146 Works

Data from: A palaeoequatorial Ornithischian and new constraints on early dinosaur diversification

Paul M. Barrett, Richard J. Butler, Roland Mundil, Torsten M. Scheyer, Randall B. Irmis, Marcelo R. Sánchez-Villagra & M. R. Sanchez-Villagra
Current characterizations of early dinosaur evolution are incomplete: existing palaeobiological and phylogenetic scenarios are based on a fossil record dominated by saurischians and the implications of the early ornithischian record are often overlooked. Moreover, the timings of deep phylogenetic divergences within Dinosauria are poorly constrained owing to the absence of a rigorous chronostratigraphical framework for key Late Triassic–Early Jurassic localities. A new dinosaur from the earliest Jurassic of the Venezuelan Andes is the first basal...

Data from: Enriching the ant tree of life: enhanced UCE bait set for genome-scale phylogenetics of ants and other Hymenoptera

Michael G. Branstetter, John T. Longino, Philip S. Ward & Brant C. Faircloth
1. Targeted enrichment of conserved genomic regions (e.g., ultraconserved elements or UCEs) has emerged as a promising tool for inferring evolutionary history in many organismal groups. Because the UCE approach is still relatively new, much remains to be learned about how best to identify UCE loci and design baits to enrich them. 2. We test an updated UCE identification and bait design workflow for the insect order Hymenoptera, with a particular focus on ants. The...

Data from: Integrating phylogenomic and population genomic patterns in avian lice provides a more complete picture of parasite evolution

Andrew D. Sweet, Bret M. Boyd, Julie M. Allen, Scott M. Villa, Michel P. Valim, Jose L. Rivera-Parra, Robert E. Wilson & Kevin P. Johnson
Parasite diversity accounts for most of the biodiversity on earth, and is shaped by many processes (e.g. cospeciation, host-switching). To identify the effects of the processes that shape parasite diversity, it is ideal to incorporate both deep (phylogenetic) and shallow (population) perspectives. To this end, we developed a novel workflow to obtain phylogenetic and population genetic data from whole genome sequences of body lice parasitizing New World ground-doves. Phylogenies from these data showed consistent, highly...

Data from: Recruitment dynamics of ESCRT-III and Vps4 to endosomes and implications for reverse membrane budding

Manuel Alonso Y. Adell, Simona M. Migliano, Srigokul Upadhyayula, Yury S. Bykov, Simon Sprenger, Mehrshad Pakdel, Georg F. Vogel, Gloria Jih, Wesley Skillern, Reza Behrouzi, Markus Babst, Oliver Schmidt, Michael W. Hess, John A.G. Briggs, Tomas Kirchhausen, David Teis & John AG Briggs
The ESCRT machinery mediates reverse membrane scission. By quantitative fluorescence lattice light-sheet microscopy, we have shown that ESCRT-III subunits polymerize rapidly on yeast endosomes, together with the recruitment of at least two Vps4 hexamers. During their 3-45 second lifetimes, the ESCRT-III assemblies accumulated 75-200 Snf7 and 15-50 Vps24 molecules. Productive budding events required at least two additional Vps4 hexamers. Membrane budding was associated with continuous, stochastic exchange of Vps4 and ESCRT-III components, rather than steady...

Data from: Experimental manipulation of population-level MHC diversity controls pathogen virulence evolution in Mus musculus

Douglas H. Cornwall, Jason L. Kubinak, Elisabeth Zachary, Derek L. Stark, Dustan Seipel & Wayne K. Potts
The virulence levels attained by serial passage of pathogens through similar host genotypes are much higher than observed in natural systems, however, it is unknown what keeps natural virulence levels below these empirically demonstrated maximum levels. One hypothesis suggests that host diversity impedes pathogen virulence, because adaptation to one host genotype carries tradeoffs in the ability to replicate and cause disease in other host genotypes. To test this hypothesis, with the simplest level of population...

Data from: Gigantic lion, (Panthera leo), from the Pleistocene of Natodomeri, eastern Africa

Fredrick K. Manthi, Francis H. Brown, Michael J. Plavcan & Lars Werdelin
The partial skull of a lion from Natodomeri, northwest Kenya is described. The Natodomeri sites are correlated with Member I of the Kibish Formation, dated to between 195 ka and ∼205 ka. The skull is remarkable for its very great size, equivalent to the largest cave lions (Panthera spelaea) of Pleistocene Eurasia and much larger than any previously known lion from Africa, living or fossil. We hypothesize that this individual represents a previously unknown population...

Data from: Phylogenomics and the evolution of hemipteroid insects

Kevin P. Johnson, Christopher H. Dietrich, Frank Friedrich, Rolf G. Beutel, Benjamin Wipfler, Ralph S. Peters, Julie M. Allen, Malte Petersen, Alexander Donath, Kimberly K. O. Walden, Alexey M. Kozlov, Lars Podsiadlowski, Christoph Mayer, Karen Meusemann, Alexandros Vasilikopoulos, Robert M. Waterhouse, Stephen L. Cameron, Christiane Weirauch, Daniel R. Swanson, Diana M. Percy, Nate B. Hardy, Irene Terry, Shanlin Liu, Xin Zhou, Bernhard Misof … & Kazunori Yoshizawa
Hemipteroid insects (Paraneoptera), with over 10% of all known insect diversity, are a major component of terrestrial and aquatic ecosystems. Previous phylogenetic analyses have not consistently resolved the relationships among major hemipteroid lineages. We provide maximum likelihood-based phylogenomic analyses of a taxonomically comprehensive dataset comprising sequences of 2,395 single-copy, protein-coding genes for 193 samples of hemipteroid insects and outgroups. These analyses yield a well-supported phylogeny for hemipteroid insects. Monophyly of each of the three hemipteroid...

Data from: Analytical tools for quantifying the morphology of invertebrate trace fossils

James R. Lehane & Allan A. Ekdale
The analysis of trace fossils usually is performed qualitatively, which makes comparing trace fossils from different units less objective than quantitative approaches. Quantifying the shape of trace fossils enables scientists to compare trace fossils described by different people with greater precision and accuracy. This paper describes several methods for quantifying invertebrate trace fossils, including morphology dependent methods (motility index, mesh size, topology, tortuosity, branching angle, and the number of cell sides) and morphology independent methods...

Data from: A four-questions perspective on public information use in sticklebacks (Gasterosteidae)

Mike M. Webster, Laura Chouinard-Thuly, Gábor Herczeg, Jun Kitano, Riva Riley, Sean Rogers, Michael D. Shapiro, Takahito Shikano & Kevin N. Laland
Whether learning primarily reflects general processes or species-specific challenges is a longstanding matter of dispute. Here we present a comprehensive analysis of public information use (PI-use) in sticklebacks (Gasterosteidae). PI-use is a form of social learning by which animals are able to assess the relative quality of resources, here prey patches, by observing the behaviour of others. PI-use was highly species-specific with only two of the assayed species, Pungitius spp. and their closest relative Culaea...

Data from: Impact of habitat fragmentation on the spatial structure of the Eastern Arc Forests in East Africa: implications for biodiversity conservation

William D. Newmark & Phoebe B. McNeally
The Eastern Arc Mountains in Tanzania and Kenya are one of 35 global biodiversity hotspots. The Eastern Arc forests are, as are many other tropical biodiversity hotspots, highly fragmented. Understanding the impact of habitat fragmentation (i.e., habitat loss and subdivision) on the spatial structure of the Eastern Arc forests is important because forest spatial structure highly influences species richness, persistence, and extinction debt. Here we examine the impact of habitat fragmentation on the spatial structure...

Photochemical Reflectance Index (PRI) captures the ecohydrological sensitivity of a semi-arid mixed conifer forest

Julia Yang, Greg Barron-Gafford, William Smith, Dong Yan, Russell Scott & John Knowles
The Photochemical Reflectance Index (PRI) corresponds to the de-epoxidation state of the xanthophyll cycle and is one of the few pigment-based vegetation indices sensitive to rapid plant physiological responses. As such, new remotely-sensed PRI products present opportunities to study diurnal and seasonal processes in evergreen conifer forests, where complex vegetation dynamics are not well reflected by the small annual changes in chlorophyll content or leaf structure. Because PRI is tied explicitly to short and long...

Musculoskeletal mass and shape are correlated with competitive ability in male house mice (Mus musculus)

Amanda Cooper, Christopher Cunningham, Jeremy Morris, James Ruff, Wayne Potts & David Carrier
Intense physical competition between males for mating opportunities is widespread among mammals. In such agonistic encounters, males with combinations of morphological, physiological, and behavioral characters that allow them to dominate an opponent often have greater fitness. However, the specific physical traits associated with competitive ability are poorly understood. Larger body size is often correlated with fitness in mammals. Interestingly, fitness is maximized at intermediate body masses in male house mice (Mus musculus), a species with...

CPCP-1: Thermal demagnetization data

Ziaul Haque, John Geissman, Randall Irmis, Paul Olsen, Christophere Lepre, Hesham Buhedma, Ronald Mundil, William Parker, Cornelia Rasmussen & George Gehrels
The Colorado Plateau Coring Project Phase 1 (CPCP-1) acquired three continuous drill cores from Petrified Forest National Park (PFNP), Arizona, U.S.A. Two cores, CPCP-PFNP13-1A and CPCP-PFNP13-2B, hereafter CPCP-1A and CPCP-2B; respectively, intersected the Upper Triassic Chinle Formation, Lower(?)-Middle Triassic Moenkopi Formation (MF) and Permian Coconino Sandstone. We examined CPCP-1A and CPCP-2B cores to construct a high-resolution magnetostratigraphy of Moenkopi Formation strata. These data files contain progressive thermal demagnetization data collected from the specimens from cores...

Data from: Functional innovation promotes diversification of form in the evolution of an ultrafast trap-jaw mechanism

Douglas Booher, Joshua Gibson, Cong Liu, John Longino, Brian Fisher, Milan Janda, Nitish Narula, Evropi Toulkeridou, Alexander Mikheyev, Andrew Suarez & Evan Economo
Evolutionary innovations underlie the rise of diversity and complexity—the two long-term trends in the history of life. How does natural selection redesign multiple interacting parts to achieve a new emergent function? We investigated the evolution of a biomechanical innovation, the latch-spring mechanism of trap-jaw ants, to address two outstanding evolutionary problems: how form and function change in a system during the evolution of new complex traits, and whether such innovations and the diversity they beget...

Providing virtual nature experiences to incarcerated men reduces stress and increases interest in the environment

James Ruff, Nalini Nadkarni, Tierney Thys, Allison Anholt, Jeff Treviño, Sara Yeo, Nalini M. Nadkarni, Tierney M. Thys, James S. Ruff & Sara K. Yeo
Humans gain multiple health benef­­­its through contact with the green and blue parts of the world . However, many people do not have access to such places, including more than two million adults who are incarcerated. Building on studies that have shown positive emotional and mood effects when inmates in solitary confinement were exposed to nature videos featuring non-human built environments in their cellblocks, we measured physiological effects of interventions of nature visual imagery and...

Video of nest predation of an African Paradise Flycatcher (Terpsiphone viridis) by an Olive Sunbird (Cyanomitra olivacea)

William Newmark & Victor Mkongewa
Nest predation is the dominant cause of nest failure in the tropics. However, our knowledge about tropical nest predator identity and community structure is still quite limited. On 9 January 2019, we video-recorded an Olive Sunbird (Cyanomitra olivacea) removing and flying off with an egg from an African Paradise Flycatcher (Terpsiphone viridis) nest in the East Usambara Mountains, Tanzania. This observation is surprising because the Olive Sunbird is a specialized nectarivore. Nectar, however, is a...

Climate-driven dietary change on the Colorado Plateau, USA and implications for gender-specific foraging patterns

Lisbeth Louderback
Complementary archaeological and paleoenvironmental datasets from North Creek Shelter (Colorado Plateau, Utah, USA) are analyzed using the diet breadth model, revealing human dietary patterns during the early and middle Holocene. Abundance indices are derived from botanical and faunal datasets and along with stone tools, are used to test the prediction that increasing aridity caused the decline of high-return resources. This prediction appears valid with respect to botanical resources, as high-ranked plants drop out of the...

Data from: Different frequency control mechanisms and the exploitation of frequency space in passerines

Franz Goller, Jay Love & Gabriel Mindlin
1. Birdsong is used in reproductive context and, consequently, has been shaped by strong natural and sexual selection. The acoustic performance includes a multitude of acoustic and temporal characteristics that are thought to honestly reveal the quality of the singing individual. 2. One major song feature is frequency and its modulation. Sound frequency can be actively controlled, but the control mechanisms differ between different groups. Two described mechanisms are pressure-driven frequency changes in suboscines and...

Processes underlying complex patterns of song trait evolution in a Setophaga hybrid zone

Jay Love & Franz Goller
During secondary contact between two species when hybrids are less fit than parents, mating signals are expected to diverge while aggressive signals are expected to converge. If a single signal trait is used in both mating and aggression, then the dynamics between these two forces could influence the evolutionary trajectory of that trait. We studied such a situation in an avian hybrid zone between two Setophaga species, where birdsong is used in both mate attraction...

Data from: Pathogenic effect of TP73 gene variants in people with amyotrophic lateral sclerosis

Kristi Russell
Objective: To identify novel disease associated loci for amyotrophic lateral sclerosis (ALS), we utilized sequencing data and performed in vitro and in vivo experiments to demonstrate pathogenicity of mutations identified in TP73. Methods: We analyzed exome sequences of 87 sporadic ALS patients and 324 controls, with confirmatory sequencing in independent ALS cohorts of >2,800 patients. For the top hit, TP73, a regulator of apoptosis, differentiation, and a binding partner as well as homolog of the...

Water potential data and model output

Steven Kannenberg
Classifying the diverse ways that plants respond to hydrologic stress into generalizable ‘water-use strategies' has long been an eco-physiological research goal. While many schemes for describing water-use strategies have proven to be quite useful, they are also associated with uncertainties regarding their theoretical basis and their connection to plant carbon and water relations. In this review, we discuss the factors that shape plant water stress responses and assess the approaches used to classify a plant’s...

Registration Year

  • 2021
    36
  • 2020
    17
  • 2019
    16
  • 2018
    16
  • 2017
    23
  • 2016
    14
  • 2015
    12
  • 2014
    6
  • 2013
    4
  • 2012
    1

Resource Types

  • Dataset
    137
  • Text
    5
  • Other
    2
  • Journal Article
    1
  • Report
    1

Affiliations

  • University of Utah
    146
  • University of Illinois at Urbana Champaign
    6
  • Utah State University
    5
  • Oregon State University
    5
  • Princeton University
    4
  • Field Museum of Natural History
    4
  • Harvard University
    4
  • University of Buenos Aires
    3
  • The University of Texas at Austin
    3
  • University of Michigan-Ann Arbor
    3