51 Works

Data from: Genetically determined fungal pathogen tolerance and soil variation influences ectomycorrhizal traits of loblolly pine

Bridget J. Piculell, Lori G. Eckhardt & Jason D. Hoeksema
1. Selection on genetically correlated traits within species can create indirect effects on one trait by selection on another. The consequences of these trait correlations are of interest because they may influence how suites of traits within species evolve under differing selection pressures, both natural and artificial. 2. By utilizing genetic families of loblolly pine either tolerant (t) or susceptible (s) to two different suites of pathogenic fungi responsible for causing either pine decline (PD)...

Data from: The population genomics of multiple tsetse fly (Glossina fuscipes fuscipes) admixture zones in Uganda

Norah P. Saarman, Robert Opiro, Chaz Hyseni, Richard Echodu, Elizabeth A. Opiyo, Kirstin Dion, Thomas Johnson, Serap Aksoy & Adalgisa Caccone
Understanding the mechanisms that enforce, maintain, or reverse the process of speciation is an important challenge in evolutionary biology. This study investigates the patterns of divergence and discusses the processes that form and maintain divergent lineages of the tsetse fly Glossina fuscipes fuscipes in Uganda. We sampled 251 flies from 18 sites spanning known genetic lineages and the four admixture zones between them. We apply population genomics, hybrid zone, and approximate Bayesian computation to the...

Data from: Is it the song or the singers? Acoustic and social experiences shape adult reproductive tactics and condition

Susan L. Balenger, Elizabeth Bastiaans & Marlene Zuk
When sexual signals are perceived during growth and development they can provide information regarding the social conditions likely to be encountered as an adult. Perception of cues related to the presence and density of future mates and potential competitors can result in altered adult phenotypes. Previous studies have shown that adult male Teleogryllus oceanicus field crickets from a Kauai, Hawaii population reared alone and without hearing conspecific song are more phonotactic than those reared with...

Data from: The role of glacial‐interglacial climate change in shaping the genetic structure of eastern subterranean termites in the southern Appalachian Mountains, USA

Chaz Hyseni & Ryan C. Garrick
The eastern subterranean termite, Reticulitermes flavipes, currently inhabits previously glaciated regions of the northeastern U.S., as well as the unglaciated southern Appalachian Mountains and surrounding areas. We hypothesized that Pleistocene climatic fluctuations have influenced the distribution of R. flavipes, and thus the evolutionary history of the species. We estimated contemporary and historical geographic distributions of R. flavipes by constructing Species Distribution Models (SDM). We also inferred the evolutionary and demographic history of the species using...

Data from: A spatial genetics approach to inform vector control of tsetse flies (Glossina fuscipes fuscipes) in Northern Uganda

Norah Saarman, Mary Burak, Robert Opiro, Chaz Hyseni, Richard Echodu, Kirstin Dion, Elizabeth A. Opiyo, Augustine W. Dunn, Giuseppe Amatulli, Serap Aksoy & Adalgisa Caccone
Tsetse flies (genus Glossina) are the only vector for the parasitic trypanosomes responsible for sleeping sickness and nagana across sub-Saharan Africa. In Uganda, the tsetse fly Glossina fuscipes fuscipes is responsible for transmission of the parasite in 90% of sleeping sickness cases, and co-occurrence of both forms of human-infective trypanosomes makes vector control a priority. We use population genetic data from 38 samples from northern Uganda in a novel methodological pipeline that integrates genetic data,...

Data from: Resolving the phylogeny of lizards and snakes (Squamata) with extensive sampling of genes and species

John J. Wiens, Carl R. Hutter, Daniel G. Mulcahy, Brice P. Noonan, Ted M. Townsend, , Tod W. Reeder & J. W. Sites
Squamate reptiles (lizards and snakes) are one of the most diverse groups of terrestrial vertebrates. Recent molecular analyses have suggested a very different squamate phylogeny relative to morphological hypotheses, but many aspects remain uncertain from molecular data. Here, we analyse higher-level squamate phylogeny with a molecular dataset of unprecedented size, including 161 squamate species for up to 44 nuclear genes each (33,717 base pairs), using both concatenated and species-tree methods for the first time. Our...

Early adaptation in a microbial community is dominated by mutualism-enhancing mutations

Sandeep Venkataram, Huanyu Kuo, Erik Hom & Sergey Kryazhimskiy
Evolutionary dynamics in ecological communities are often repeatable, but how species interactions affect the distribution of evolutionary outcomes at different levels of biological organization is unclear. Here, we use barcode lineage tracking to experimentally address this gap in a facultatively mutualistic community formed by the alga Chlamydomonas reinhardtii and the yeast Saccharomyces cerevisiae. We find that interactions with the alga alter the magnitude but not the sign of the fitness effects of adaptive mutations in...

Data from: Adaptive evolution of a derived radius morphology in manakins (Aves, Pipridae) to support acrobatic display behavior

Anthony R. Friscia, Gloria D. Sanin, Willow R. Lindsay, Lainy B. Day, Barney A. Schlinger, Josh Tan, Matthew J. Fuxjager & Anthony Friscia
The morphology of the avian skeleton is often studied in the context of adaptations for powered flight. The effects of other evolutionary forces, such as sexual selection, on avian skeletal design are unclear, even though birds produce diverse behaviors that undoubtedly require a variety of osteological modifications. Here, we investigate this issue in a family of passerine birds called manakins (Pipridae), which have evolved physically unusual and elaborate courtship displays. We report that, in species...

Data from: Association mapping of ectomycorrhizal traits in loblolly pine (Pinus taeda L.)

Bridget J. Piculell, Pedro José Martínez-García, C. Dana Nelson & Jason D. Hoeksema
To understand how diverse mutualisms coevolve and how species adapt to complex environments, a description of the underlying genetic basis of the traits involved must be provided. For example, in diverse coevolving mutualisms, such as the interaction of host plants with a suite of symbiotic mycorrhizal fungi, a key question is whether host plants can coevolve independently with multiple species of symbionts, which depends on whether those interactions are governed independently by separate genes or...

Data from: Multiple Quaternary refugia in the eastern Guiana Shield revealed by comparative phylogeography of 12 frog species

Antoine Fouquet, Brice P. Noonan, Miguel T. Rodrigues, Nicolas Pech, André Gilles & Neil J. Gemmell
The Guiana Shield is one of the most pristine regions of Amazonia and biologically one of the richest areas on Earth. How and when the massive diversity of life that exists in Amazonia arose remains the subject of considerable debate. The prevailing hypothesis of Quaternary glacial refugia suggests that a part of the eastern Guiana Shield, among other areas in Amazonia, served as stable, forested refugia during periods of aridity. However, the recently proposed Disturbance-Vicariance...

Data from: Diagnostic gene expression biomarkers of coral thermal stress

Carly D. Kenkel, Christopher Sheridan, Miguel C. Leal, Ranjeet Bhagooli, Karl D. Castillo, Naoko Kurata, Elizabeth McGinty, Tamar L. Goulet & Mikhail V. Matz
Gene expression biomarkers can enable rapid assessment of physiological conditions in situ, providing a valuable tool for reef managers interested in linking organism physiology with large-scale climatic conditions. Here, we assessed the ability of quantitative PCR (qPCR) based gene expression biomarkers to evaluate (1) the immediate cellular stress response (CSR) of Porites astreoides to incremental thermal stress and (2) the magnitude of CSR and cellular homeostasis response (CHR) during a natural bleaching event. Expression levels...

Data from: A hybrid phylogenetic–phylogenomic approach for species tree estimation in African Agama lizards with applications to biogeography, character evolution, and diversification

Adam D. Leaché, Philipp Wagner, Charles W. Linkem, Wolfgang Böhme, Theodore J. Papenfuss, Rebecca A. Chong, Brian R. Lavin, Aaron M. Bauer, Stuart V. Nielsen, Eli Greenbaum, Mark-Oliver Rödel, Andreas Schmitz, Matthew LeBreton, Ivan Ineich, Laurent Chirio, Caleb Ofori-Boateng, Edem A. Eniang, Sherif Baha El Din, Alan R. Lemmon & Frank T. Burbrink
Africa is renowned for its biodiversity and endemicity, yet little is known about the factors shaping them across the continent. African Agama lizards (45 species) have a pan-continental distribution, making them an ideal model for investigating biogeography. Many species have evolved conspicuous sexually dimorphic traits, including extravagant breeding coloration in adult males, large adult male body sizes, and variability in social systems among colorful versus drab species. We present a comprehensive time-calibrated species tree for...

Data from: Naturally rare versus newly rare: demographic inferences on two timescales inform conservation of Galápagos giant tortoises

Ryan C. Garrick, Brittney Kajdacsi, Michael A. Russello, Edgar Benavides, Chaz Hyseni, James P. Gibbs, Washington Tapia & Adalgisa Caccone
Long-term population history can influence the genetic effects of recent bottlenecks. Therefore, for threatened or endangered species, an understanding of the past is relevant when formulating conservation strategies. Levels of variation at neutral markers have been useful for estimating local effective population sizes (Ne) and inferring whether population sizes increased or decreased over time. Furthermore, analyses of genotypic, allelic frequency, and phylogenetic information can potentially be used to separate historical from recent demographic changes. For...

Data from: Evolutionary patterns of adaptive acrobatics and physical performance predict expression profiles of androgen receptor – but not oestrogen receptor – in the forelimb musculature

Matthew J. Fuxjager, Joy Eaton, Willow R. Lindsay, Lucie H. Salwiczek, Michelle A. Rensel, Julia Barske, Laurie Sorenson, Lainy B. Day & Barney A. Schlinger
1. Superior physical competence is vital to the adaptive behavioural routines of many animals, particularly those that engage in elaborate sociosexual displays. How such traits evolve across species remains unclear. 2. Recent work suggests that activation of sex steroid receptors in neuromuscular systems is necessary for the fine motor skills needed to execute physically elaborate displays. Thus, using passerine birds as models, we test whether interspecific variation in display complexity predicts species differences in the...

Data from: Viral pathogen production in a wild grass host driven by host growth and soil nitrogen

Briana K. Whitaker, Megan A. Rúa & Charles E. Mitchell
Nutrient limitation is a basic ecological constraint that has received little attention in studies on virus production and disease dynamics. Nutrient availability could directly limit the production of viral nucleic acids and proteins, or alternatively limit host growth and thus indirectly limit metabolic pathways necessary for viral replication. In order to compare direct and indirect effects of nutrient limitation on virus production within hosts, we manipulated soil nitrogen (N) and phosphorus (P) availability in a...

Match and mismatch: Integrating consumptive effects of predators, prey traits, and habitat selection in colonizing aquatic insects

Matthew R. Pintar & William J. Resetarits
Predators are a particularly critical component of habitat quality, as they affect survival, morphology, behavior, population size, and community structure through both consumptive and non-consumptive effects. Non-consumptive effects can often exceed consumptive effects, but their relative importance is undetermined in many systems. Our objective was to determine the consumptive and non-consumptive effects of a predaceous aquatic insect, Notonecta irrorata, on colonizing aquatic beetles. We tested how N. irrorata affected survival and habitat selection of colonizing...

Data from: Extending phylogeography to account for lineage fusion

Ryan C. Garrick, John D. Banusiewicz, Stephanie Burgess, Chaz Hyseni & Rebecca E. Symula
Secondary contact between long isolated populations has several possible outcomes. These include the strengthening of preexisting reproductive isolating mechanisms via reinforcement, the emergence of a hybrid lineage that is distinct from its extant parental lineages and which occupies a spatially restricted zone between them, or complete merging of two populations such that parental lineages are no longer extant ("lineage fusion" herein). The latter scenario has rarely been explicitly considered in single-species and comparative phylogeographic studies,...

Data from: Population genomics through time provides insights into the consequences of decline and rapid demographic recovery through head-starting in a Galapagos giant tortoise

Evelyn L. Jensen, Danielle L. Edwards, Ryan C. Garrick, Joshua M. Miller, James P. Gibbs, Linda J. Cayot, Washington Tapia, Aldalgisa Caccone, Michael A. Russello & Adalgisa Caccone
Population genetic theory related to the consequences of rapid population decline is well-developed, but there are very few empirical studies where sampling was conducted before and after a known bottleneck event. Such knowledge is of particular importance for species restoration, given links between genetic diversity and the probability of long-term persistence. To directly evaluate the relationship between current genetic diversity and past demographic events, we collected genome-wide single nucleotide polymorphism data from pre-bottleneck historical (c.1906)...

Data from: Context dependent colonization dynamics: regional reward contagion drives local compression in aquatic beetles

Matthew R. Pintar & William J. Resetarits
1. Habitat selection by colonizing organisms is an important factor in determining species abundance and community dynamics at multiple spatial scales. Many organisms select habitat patches based on intrinsic patch quality, but patches exist in complex landscapes linked by dispersal and colonization, forming metapopulations and metacommunities. Perceived patch quality can be influenced by neighboring patches through spatial contagion, wherein perceived quality of one patch can extend beyond its borders and either increase or decrease the...

Data from: Ecological co-associations influence species’ responses to past climatic change: an example from a Sonoran Desert bark beetle

Ryan C. Garrick, John D. Nason, Rodney J. Dyer & Juan F. Fernández-Manjarrés
Ecologically interacting species may have phylogeographic histories that are shaped both by features of their abiotic landscape, and by biotic constraints imposed by their co-association. The Baja California peninsula provides an excellent opportunity to examine the influence of abiotic vs. biotic factors on patterns of diversity in plant-insect species. This is because past climatic and geological changes impacted the genetic structure of plants quite differently to that of co-distributed free-living animals (e.g., herpetofauna and small...

Data from: A new lineage of Galapagos giant tortoises identified from museum samples

Evelyn L. Jensen, Maud C. Quinzin, Joshua M. Miller, Michael A. Russello, Ryan Garrick, Danielle L. Edwards, Scott Glaberman, Ylenia Chiari, Nikos Poulakakis, Washington Tapia, James P. Gibbs & Adalgisa Caccone
The Galapagos Archipelago is recognized as a natural laboratory for studying evolutionary processes. San Cristóbal was one of the first islands colonized by tortoises, which radiated from there across the archipelago to inhabit 10 islands. Here, we sequenced the mitochondrial control region from six historical giant tortoises from San Cristóbal (five long deceased individuals found in a cave and one found alive during an expedition in 1906) and discovered that the five from the cave...

Data from: Whole genome resequencing reveals extensive natural variation in the model green alga Chlamydomonas reinhardtii

Jonathan M. Flowers, Khaled M. Hazzouri, Gina M. Pham, Ulises Rosas, Tayebeh Bahmani, Basel Khraiwesh, David R. Nelson, Kenan Jijakli, Rasha Abdrabu, Elizabeth H. Harris, Paul A. Lefebvre, Erik F. Y. Hom, Kourosh Salehi-Ashtiani & Michael D. Purugganan
We performed whole-genome resequencing of 12 field isolates and eight commonly studied laboratory strains of the model organism Chlamydomonas reinhardtii to characterize genomic diversity and provide a resource for studies of natural variation. Our data support previous observations that Chlamydomonas is among the most diverse eukaryotic species. Nucleotide diversity is ∼3% and is geographically structured in North America with some evidence of admixture among sampling locales. Examination of predicted loss-of-function mutations in field isolates indicates...

Species composition and functional trait data for wet pine savannas

Stephen Brewer & Peter Zee
Trait differences among plant species can favor species coexistence. The role that such differences play in the assembly of diverse plant communities maintained by frequent fires remains unresolved. This lack of resolution results in part from the possibility that species with similar traits may coexist because none has a significant fitness advantage and in part from the difficulty of experimental manipulation of highly diverse assemblages dominated by perennial species. We examined a 65-year chronosequence of...

The effect of sampling density and study area size on landscape genetic inferences for the Mississippi slimy salamander (Plethodon mississippi)

Stephanie Burgess & Ryan Garrick
In the field of landscape genetics, it is largely unknown how choices regarding population sampling density and study area size impact inferences about which habitat features impede vs. facilitate gene flow. While it is commonly recommended that sampling locations be spaced no further apart than the average individual dispersal distance, for low mobility species, this could lead to a logistically challenging number of sampling locations, or a small and unrepresentative study area. We assessed the...

Is phylogeographic congruence predicted by historical habitat stability, or ecological co-associations?

Ryan Garrick, Chaz Hyseni, Ísis Arantes, Louis Zachos, Peter Zee & Jeffrey Oliver
Comparative phylogeographic studies can uniquely distinguish idiosyncratic versus community-wide responses to past environmental change. However, to date, impacts of species interactions have been largely overlooked. Here we used non-genetic data to characterize two competing scenarios about expected levels of congruence among five saproxylic invertebrate species (i.e., a wood-feeding cockroach, termite and beetle; a predatory centipede, and a detritivorous millipede) from the southern Appalachians mountains—a topographically complex unglaciated landscape. Under one scenario, abiotic factors primarily drove...

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