19 Works

Data from: Local population collapse of Ross's and lesser snow geese driven by failing recruitment and diminished philopatry

Mitch Weegman, Ray Alisauskas, Dana Kellett, Qing Zhao, Scott Wilson & Tomas Telensky
We estimated survival and per capita production of young, as well as emigration and immigration, from 1997 to 2017 in Ross's goose Anser rossii and lesser snow goose Anser caerulescens caerulescens, which are sympatric species of migratory birds that nest in the central Canadian Arctic at one of the largest breeding colonies in North America. We formed age-structured integrated population models for each species that jointly analyzed live and dead encounter data as well as...

Climate driven disruption of transitional alpine bumble bee communities

Nicole Miller-Struttmann, Zackary Miller & Candace Galen
Pollinators at high elevations face multiple threats from climate change including heat stress, failure to phenological match advancing flower resources and competitive pressure from range-expanding species of lower elevations. We conducted long-term multi-site surveys of alpine bumble bees to determine how phenology of range-stable and range-expanding species is responding to climate change. We ask whether bumble bee responses generate mismatches with floral resources, and whether these mismatches in turn promote community disruption and potential species...

Communicating the combined risk of Covid-19 and smoking to smokers

Lucy Popova, Hue Duong, Victoria Churchill & Zachary Massey

Phenotype data for: Pleiotropic and non-redundant effects of an auxin importer in Setaria and maize

Chuanmei Zhu, Mathew Box, Dhineshkumar Thiruppathi, Hao Hu, Yunqing Yu, Callista Martin, Andrew Doust, Paula McSteen & Elizabeth Kellogg
Directional transport of auxin is critical for inflorescence and floral development in flowering plants, but the role of auxin influx carriers (AUX1 proteins) has been largely overlooked. Taking advantage of available AUX1 mutants in Setaria viridis and maize, we uncover previously unreported aspects of plant development that are affected by auxin influx, including higher order branches in the inflorescence, stigma branch number, and glume (floral bract) development, and plant fertility. However, disruption of auxin flux...

Demonstration of local adaptation in maize landraces by reciprocal transplantation

Garrett Janzen, Maria Rocio Aguilar-Rangel, Carolina Cintora-Martinez, Karla Azucena Blocher-Juarez, Eric Gonzalez-Segovia, Anthony Studer, Daniel Runcie, Sherry Flint-Garcia, Ruben Rellan-Alvarez, Ruairidh Sawers & Matthew Hufford
Populations are locally adapted when they exhibit higher fitness than foreign populations in their native habitat. Maize landrace adaptations to highland and lowland conditions are of interest to researchers and breeders. To determine the prevalence and strength of local adaptation in maize landraces, we performed a reciprocal transplant experiment across an elevational gradient in Mexico. We grew 120 landraces, grouped into four populations (Mexican Highland, Mexican Lowland, South American Highland, South American Lowland), in Mexican...

Data from: Reduced mitochondrial respiration in hybrid asexual lizards

Randy L. Klabacka, Hailey A. Parry, Kang Nian Yap, Ryan A. Cook, Victoria A. Herron, L. Miles Horne, Jose A. Maldonado, Jamie R. Oaks, Andreas N. Kavazis, Matthew K. Fujita, Tonia S. Schwartz & Matthew E. Wolak
The scarcity of asexual reproduction in vertebrates alludes to an inherent cost. Several groups of asexual vertebrates exhibit lower endurance capacity (a trait predominantly sourced by mitochondrial respiration) compared to congeneric sexual species. Here we measure endurance capacity in five species of Aspidoscelis lizards and examine mitochondrial respiration between sexual and asexual species using mitochondrial respirometry. Our results show reduced endurance capacity, mitochondrial respiration, and phenotypic variability in asexual species compared to parental sexual species...

Data from: Divergent physiological acclimation responses to warming between two co-occurring salamander species and implications for terrestrial survival

Arianne Messerman, Micah Turrell & Manuel Leal
Small differences in physiological responses are known to influence demographic rates such as survival. We tested for differences in the physiological acclimation responses of two closely-related salamander species that often co-occur, Ambystoma maculatum and A. opacum. Specifically, we measured changes in critical thermal maxima (CTmax), standard metabolic rates (SMRs), and respiratory surface area water loss (RSAWL) following exposure to three temperature treatments under laboratory conditions. While the magnitude of RSAWL and CTmax acclimation responses to...

Transcript- and annotation-guided genome assembly of the European starling

Katarina Stuart, Richard Edwards, Yuanyuan Cheng, Wes Warren, Dave Burt, William Sherwin, Natalie Hofmeister, Scott Werner, Gregory Ball, Melissa Bateson, Matthew Brandley, Katherine Buchanan, Phillip Cassey, David Clayton, Tim De Meyer, Simone Meddle & Lee Rollins
The European starling, Sturnus vulgaris, is an ecologically significant, globally invasive avian species that is also suffering from a major decline in its native range. Here, we present the genome assembly and long-read transcriptome of an Australian-sourced European starling (S. vulgaris vAU), and a second North American genome (S. vulgaris vNA), as complementary reference genomes for population genetic and evolutionary characterisation. S. vulgaris vAU combined 10x Genomics linked-reads, low-coverage Nanopore sequencing, and PacBio Iso-Seq full-length...

Dataset: Local hydrological conditions influence tree diversity and composition across the Amazon basin

Manuel J. Marca-Zevallos, Gabriel M. Moulatlet, Thaiane R. Sousa, Juliana Schietti, Luiz De Souza Coelho, José Ferreira Ramos, Diogenes De Andrade Lima Filho, Iêda Leão Amaral, Francisca Dionízia De Almeida Matos, Lorena M. Rincón, Juan David Cardenas Revilla, Marcelo Petratti Pansonato, Rogerio Gribel, Edelcilio Marques Barbosa, Ires Paula De Andrade Miranda, Luiz Carlos De Matos Bonates, Juan Ernesto Guevara, Rafael P. Salomão, Leandro Valle Ferreira, Dário Dantas Do Amaral, Nigel C.A. Pitman, Corine Vriesendorp, Tim R. Baker, Roel Brienen, Marcelo De Jesus Veiga Carim … & Flávia R.C. Costa
Tree diversity and composition in Amazonia are known to be strongly determined by the water supplied by precipitation. Nevertheless, within the same climatic regime, water availability is modulated by local topography and soil characteristics (hereafter referred to as local hydrological conditions), varying from saturated and poorly drained to well-drained and potentially dry areas. While these conditions may be expected to influence species distribution, the impacts of local hydrological conditions on tree diversity and composition remain...

Complex feline disease mapping using a dense genotyping array

Jessica Hayward, Isabel Hernandez, Jeff A Brockman, Michelle E White, Lara Mouttham, Elizabeth A Wilcox, Susan Garrison, Marta G Castelhano, John P Loftus, Filipe Espinheira Gomes, Cheryl Balkman, Marjory B Brooks, Nadine Fiani, Marnin Forman, Tom Kern, Bruce Kornreich, Eric Ledbetter, Santiago Peralta, Angela M Struble, Lisa Caligiuri, Elizabeth Corey, Lin Lin, Julie Jordan, Danny Sack, Adam R Boyko … & Rory J Todhunter
The current feline genotyping array of 63k single nucleotide polymorphisms has proven its utility within breeds, and its use has led to the identification of variants associated with Mendelian traits in purebred cats. However, compared to single gene disorders, association studies of complex diseases, especially with the inclusion of random bred cats with relatively low linkage disequilibrium, require a denser genotyping array and an increased sample size to provide statistically significant associations. Here, we undertook...

Introgression, admixture and selection facilitate genetic adaptation to high-altitude environments in Chinese cattle

Jinming Huang, Xiuge Wang, Zhihua Ju, Qiang Jiang, Jifeng Zhong, Chengkun Liu, Jinpeng Wang, Jesse Hoff, Robert Schnabel, Han Zhao, Yaping Gao, Wenhao Liu, Lingling Wang, Yundong Gao, Chunghong Yang, Minghai Hou, Ning Huang, Luciana Regitano, Laercio Porto-Neto, Jared Decker & Jeremy Taylor
Domestication and subsequent selection of cattle to form breeds and biological types that can adapt to different environments partitioned ancestral genetic diversity into distinct modern lineages. Genome-wide selection particularly for adaptation to extreme environments left detectable signatures genome-wide. We used high-density genotype data for 42 cattle breeds and identified the influence of Bos grunniens and Bos javanicus on the formation of Chinese indicine breeds that led to their divergence from India-origin Zebu. We also found...

Supplemental material for: The estrogen receptor α cistrome in human endometrium and epithelial organoids

Sylvia Hewitt, San-Pin Wu, Tianyuang Wang, Madhumita Ray, Marja Brolinson, Steven Young, Thomas Spencer, Alan DeCherney & Francsco DeMayo
Endometrial health is impacted by molecular processes that underlie estrogen responses. We assessed estrogen regulation of endometrial function by integrating the estrogen receptor alpha (ESR1) cistromes and transcriptomes of endometrial biopsies taken from the proliferative and mid-secretory phases of the menstrual cycle together with hormonally stimulated endometrial epithelial organoids. The cycle stage specific ESR1 binding sites were determined by ChIPseq and then integrated with changes in gene expression from RNAseq data to infer candidate ESR1...

PRMI: A dataset of minirhizotron images for diverse plant root study

Weihuang Xu, Guohao Yu, Yiming Cui, Romain Gloaguen, Alina Zare, Jason Bonnette, Joel Reyes-Cabrera, Ashish Rajurkar, Diane Rowland, Roser Matamala, Julie D. Jastrow, Thomas E. Juenger & Felix B. Fritschi
Understanding a plant's root system architecture (RSA) is crucial for a variety of plant science problem domains including sustainability and climate adaptation. Minirhizotron (MR) technology is a widely-used approach for phenotyping RSA non-destructively by capturing root imagery over time. Precisely segmenting roots from the soil in MR imagery is a critical step in studying RSA features. In this paper, we introduce a large-scale dataset of plant root images captured by MR technology. In total, there...

Can sensory drive explain the evolution of visual signal diversity in terrestrial species? A test with Anolis lizards

Leo Fleishman, Christian Perez-Martinez & Manuel Leal
Animal signal colors evolve to efficiently stimulate conspecific visual systems. The sensory drive hypothesis proposes that species differences in habitat light conditions favor the evolution of color diversity. The strongest support comes from aquatic systems, while terrestrial systems offer fewer convincing examples. Anolis lizards occupy diverse habitats and signal with a colorful dewlap. Dewlap visibility depends on perceived chromatic contrast with the background. Visual-system modeling has shown that red dewlaps are most visible in most...

Increases in vein length compensate for leaf area lost to lobing in grapevine

Zoë Migicovsky, Joel F. Swift, Zachary Helget, Laura L. Klein, Anh Ly, Matthew Maimaitiyiming, Karoline Woodhouse, Anne Fennell, Misha Kwasniewski, Allison J. Miller, Peter Cousins & Daniel H. Chitwood
There is considerable variation in leaf lobing and leaf size, including among grapevines, some of the most well-studied leaves. We examined the relationship between leaf lobing and leaf size across grapevine populations which varied in extent of leaf lobing. We used homologous landmarking techniques to measure 2,632 leaves across two years in 476 unique, genetically distinct grapevines from 5 biparental crosses which vary primarily in the extent of lobing. We determined to what extent leaf...

Twin epidemics: the effects of HIV and systolic blood pressure on mortality risk in rural South Africa 2010-2019

Nicole Angotti, Samuel Clark, F. Xavier Gómez-Olivé, Brian Houle, Chodziwadziwa Kabudula Whiteson, Jane Menken, Sanyu Mojola , Enid Schatz , Andrea Tilstra , Jill Williams, Vusi Dlamini & Erin Ice

Uterine lumen fluid is metabolically semi-autonomous

Constantine Simintiras, Jessica Drum, Hongyu Liu, Sofia Ortega & Thomas Spencer
Uterine lumen fluid (ULF) is central to successful pregnancy establishment and maintenance, and impacts offspring wellbeing into adulthood. The current dogma is that ULF composition is primarily governed by endometrial glandular epithelial cell secretions and influenced by progesterone. To investigate the hypothesis that ULF is metabolically semi-autonomous, ULF was obtained from cyclic heifers, and aliquots incubated for various durations prior to analysis by untargeted semi-quantitative metabolomic profiling. Metabolite flux was observed in these ULF isolates,...

Highly-replicated soil, topography and vegetation sampling across an old-growth tropical rain forest landscape

David Clark, Deborah Clark, Leonel Campos Otoya, William Miranda Conejo & Orlando Vargas Ramirez
Here we present data from highly-replicated sampling of soil, topography, and vegetation across an old-growth tropical rainforest landscape at the La Selva Biological Station, Costa Rica. Samples were taken at 100 x 50 m spacing using an existing surveyed grid system. The 573-ha sample area spanned a variety of soil, topographic and vegetation conditions, including flat terraces on old alluvial soil, ridge tops and steep slopes on residual soil, riparian habitats and fresh-water swamps. At...

Registration Year

  • 2022

Resource Types

  • Dataset


  • University of Missouri
  • Cornell University
  • The University of Texas at Austin
  • Donald Danforth Plant Science Center
  • Jiangsu Academy of Agricultural Sciences
  • University of Adelaide
  • VU University Amsterdam
  • Sao Paulo State University
  • Universidade do Oeste Paulista
  • Ghent University