87 Works

Intraspecific genetic variation underlying postmating reproductive barriers between species in the wild tomato clade (Solanum sect. Lycopersicon)

Cathleen Jewell, Simo Zhang, Matthew Gibson, Alejandro Tovar-Mendez, Bruce McClure & Leonie Moyle
A goal of speciation genetics is to understand how the genetic components underlying interspecific reproductive barriers originate within species. Unilateral incompatibility (UI) is a postmating prezygotic barrier in which pollen rejection in the female reproductive tract (style) occurs in only one direction of an interspecific cross. Natural variation in the strength of UI has been observed among populations within species in the wild tomato clade. In some cases, molecular loci underlying self-incompatibility (SI) are associated...

Evolutionary history of Neotropical savannas geographically concentrates species, phylogenetic and functional diversity of lizards

Jessica Fenker, Fabricius M. C. B. Domingos, Leonardo G. Tedeschi, Dan F. Rosauer, Fernanda P. Werneck, Guarino R. Colli, Roger M. D. Ledo, Emanuel M. Fonseca, Adrian A. Garda, Derek Tucker, W. Sites Jr., Jack, Maria F. Breitman, Flavia Soares, Lilian G. Giugliano & Craig Moritz
Supporting information (scripts) to compute diversity and endemism indices copied and available by Dan Rosauer (https ://github.com/DanRosauer/phylospatial). Aim: Understanding where and why species diversity is geographically concentrated remains a challenge in biogeography and macroevolution. This is true for the Cerrado, the most biodiverse tropical savanna in the world, which has experienced profound biodiversity loss. Previous studies have focused on a single metric (species composition), neglecting the fact that ‘species’ within the biome are often composed...

RAMP data subset, January 1 through May 31, 2019

Jonathan Wheeler, Kenning Arlitsch, Minh Pham, Nikolaus Parulian, Patrick OBrien & Jeff Mixter
The data are a subset of data from RAMP, the Repository Analytics and Metrics Portal (http://ramp.montana.edu/), consisting of data from 35 (out of 50) participating institutional repositories (IR) from the period of January 1 through May 31, 2019. This subset represents data analyzed for a pending publication. For a description of the data collection, processing, and output methods, please see the "methods" section below. The 'RAMP Primer,' a Jupyter Notebook consisting of Python code for...

Leaf vibrations produced by chewing provide a consistent acoustic target for plant recognition of herbivores

Reginald Cocroft & Alexis Kollasch
Plant defenses that respond to the threat of herbivory require accurate sensing of the presence of herbivores. Herbivory cues include mechanical damage, elicitors from insect saliva or eggs, and airborne volatiles emitted by wounded plants. Plants can also respond to the leaf vibrations produced by chewing herbivores. However, previous studies of the influence of feeding vibrations on plant defenses have been limited to single species pairs. In this study we test the hypothesis that chewing...

Estimating survival for elusive juveniles: a multi-species comparison among Ambystoma

Arianne Messerman, Raymond Semlitsch & Manuel Leal
Juvenile vital rates have important effects on population dynamics for many species, but this demographic is often difficult to locate and track. As such, we frequently lack reliable estimates of juvenile survival, which are necessary for accurately assessing population stability and potential management approaches to conserve biodiversity. We empirically estimated survival rates for elusive juveniles of 3 complex lifecycle species of salamanders (ringed salamander [Ambystoma annulatum], spotted slamander [A. maculatum], and small-mouthed slamander [A. texanum])...

Data from: Human endometrial transcriptome and progesterone receptor cistrome reveal important pathways and epithelial regulators

Ru-Pin Alicia Chi, Tianyuan Wang, Nyssa Adams, San-Pin Wu, Steven Young, Thomas Spencer & Francesco DeMayo
Context. Poor uterine receptivity is one major factor leading to pregnancy loss and infertility. Understanding the molecular events governing successful implantation is hence critical in combating infertility. Objective. To define PGR-regulated molecular mechanisms and epithelial roles in receptivity. Design. RNA-seq and PGR-ChIP-seq were conducted in parallel to identify PGR-regulated pathways during the WOI in endometrium of fertile women. Setting. Endometrial biopsies from the proliferative and mid-secretory phases were analyzed. Patients or Other Participants. Participants were...

Data from: Telemedicine in neurology: telemedicine work group of the American Academy of Neurology update

Jaime M. Hatcher-Martin, Jamie Lynn Adams, Eric R Anderson, Riley Bove, Tamika M. Burrus, Mahan Chehrenama, Mary Dolan O'Brien, Dawn S. Eliashiv, Deniz Erten-Lyons, Barbara S. Giesser, Lauren Moo, Pushpa Narayanaswami, Marvin A. Rossi, Madhu Soni, Nauman Tariq, Jack W. Tsao, Bert Vargas, Scott Vota, Scott Wessels, Hannah Planalp & Raghav Govindarajan
ABSTRACT Purpose: While there is strong evidence supporting the importance of telemedicine in stroke, its role in other areas of neurology is not as clear. The goal of this review is to provide an overview of evidence-based data regarding the role of teleneurology in the care of patients with neurologic disorders other than stroke. Recent findings: Studies across multiple specialties report noninferiority of evaluations by telemedicine compared with traditional, in-person evaluations in terms of patient...

Data from: Pollination on the dark side: acoustic monitoring reveals impacts of a total solar eclipse on flight behavior and activity schedule of foraging bees

Candace Galen, Zachary Miller, Austin Lynn, Michael Axe, Samuel Holden, Levi Storks, Edward Ramirez, Emilia Asante, David Heise, Susan Kephart, James Kephart, Eddie Ramirez & Jim Kephart
The total solar eclipse of 21 August 2017 traversed ~5000 km from coast to coast of North America. In its 90-min span, sunlight dropped by three orders of magnitude and temperature by 10–15°C. To investigate impacts of these changes on bee (Hymenoptera: Apoidea) pollinators, we monitored their flights acoustically in natural habitats of Pacific Coast, Rocky Mountain, and Midwest regions. Temperature changes during the eclipse had little impact on bee activity. Most of the explained...

Data from: How much of the world is woody?

Richard G. FitzJohn, Matt W. Pennell, Amy E. Zanne, Peter F. Stevens, David C. Tank, William K. Cornwell & Matthew W. Pennell
1.The question posed by the title of this paper is a basic one, and it is surprising that the answer is not known. Recently assembled trait datasets provide an opportunity to address this, but scaling these datasets to the global scale is challenging because of sampling bias. Although we currently know the growth form of tens of thousands of species, these data are not a random sample of global diversity; some clades are exhaustively characterised,...

Data from: Drosophila FoxP mutants are deficient in operant self-learning

Ezequiel Mendoza, Julien Colomb, Jürgen Rybak, Hans-Joachim Pflüger, Troy Zars, Constance Scharff & Björn Brembs
Intact function of the Forkhead Box P2 (FOXP2) gene is necessary for normal development of speech and language. This important role has recently been extended, first to other forms of vocal learning in animals and then also to other forms of motor learning. The homology in structure and in function among the FoxP gene members raises the possibility that the ancestral FoxP gene may have evolved as a crucial component of the neural circuitry mediating...

Data from: Adaptive evolution of C4 photosynthesis through recurrent lateral gene transfer

Pascal-Antoine Christin, Erika J. Edwards, Guillaume Besnard, Susanna F. Boxall, Richard Gregory, Elizabeth A. Kellogg, Colin P. Osborne & James Hartwell
C4 photosynthesis is a complex trait that confers higher productivity under warm and arid conditions. It has evolved more than 60 times via the co-option of genes present in C3 ancestors followed by alteration of the patterns and levels of expression, and adaptive changes in the coding sequences, but the evolutionary path to C4 photosynthesis is still poorly understood. The grass lineage Alloteropsis offers unparalleled opportunities for studying C4 evolution, because it includes a C3...

Data from: Phylogenomic analysis of transcriptome data elucidates co-occurrence of a paleopolyploid event and the origin of bimodal karyotypes in Agavoideae (Asparagaceae)

Michael R. McKain, Norman Wickett, Yeting Zhang, Saravanaraj Ayyampalayam, W. Richard McCombie, Mark W. Chase, J. Chris Pires, Claude W. DePamphilis, Jim Leebens-Mack & Claude W. De Pamphilis
PREMISE OF THE STUDY: The stability of the bimodal karyotype found in Agave and closely related species has long interested botanists. The origin of the bimodal karyotype has been attributed to allopolyploidy, but this hypothesis has not been tested. Next Generation transcriptome sequence data were used to test whether a paleopolyploid event occurred on the same branch of the Agavoideae phylogenetic tree as the origin of the Yucca-Agave bimodal karyotype. METHODS: Illumina RNAseq data were...

Data from: Phylogeny and photosynthesis of the grass tribe Paniceae

Jacob D. Washburn, James C. Schnable, Gerrit Davidse & J. Chris Pires
PREMISE OF THE STUDY: The grass tribe Paniceae includes important food, forage, and bioenergy crops such as switchgrass, napiergrass, various millet species, and economically important weeds. Paniceae are also valuable for answering scientific and evolutionary questions about C4 photosynthetic evolution, drought tolerance, and spikelet variation. However, the phylogeny of the tribe remains incompletely resolved. METHODS: Forty-five taxa were selected from across the tribe Paniceae and outgroups for genome survey sequencing (GSS). These data were used...

Data from: Biodiversity comparison among phylogenetic diversity metrics and between three North American prairies

P. Roxanne Steele Kellar, Dakota L. Ahrendsen, Shelly K. Aust, Amanda R. Jones, J. Chris Pires & Roxanne (Steele) Kellar, P.
Protection of Earth's ecosystems requires identification of geographical areas of greatest biodiversity. Assessment of biodiversity begins with knowledge of the evolutionary histories of species in a geographic area. Multiple phylogenetic diversity (PD) metrics have been developed to describe biodiversity beyond species counts, but sufficient empirical studies, particularly at fine phylogenetic scales, have not been conducted to provide conservation planners with evidence for incorporating PD metrics into selection of priority regions. We review notable studies that...

Data from: Conquering the world in leaps and bounds: hopping locomotion in toads is actually bounding

Stephen M. Reilly, Stephane J. Montuelle, Andre Schmidt, Emily Naylor, Michael E. Jorgensen, Lewis G. Halsey, Essner Jr., Richard L. & Richard L. Essner
1.While most frogs maximize jump distance as an escape behavior, toads have traded jump distance for endurance with a strategy of hopping repeatedly. This strategy has enabled toads to expand across the continents as one of the most diverse groups of anurans. Multiple studies have revealed physiological endurance adaptations for sustained hopping in toads, however, the kinematics of their sequential hopping behavior, per se, has not been studied. 2.We compared kinematics and forces of single...

Data from: Phylogeny, classification, and fruit evolution of the species-rich Neotropical bellflowers (Campanulaceae: Lobelioideae)

Laura P. Lagomarsino, Alexandre Antonelli, Nathan Muchhala, Allan Timmermann, Sarah Mathews, Charles C. Davis, A. Timmermann, N. Muchhala, L. P. Lagomarsino, C. C. Davis, S. Mathews & A. Antonelli
Premise of the study: The species-rich Neotropical genera Centropogon, Burmeistera, and Siphocampylus represent more than half of the ∼1200 species in the subfamily Lobelioideae (Campanulaceae). They exhibit remarkable morphological variation in floral morphology and habit. Limited taxon sampling and phylogenetic resolution, however, obscures our understanding of relationships between and within these genera and underscores our uncertainty of the systematic value of fruit type as a major diagnostic character. Methods: We inferred a phylogeny from five...

Data from: Taphonomy of the Ediacaran fossil Pteridinium simplex preserved three-dimensionally in mass flow deposits, Nama Group, Namibia

Michael Meyer, David Elliott, James Schiffbauer, Patricia Vickers-Rich, Michael Hall, Karl Hoffman, Gabi Schneider, Shuhai Xiao, James D. Schiffbauer & Mike Meyer
Ediacara-type fossils are found in a diverse array of preservational styles, implying that multiple taphonomic mechanisms might have been responsible for their preservational expression. For many Ediacara fossils, the “death mask” model has been invoked as the primary taphonomic pathway. The key to this preservational regime is the replication or sealing of sediments around the degrading organisms by microbially induced precipitation of authigenic pyrite, leading toward fossil preservation along bedding planes. Nama-style preservation, on the...

Data from: Worldwide patterns of ancestry, divergence, and admixture in domesticated cattle

Jared Egan Decker, Stephanie D. McKay, Megan M. Rolf, JaeWoo Kim, Antonio Molina Alcalá, Tad S. Sonstegard, Olivier Hanotte, Anders Götherström, Christopher M. Seabury, Lisa Praharani, Masroor Ellahi Babar, Luciana Correia De Almieda Regitano, Mehmet Ali Yildiz, Michael P. Heaton, Wan-Sheng Liu, Chu-Zhao Lei, James M. Reecy, Muhammad Saif-Ur-Rehman, Robert D. Schnabel, Jeremy F. Taylor, Jared E. Decker & Antonio Molina Alcalá
The domestication and development of cattle has considerably impacted human societies, but the histories of cattle breeds have been poorly understood especially for African, Asian, and American breeds. Using genotypes from 43,043 autosomal single nucleotide polymorphism markers scored in 1,543 animals, we evaluate the population structure of 134 domesticated bovid breeds. Regardless of the analytical method or sample subset, the three major groups of Asian indicine, Eurasian taurine, and African taurine were consistently observed. Patterns...

Data from: Ecological resistance surfaces predict fine scale genetic differentiation in a terrestrial woodland salamander

William E. Peterman, Grant M. Connette, Raymond D. Semlitsch & Lori S. Eggert
Landscape genetics has seen tremendous advances since its introduction, but parameterization and optimization of resistance surfaces still poses significant challenges. Despite increased availability and resolution of spatial data, few studies have integrated empirical data to directly represent ecological processes as genetic resistance surfaces. In our study, we determine the landscape and ecological factors affecting gene flow in the western slimy salamander (Plethodon albagula). We used field data to derive resistance surfaces representing salamander abundance and...

Data from: Three decades of cultural evolution in Savannah sparrow songs

Heather Williams, Iris I. Levin, D. Ryan Norris, Amy E. M. Newman, Nathaniel T. Wheelwright & Amy E.M. Newman
Cultural evolution can result in changes in the prevalence not only of different learned song types within bird populations but also of different segments within the song. Between 1980 and 2011, we examined changes within different segments of the single songs of male Savannah sparrows, Passerculus sandwichiensis, in an island population. Introductory notes did not change. The buzz segment showed similar stability; although a rare low-frequency variant appeared and then disappeared, the buzz segments from...

Data from: Repeated evolution of vertebrate pollination syndromes in a recently diverged Andean plant clade

Laura P. Lagomarsino, Elisabeth J. Forrestel, Nathan Muchhala & Charles C. Davis
While specialized interactions, including those involving plants and their pollinators, are often invoked to explain high species diversity, they are rarely explored at macroevolutionary scales. We investigate the dynamic evolution of hummingbird and bat pollination syndromes in the centropogonid clade (Lobelioideae: Campanulaceae), an Andean-centered group of ∼550 angiosperm species. We demonstrate that flowers hypothesized to be adapted to different pollinators based on flower color fall into distinct regions of morphospace, and this is validated by...

Data from: Does hunting or hiking affect wildlife communities in protected areas?

Roland Kays, Arielle W. Parsons, Megan C. Baker, Ellizabeth L. Kalies, Tavis Forrester, Robert Costello, Christopher T. Rota, Joshua J. Millspaugh & William J. McShea
Managed public wild areas have dual mandates to protect biodiversity and provide recreational opportunities for people. These goals could be at odds if recreation, ranging from hiking to legal hunting, disrupts wildlife enough to alter their space use or community structure. We evaluated the effect of managed hunting and recreation on 12 terrestrial wildlife species by employing a large citizen science camera trapping survey at 1947 sites stratified across different levels of human activities in...

Data from: A multivariate analysis of genetic variation in the advertisement call of the gray treefrog, Hyla versicolor

Allison M. Welch, Michael J. Smith & H. Carl Gerhardt
Genetic variation in sexual displays is crucial for an evolutionary response to sexual selection, but can be eroded by strong selection. Identifying the magnitude and sources of additive genetic variance underlying sexually-selected traits is thus an important issue in evolutionary biology. We conducted a quantitative genetics experiment with gray treefrogs (Hyla versicolor) to investigate genetic variances and covariances among features of the male advertisement call. Two energetically-expensive traits showed significant genetic variation: call duration, expressed...

Data from: Negative effects of vertebrate on invertebrate herbivores mediated by enhanced plant nitrogen content

Yu Zhu, Zhiwei Zhong, Jordi Pagès, Deborah Finke, Deli Wang, Quanhui Ma, Nazim Hassan, Zhu Hui, Ling Wang & Hui Zhu
1. Classic theory holds that the main interaction within the herbivore guild is competition, based on research focused on co-occurring, similarly-sized species that reduce the quantity of shared plant resources. However, plant quality may also be crucial in mediating herbivore interspecific interactions. This is especially true when competition occurs between distantly-related herbivore species, given that small terrestrial herbivores (e.g. insect herbivores) appear to be more sensitive to alterations of plant quality than plant quantity. 2....

Data from: Children's visuospatial memory predicts mathematics achievement through early adolescence

Yaoran Li & David C. Geary
A previous study showed that gains in visuospatial memory from first to fifth grade predicted end-of-fifth grade mathematics but not reading achievement, controlling other factors. In this follow up study, these relations were assessed from sixth to ninth grade, inclusive (n = 145). The results showed that growth in visuospatial memory across the elementary school years was related to growth in mathematics achievement after fifth grade, controlling intelligence, the central executive and phonological memory components...

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