sexual isolation in two threespine stickleback species (benthics and limnetics: Gasterosteus spp.). Consistent...

Data from: Experimental test of phytoplankton competition for nutrients and light in poorly mixed water columns

Jarad P. Mellard, Kohei Yoshiyama, Christopher A. Klausmeier & Elena Litchman
A recent theory of the vertical distribution of phytoplankton considers how interacting niche construction processes such as resource depletion, behavior, and population dynamics contribute to spatial heterogeneity in the aquatic environment. In poorly mixed water columns with opposing resource gradients of nutrients and light, theory predicts that a species should aggregate at a single depth. This depth of aggregation, or biomass maximum, should change through time due to depletion of available resources. In addition, the...

Data from: Estimating abundance of the federally endangered Mitchell’s satyr butterfly using hierarchical distance sampling

Christopher A. Hamm
1. Estimates of animal abundance are essential to conservation biology and are sorely lacking for many endangered species in the United States of America. This lack of knowledge may disproportionately affect butterflies in the USA, which form the largest group of federally protected insects (20 of 62 species). 2. The Mitchell’s satyr butterfly, Neonympha mitchellii mitchellii, is a federally endangered species found at 18 highly isolated sites in the Eastern USA. Currently, surveys are conducted...

Data from: Plastic responses to parents and predators lead to divergent social behaviour in sticklebacks

Genevieve M. Kozak & Janette W. Boughman
Population divergence in antipredator defense and behaviour occurs rapidly and repeatedly. Genetic differences, phenotypic plasticity, or parental effects may all contribute to divergence, but the relative importance of each of these mechanisms remains unknown. We exposed juveniles to parents and predators to measure how induced changes contribute to shoaling behaviour differences between two threespine stickleback species (benthics and limnetics: Gasterosteus spp). We found that limnetics increased shoaling in response to predator attacks while benthics did...

Data from: The effect of historical legacy on adaptation: do closely related species respond to the environment in the same way?

Rachel Prunier, Kent E. Holsinger & Jane E. Carlson
The many documented examples of parallel and convergent evolution in similar environments are strong evidence for the role of natural selection in the evolution of trait variation. However, species may respond to selection in different ways; idiosyncrasies of their evolutionary history may affect how different species respond to the same selective pressure. To determine whether evolutionary history affects trait-environment associations in a recently diverged lineage, we investigated within-species trait-environment associations in the white proteas, a...

Data from: Runaway sexual selection leads to good genes

Christopher H. Chandler, Charles Ofria & Ian Dworkin
Mate choice and sexual displays are widespread in nature, but their evolutionary benefits remain controversial. Theory predicts these traits can be favored by runaway sexual selection, in which preference and display reinforce one another due to genetic correlation; or by good genes benefits, in which mate choice is advantageous because extreme displays indicate a well-adapted genotype. However, these hypotheses are not mutually exclusive, and the adaptive benefits underlying mate choice can themselves evolve. In particular,...

Data from: Tropical tree growth is correlated with soil phosphorus, potassium, and calcium, though not for legumes

Thomas W. Baribault, Richard K. Kobe & Andrew O. Finley
Tropical forest productivity is widely assumed to be limited by soil phosphorus (P), but biogeochemical processes that deplete P also could deplete base cations, suggesting multiple resource limitation. Limitation by several resources could arise from species and functional diversity, and variation among groups in resource requirements, including ecophysiological strategies that minimize P limitation. We hypothesized that tree growth is positively related to soil base cation and P availability and negatively related to local competition; Fabaceae...

Data from: What pollinates Lantana camara in the mountains of Costa Rica?

Christopher A. Hamm
Lantana camara L. (Verbenaceae) is a shrub of Neotropical origin that has spread to at least 60 countries (Day et al. 2003), and its ability to rapidly occupy disturbed habitat has led to it being named one of the ten worst weeds on the planet (Cronk & Fuller 1995, Sharma et al. 2005). A number of traits may have contributed to its success as an invasive species. For example, L. camara increases the available soil...

Registration Year

  • 2012

Resource Types

  • Dataset


  • Michigan State University
  • University of Exeter
  • University of Kansas
  • University of Quebec at Montreal
  • Fred Hutchinson Cancer Research Center
  • National Museum of Natural History
  • The University of Texas at Austin
  • Michigan Department of Natural Resources
  • University of Alberta
  • University of Minnesota