11 Works

Code and resulting candidate gene datasets from Anopheles genome environment association testing

Devon DeRaad
The concept of a fundamental ecological niche is central to questions of geographic distribution, population demography, species conservation, and evolutionary potential. But robust inference of genomic regions associated with evolutionary adaptation to particular environmental conditions remains difficult due to the myriad of potential confounding processes that can generate heterogeneous patterns of variation across the genome. Here, we interrogate the potential role of genome environment association (GEA) testing as an initial step in building an understanding...

Data from: Ornithogenic vegetation: How significant has the seabird influence been on the Aleutian Island vegetation during the Holocene?

Olesya Smyshlyaeva, Elena Severova, Olga Krylovich, Evgeniya Kuzmicheva, Arkady Savinetsky, Dixie West & Virginia Hatfield
In the Aleutian Islands during the Holocene, terrestrial predators were actually absent; as a result, large seabird colonies thrived along the coasts or across entire islands. Bird guano enriches the soil with nitrogen, which can lead to the formation of highly modified ornithogenic (bird-formed) ecosystems. For a more detailed investigation of avian influence, we reconstructed more than 10,000-year-old vegetation dynamics of the coast of Shemya Island (Near Islands) by pollen analysis. At the initial stages...

Inter- and intra-archipelago dynamics of population structure and gene flow in a Polynesian bird

Ethan Gyllenhaal, Xena Mapel, Tejashree Modak, Lucas DeCicco, Alivereti Naikatini, Ruth Utzurrum, Joshua Seamon, Jean-Claude Thibault, Alice Cibois, Michael Sorenson, Robert Moyle, Lisa Barrow & Michael Andersen
Islands are separated by natural barriers that prevent gene flow between terrestrial populations and promote allopatric diversification. Birds in the South Pacific are an excellent model to explore the interplay between isolation and gene flow due to the region’s numerous archipelagos and well-characterized avian communities. The wattled honeyeater complex (Foulehaio spp.) comprises three allopatric species that are widespread and common across Fiji, Tonga, Samoa, and Wallis and Futuna. Here, we explored patterns of diversification within...

Data from: Ecological factors influence balancing selection on leaf chemical profiles of a wildflower

Lauren Carley, Julius Mojica, Baosheng Wang, Chia-Yu Chen, Ya-Ping Lin, Kasavajhala Prasad, Emily Chan, Che-Wei Hsu, Rose Keith, Chase Nuñez, Carrie Olson-Manning, Catherine Rushworth, Maggie Wagner, Jing Wang, Pei-Min Yeh, Michael Reichelt, Kathryn Ghattas, Jonathan Gershenzon, Cheng-Ruei Lee & Thomas Mitchell-Olds
Balancing selection is frequently invoked as a mechanism to maintain variation within and across populations. However, rigorous tests demonstrating balancing selection operating in nature are scarce, particularly on complex traits, which frequently display high levels of variation. Leveraging a focal polymorphism, leaf chemical profile in a perennial wildflower (Boechera stricta, Brassicaceae), we investigated the ecological and genetic mechanisms that may influence the maintenance of variation in this trait. A suite of common garden and greenhouse...

Maximum clade credibility (MCC) tree of Argyrodes lanyuensis from Philippines and Orchid Island Taiwan using BEAST 1.10

Mae Responte, Yong-Chao Su, Po Peng, Yi-Fan Chiu, Rafe Brown & Chia-Yen Dai
Oceanic islands are unique geographic systems that promote local adaptations and allopatric speciation in many of their highly endemic taxa. This is a common case in the Philippine Archipelago, where numerous unrelated taxa on islands have been inferred to have diversified in isolation. However, few cases have been reported in invertebrates especially among parasitic organisms. Here, we tested for biogeographical structure in novel populations of the “generalist" kleptoparasitic spider, Argyrodes lanyuensis Yoshida, Tso & Severinghaus,...

Quantifying niche similarity among new world seed plants--Species Distribution Models (SDMs) & associated metadata

Hector Figueroa, Hannah Marx, CJ Grady, Jim Beach, Ryan Folk, Douglas Soltis, Pamela Soltis, Aimee Stewart & Stephen Smith
Niche shift and conservatism are often framed as mutually exclusive. However, both processes could contribute to biodiversity patterns. We tested this expectation by quantifying the degree of climatic niche similarity among New World seed plants. To incorporate the biological reality that species experience varied abiotic conditions across their range, we assembled distribution models and used these to characterize temperature, precipitation, and elevation niches for species as continuously-valued distributions. We then quantified niche similarity (distributional overlap)...

Data from: Broad geographic sampling reveals predictable, pervasive, and strong seasonal adaptation in Drosophila

Heather E. Machado, Alan O. Bergland, Ryan Taylor, Susanne Tilk, Emily Behrman, Kelly Dyer, Daniel K. Fabian, Thomas Flatt, Josefa González, Talia L. Karasov, Iryna Kozeretska, Brian P. Lazzaro, Thomas JS Merritt, John E. Pool, Katherine O’Brien, Subhash Rajpurohit, Paula R. Roy, Stephen W. Schaeffer, Svitlana Serga, Paul Schmidt, Dmitri Petrov & Bernard Kim
To advance our understanding of adaptation to temporally varying selection pressures, we identified signatures of seasonal adaptation occurring in parallel among Drosophila melanogaster populations. Specifically, we estimated allele frequencies genome-wide from flies sampled early and late in the growing season from 20 widely dispersed populations. We identified parallel seasonal allele frequency shifts across North America and Europe, demonstrating that seasonal adaptation is a general phenomenon of temperate fly populations. Seasonally fluctuating polymorphisms are enriched at...

A novel body plan alters diversification of body shape and genitalia in live-bearing fish

R. Brian Langerhans & Eduardo Rosa-Molinar
Major evolutionary innovations can greatly influence subsequent evolution. While many major transitions occurred in the deep past, male live-bearing fishes (family Poeciliidae) more recently evolved a novel body plan. This group possesses a three-region axial skeleton, with one region—the ano-urogenital region—representing a unique body region accommodating male genitalic structures (gonopodial complex). Here we evaluate several hypotheses for the evolution of diversity in this region and examine its role in the evolution of male body shape....

Code for: Environmental fluctuations dampen the effects of clonal reproduction on evolutionary rescue

James Peniston, Michael Barfield, Robert Holt & Maria Orive
Evolutionary rescue occurs when genetic change allows a population to persist in response to an environmental change that would otherwise have led to extinction. Most studies of evolutionary rescue assume that species have either fully clonal or fully sexual reproduction; however, many species have partially clonal reproductive strategies in which they reproduce both clonally and sexually. Furthermore, the few evolutionary rescue studies that have evaluated partially clonal reproduction did not consider fluctuations in the environment,...

Contrasting patterns of phylogenetic diversity and alpine specialization across the alpine flora of the American mountain range system

Hector Fox Figueroa, Hannah E. Marx, Maria Beatriz De Souza Cortez, Charles J. Grady, Nicholas Engle-Wrye, Jim Beach, Aimee Stewart, Ryan A. Folk, Douglas E. Soltis, Pamela S. Soltis & Stephen A. Smith
Although mountainous habitats contribute substantially to global biodiversity, comparatively little is known about biogeographic patterns of distributions of alpine species across multiple mountain ranges. Here, we present a detailed analysis of the distributions and phylogenetic affinities of alpine seed plant lineages across North, Central, and South American mountain systems. Using a comprehensive dataset that characterized the elevational niches of American seed plants in a continuously valued way, we were able to quantitatively investigate how the...

Micro-CT data from: Maternal care in mid-Cretaceous lagonomegopid spiders

Xiangbo Guo, Paul Selden & Dong Ren
This dataset contains the raw Micro-CT data and a 3D CT reconstruction of a piece of Burmese amber CNU009432 from "Guo, X., Selden, P. and Ren, D. (2021) Maternal care in mid-Cretaceous lagonomegopid spiders. Proc. R. Soc. B.". These data shows the maternal care behaviour of an adult female lagonomegopid spider guarding her egg sac. Maternal care benefits the survival and fitness of offspring often at a cost to the mother's future reproduction and has...

Registration Year

  • 2021

Resource Types

  • Dataset


  • University of Kansas
  • University of Florida
  • University of New Mexico
  • University of Michigan-Ann Arbor
  • Mississippi State University
  • Capital Normal University
  • University of the South Pacific
  • University of Pennsylvania
  • Stanford University
  • Duke University