114 Works

Phylogeny of African long-fingered frogs (Arthroleptidae: Cardioglossa) reveals recent allopatric divergences in coloration

David Blackburn
The African anuran genus Cardioglossa contains 19 described species, most of which are distinguished from one another by striking patterns and colors. We present a well- resolved phylogeny based on analyses of mitochondrial and nuclear loci for 18 species of Cardioglossa. This provides the basis for species-delimitation analyses and interpreting historical biogeography in the genus. Whereas much of the diversification within the genus occurred among Central African lineages during the Miocene following the origin of...

Rare missense functional variants at COL4A1 and COL4A2 in sporadic intracerebral hemorrhage

Jaeyoon Chung, Graham Hamilton, Minsup Kim, Sandro Marini, Bailey Montgomery, Jonathan Henry, Art Cho, Devin Brown, Bradford Worrall, James Meschia, Scott Silliman, Magdy Selim, David Tirschwell, Chelsea Kidwell, Brett Kissela, Steven Greenberg, Anand Viswanathan, Joshua Goldstein, Carl Langefeld, Kristiina Rannikmae, Catherine Sudlow, Neshika Samarasekera, Mark Rodrigues, Rustam Salman, James Prendergast … & Christopher Anderson
Objective To test the genetic contribution of rare missense variants in COL4A1 and COL4A2 in which common variants are genetically associated with sporadic intracerebral hemorrhage (ICH), we performed rare variant analysis in multiple sequencing data for the risk for sporadic ICH. Methods We performed sequencing across 559Kbp at 13q34 including COL4A1 and COL4A2 among 2,133 individuals (1,055 ICH cases; 1,078 controls) in US-based and 1,492 individuals (192 ICH cases; 1,300 controls) from Scotland-based cohorts, followed...

Spermatocysts stained positively with anti-pHH3 antibody

Patricia Moore & Christine Miller
Males have the ability to compete for fertilizations through both pre-copulatory and post-copulatory intrasexual competition. Pre-copulatory competition has selected for large weapons and other adaptations to maximize access to females and mating opportunities while post-copulatory competition has resulted in ejaculate adaptations to maximize fertilization success. Negative associations between these strategies support the hypothesis that there is a trade-off between success at pre- and post-copulatory mating success. Recently, this trade-off has been demonstrated with experimental manipulation....

The role of phylogenetic scale in Darwin’s naturalization conundrum in the critically imperiled pine rockland ecosystem

Lauren Trotta, Zachary Siders, Emily Sessa & Benjamin Baiser
Aim: We expand on community phylogenetic approaches to Darwin’s Naturalization Conundrum by considering phylogenetic scale, comprised of phylogenetic grain and extent. We assess relatedness between invasive, non-native, and native plant species at multiple depths in the phylogeny (i.e., phylogenetic grain) and across multiple clades (i.e., phylogenetic extents) at regional and local spatial scales in the highly-fragmented, critically imperiled pine rockland ecosystem. Location: Miami-Dade County, Florida, USA Methods: We used two metrics differing in phylogenetic grain...

Polyploidy and Mutation in Arabidopsis

Jonathan Spoelhof, Douglas Soltis & Pamela Soltis
The effects of genetic mutations are influenced by genome structure. Polyploids have more gene or allele copies than diploids, which results in higher tolerance of recessive deleterious mutations. However, this benefit may differ between autopolyploids and allopolyploids and between neopolyploids and older polyploid lineages due to the effects of hybridization and diploidization, respectively. To isolate these effects, we measured the impacts of controlled mutagenesis on reproductive fitness traits in closely related Arabidopsis diploids (A. thaliana),...

Observations of flowering phenology in Concord, Massachusetts, USA, 1963-1993

Abraham Miller-Rushing, Richard Primack & Elizabeth Ellwood
Phenology plays a vital role in understanding the impacts of climate change on plants. Observing and recording the dates that plants are in flower, over periods of years and decades, can elucidate patterns in how plants respond to warming temperatures, shifting precipitation regimes, and other effects of a changing climate. Long-term records of plant phenology are difficult to find. It is often the case that these records do not originate from scientific research studies but...

Genotype data not consistent with clonal transmission of sea turtle fibropapillomatosis or goldfish schwannoma

Máire Ní Leathlobhair, Kelsey Yetsko, Jessica A. Farrell, Carmelo Iaria, Gabriele Marino, David J. Duffy & Elizabeth P. Murchison
Recent discoveries of transmissible cancers in multiple bivalve species suggest that direct transmission of cancer cells within species may be more common than previously thought, particularly in aquatic environments. Fibropapillomatosis occurs with high prevalence in green sea turtles (Chelonia mydas) and the geographic range of disease has increased since fibropapillomatosis was first reported in this species. Widespread incidence of schwannomas, benign tumours of Schwann cell origin, reported in aquarium-bred goldfish (Carassius auratus), suggest an infectious...

Woody encroachment happens via intensification, not extensification, of species ranges in an African savanna

Yong Zhou, Morgan Tingley, Madelon Case, Corli Coetsee, Gregory Kiker, Rheinhardt Scholtz, Freek Venter & Carla Staver
Widespread woody encroachment is a prominent concern for savanna systems as it is often accompanied by losses in productivity and biodiversity. Extensive ecosystem-level work has advanced our understanding of its causes and consequences. However, there is still debate over whether local management can override regional and global drivers of woody encroachment, and it remains largely unknown how encroachment influences woody community assemblages. Here, we examined species-level changes in woody plant distributions and size structure from...

Evolutionary comparisons of Chelonid alphaherpesvirus 5 (ChHV5) Genomes from Fibropapillomatosis-afflicted green (Chelonia mydas), Olive ridley (Lepidochelys olivacea) and Kemp’s ridley (Lepidochelys kempii) sea turtles

Liam Whitmore, Kelsey Yetsko, Jessica Farrell, Annie Page-Karjian, Whitney Daniel, Donna Shaver, Hilary Frandsen, Jennifer Walker, Whitney Crowder, Caitlin Bovery, Devon Rollinson-Ramia, Brooke Burkhalter, Elizabeth Ryan & David Duffy
The spreading global sea turtle fibropapillomatosis (FP) epizootic is threatening some of Earth’s ancient reptiles, adding to the plethora of threats faced by these keystone species. Understanding this neoplastic disease and its likely aetiological pathogen, chelonid alphaherpesvirus 5 (ChHV5), is crucial to understand how the disease impacts sea turtle populations and species and the future trajectory of disease incidence. We generated 20 ChHV5 genomes, from three sea turtle species, to better understand the viral variant...

Supporting data for: Gene-rich UV sex chromosomes harbor conserved regulators of sexual development (Carey et al., 2021)

Sarah Carey, Shenqiang Shu, John Lovell, Avinash Shenqiang, Florian Maumus, George Tiley, Noe Fernandez-Pozo, Kerrie Barry, Cindy Chen, Mei Wang, Anna Lipzen, Chris Daum, Christopher Saski, Adam Payton, Jordan McBreen, Roth Conrad, Leslie Kollar, Sanna Olsson, Sanna Huttunen, Jacob Landis, Norman Wickett, Matthew Johnson, Stefan Rensing, Jane Grimwood, Jeremy Schmutz … & Adam Healey
Non-recombining sex chromosomes, like the mammalian Y, often lose genes and accumulate transposable elements, a process termed degeneration. The correlation between suppressed recombination and degeneration is clear in animal XY systems, but the absence of recombination is confounded with other asymmetries between the X and Y. In contrast, UV sex chromosomes, like those found in bryophytes, experience symmetrical population genetic conditions. Here we generate and use nearly gapless female and male chromosome-scale reference genomes of...

Integrating ecosystem metabolism and consumer allochthony reveals nonlinear drivers in lake organic matter processing

Meredith Holgerson, Rachel Hovel, Patrick Kelly, Lauren Bortolotti, Jennifer Brentrup, Amber Bellamy, Samantha Oliver & Alexander Reisinger
Lakes process both terrestrial and aquatic organic matter, and the relative contribution from each source is often measured via ecosystem metabolism and terrestrial resource use in the food web (i.e., consumer allochthony). Yet, ecosystem metabolism and consumer allochthony are rarely considered together, despite possible interactions and potential for them to respond to the same lake characteristics. In this study, we compiled global datasets of lake gross primary production (GPP), ecosystem respiration (ER), and zooplankton allochthony...

Seasonal variation in community composition and distributional ranges of birds along a subtropical elevation gradient in China

Dan Liang, Xinyuan Pan, Xu Luo, Cheng Wenda, Yanyan Zhao, Yiming Hu, Scott Robinson & Yang Liu
Aim Seasonal variation in community composition and species distributional ranges along elevational gradients remain poorly known but are essential to inform conservation. In this study, we aim to understand how species richness, community composition, and elevational ranges of montane birds change between the breeding and the non-breeding season. Location The east slope of the southern Gaoligong Mountains, Yunnan, southwestern China, elevational range: 700 - 3400 m a.s.l.; latitudinal range: 24°56´- 26°09´ N. Methods We compared...

Antioxidant and antibacterial activities of 13 ornamental herbaceous peony cultivars: a comparative study with stems and leaves

Lei Liu, Yingdan Yuan & Jun Tao
Paeonia lactiflora is an important ornamental and medicinal plant, but after the flowering period, the above-ground parts of ornamental cultivars are often discarded as waste. When considering the development of medicinal plant resources, attention should be paid to the comprehensive development and utilisation of the plant. In this study, 13 ornamental herbaceous peony cultivars were selected, and their stems and leaves were analysed for antioxidant and antibacterial activities. The results showed that total phenolic content...

Data from: Phylogeny of gracillariid leaf-mining moths: evolution of larval behaviour inferred from phylogenomic and Sanger data

Xuankun Li, Ryan St Laurent, Chandra Earl, Camiel Doorenweerd, Erik Van Nieukerken, Don Davis, Atsushi Kawakita, Shigeki Kobayashi, Andreas Zwick, Carlos Lopez-Vaamonde, Issei Ohshima & Akito Kawahara
Gracillariidae is the most taxonomically diverse cosmopolitan leaf-mining moth family, consisting of nearly 2000 named species in 105 described genera, classified into eight extant subfamilies. The majority of gracillariid species are internal plant feeders as larvae, creating mines and galls in plant tissue. Despite their diversity and ecological adaptations, their phylogenetic relationships, especially at the subfamily level, remain largely uncertain. Genomic data (83 taxa and 589 loci) were integrated with Sanger data (130 taxa and...

Data from: Important airborne lidar metrics of canopy structure for estimating snow interception

Micah Russell, Jan Eitel, Timothy Link & Carlos A. Silva

Beneficial worm allies warn plants of parasite attack belowground and reduce aboveground herbivore preference and performance

Shokoofeh Kamali, Ali Javadmanesh, Lukasz Stelinski, Tina Kydnt, Alireza Seifi, Mojtaba Hosseini, Mehyar Heydarpour, Javad Asili & Javad Karimi
We investigated responses of tomato (Solanum lycopersicum) to two functional guilds of nematodes - plant parasite (Meloidogyne javanica) and entomopathogens (Heterorhabditis bacteriophora, Steinernema feltiae belowground, and S. carpocapsae) - as well as a leaf mining insect (Tuta absoluta) aboveground. Our results indicate that entomopathogenic nematodes (EPNs): 1) induced plant defense responses, 2) reduced root knot nematode (RKN) infestation belowground and 3) reduced herbivore (T. absoluta) host preference and performance aboveground. Concurrently, we investigated the plant...

Strong population genetic structure and cryptic diversity in the Florida bonneted bat (Eumops floridanus)

James Austin, Jeffery Gore, John Hargrove, Elizabeth Braun De Torrez, Celine Carneiro, Frank Ridgley & Samantha Wisely
Knowledge of genetic structure is essential for the long-term management and conservation of endangered species. We report the results from a genetic examination of the federally endangered Florida bonneted bat (Eumops floridanus) sampled from its range in southern Florida, USA. Bonneted bats are primarily found in four regions separated by approximately 100 to 250 kms, including three western natural areas (BW, PC, and CC) and one urban population on the east coast [Miami-Dade County (MD)]....

Evolution of body size and wing shape trade-offs in arsenurine silkmoths

Chris Hamilton, Nathalie Winiger, Juliette Rubin, Jesse Breinholt, Rodolphe Rougerie, Ian Kitching, Jesse Barber & Akito Kawahara
One of the key objectives in biological research is understanding how evolutionary processes have produced Earth's diversity. A critical step towards revealing these processes is an investigation of evolutionary tradeoffs – that is, the opposing pressures of multiple selective forces. For millennia, nocturnal moths have had to balance successful flight, as they search for mates or host plants, with evading bat predators. However, the potential for evolutionary trade-offs between wing shape and body size are...

Comparative analysis of circRNA expression profile and circRNA-miRNA-mRNA regulatory network between palmitic and stearic acid-induced lipotoxicity to pancreatic β cells

Yunjin Zhang, Qingrui Zhao, Shenghan Su, Lingfeng Dan, Xuebei Li, Yu Wang, Yuqing Lin, Zhen Tian, Changhao Sun & Huimin Lu
Chronic exposure to high concentrations of circulating palmitic acid and stearic acid leads to impaired β cell function, which accelerates the development of type 2 diabetes. However, differences in the mechanisms underlying this process between these two saturated fatty acids remain largely unknown. In this study, we screened for potential circular RNAs (circRNAs) and their associated regulatory pathways in palmitic acid- and stearic acid-induced mouse β-TC6 cell dysfunction. CircRNA high-throughput sequencing, gene ontology enrichment and...

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)...

Flood-stimulated herbivory drives range retraction of a plant ecosystem

Camila Rocca, Pedro Daleo, Jesús D. Nuñez, Brian Silliman, Oscar Iribarne, Christine Angelini & Juan Alberti
Climate change is generating extreme climate events, affecting ecosystem integrity and function directly through increases in abiotic stress and disturbance and indirectly through changes in the strength of biotic interactions. As consumers play an essential role in ecosystem functioning and have been shown to be highly sensitive to climate conditions, improved understanding of their role under changing environmental conditions is necessary to accurately anticipate climate change impacts on ecosystem integrity. We evaluated if prolonged heavy...

Data from Divergent, age-associated fungal communities of Pinus flexilis and Pinus longaeva

Joseph D. Birch, James Lutz, Benjamin Turner & Justine Karst
The long-lived five-needle pines, Pinus flexilis (limber pine) and Pinus longaeva (Great Basin bristlecone pine) can co-occur and may form symbiotic partnerships with the same species of ectomycorrhizal fungi. These shared symbiotic relationships may facilitate the persistence of these pine species. Throughout their lives, P. flexilis and P. longaeva may also assemble unique elowground fungal communities, adding to the conservation value of ancient trees. We used MiSeq sequencing of fungal rDNA to compare fungal community...

The probability of being infected with haemosporidian parasites increases with host age

Samuel Slowinski, Aidan Geissler, Nicole Gerlach, Britt Heidinger & Ellen Ketterson
In vertebrates, disease susceptibility often varies with age. Older individuals may be more susceptible than younger individuals due to senescent declines in immune function. Alternatively, disease susceptibility may decrease with age if older individuals are more likely to have had prior exposures to parasites and acquired adaptive immune responses that allowed them to resist future infections. Disease susceptibility can also vary with reproductive state, and reproductive hormones have been shown to increase infection susceptibility. Here...

Arboreality drives heat tolerance while elevation drives cold tolerance in tropical rainforest ants

Lily Leahy, Brett Scheffers, Stephen Williams & Alan Andersen
Determining how species thermal limits correlate with climate is important for understanding biogeographic patterns and assessing vulnerability to climate change. Such analyses need to consider thermal gradients at multiple spatial scales. Here we relate thermal traits of rainforest ants to microclimate conditions from ground to canopy (microgeographic scale) along an elevation gradient (mesogeographic scale) and calculate warming tolerance in the Australian Wet Tropics Bioregion. We test the thermal adaptation and thermal niche asymmetry hypotheses to...

Endosperm-based incompatibilities in hybrid monkeyflowers

Taliesin Kinser, Ronald Smith, Amelia Lawrence, Arielle Cooley, Mario Vallejo-Marín, Gregory Conradi Smith & Joshua Puzey
The sexual endosperm is an angiosperm innovation central to flowering plant reproduction. Genomic interactions between parental alleles control its development and help determine seed viability. These interactions are characterized by genomic imprinting, where expression from certain genes is parent-specific. Unsuccessful imprinting has been linked to failed hybridization between plants of different species or ploidies. Here, we describe an endosperm-based barrier between Mimulus guttatus, a diploid, and M. luteus, an allotetraploid. Hybrid seeds suffer from underdeveloped...

Registration Year

  • 2021

Resource Types

  • Dataset


  • University of Florida
  • Chinese Academy of Agricultural Sciences
  • Shanghai Jiao Tong University
  • Chinese Academy of Medical Sciences & Peking Union Medical College
  • Sun Yat-sen University
  • University of Hong Kong
  • West China Second University Hospital of Sichuan University
  • Wenzhou Medical University
  • Chinese Academy of Sciences
  • University of Electronic Science and Technology of China