50 Works

Pore scale study of water adsorption and subsequent methane transport in clay in the presence of wettability heterogeneity

Rui Xu, Masa Prodanovic & Christopher Landry

Seismogenesis at Hikurangi Integrated Research Experiment (SHIRE) onshore seismic acquisition field report

Katie Jacobs, Stuart A Henrys, D Okaya, H Van Avendonk, Jenny Black, Dan H. N. Barker, Sapthala C Karalliyadda, E Kurashimo, Wanda R. Stratford, M Savage, R Sullivan, Zane R. Bruce & L Hughes
This report documents the acquisition and archiving of a major controlled source and passive seismic imaging project, the Seismogenesis Hikurangi Integrated Research Experiment (SHIRE). The SHIRE project aims to identify and quantify factors controlling the long-term evolution of the Hikurangi margin and the mode of slip along the subduction megathrust. The components of the data volume were acquired in two phases; between October 2017 – April 2018 (SHIRE I) and February–March 2019 (SHIRE II). The...

A Positive Spin on a Negative Narrative: How the Media Portrays Fraternities and What Fraternities Can Do About It

Zachary Taylor, Jennifer Zamora, Arianne McArdle & Mario Villa

Reversible diffusion-weighted imaging lesions in acute ischemic stroke: a systematic review

Nandakumar Nagaraja, John Forder, Steven Warach & Jośe Merino
Supplemental data: NNagaraja_12292019_DWI_Reversal_In_AIS_Review_Supplemental_File Supplemental Figure e-1: DWI reversal in acute ischemic stroke Supplemental Table e-1: Search Strategy Supplemental Table e-2: Variables extracted for the review Supplemental Table e-3: Imaging protocols for included studies Supplemental Table e-4: DWIR definitions used in the selected studies Supplemental Table e-5: Imaging characteristics of patients Supplemental Table e-6: QUADAS-2 tool for quality assessment of diagnostic accuracy studies by evaluating risk of bias and applicability concerns.

IS-mediated mutations both promote and constrain evolvability during a long-term experiment with bacteria

Jessika Consuegra, Joël Gaffé, Richard E. Lenski, Thomas Hindre, Jeffrey E. Barrick, Olivier Tenaillon & Dominique Schneider
The long-term dynamics of IS elements and their effects on bacteria are poorly understood, including whether they are primarily genomic parasites or important drivers of adaptation by natural selection. Here, we investigate the dynamics of IS elements and their contribution to genomic evolution and fitness during a long-term experiment with Escherichia coli. This data set includes the Rmd file to analyze the genomic and metagenomic data (Tenaillon et al. 2016 and Good et al. 2017)...

F2R polymorphisms and clopidogrel efficacy and safety in patients with minor stroke or TIA: supplemental figures and tables

Yuesong Pan, Runqi Wangqin, Hao Li, Yilong Wang, Xia Meng, S. Claiborne Johnston, Tabassome Simon, Jinxi Lin, Xingquan Zhao, Liping Liu, David Wang & Yongjun Wang
Objective: To investigate the association between protease-activated receptors-1 (PAR-1) gene F2R polymorphisms and efficacy of clopidogrel for minor stroke or transient ischemic attack (TIA). Methods: Three single-nucleotide polymorphisms (CYP2C19*2 [681G>A, rs4244285], CYP2C19*3 [636G>A, rs4986893] and F2R [IVSn-14 A/T, rs168753] were genotyped among 2,924 patients randomized to clopidogrel plus aspirin (n=1461) or aspirin alone (n=1463). The primary efficacy outcome was new stroke (ischemic or hemorrhagic) and the safety outcome was any bleeding. Results: Overall, 859(29.4%) were...

Data for: Landscape scale variation in the hydrologic niche of California coast redwood

Emily J. Francis, Gregory P. Asner, Katharine J. Mach & Christopher B. Field
Topoclimatic diversity within forest landscapes can underlie variation in water availability, which may correspond to patterns in habitat suitability of tree species with differing hydrologic niches. However, the trade-off between the collection of data at a fine grain size over large spatial extents has limited comprehensive analyses of landscape scale variation in habitat suitability. We present a fine scale analysis of the roles of topographic gradients in moisture availability, soil water storage, and fog frequency...

Combined-evidence analyses of ultraconserved elements and morphological data: an empirical example in iguanian lizards

Simon Scarpetta
Genomic datasets generated by next-generation sequencing are increasingly prevalent in phylogenetics, but morphological data are required to phylogenetically place fossils, corroborate molecular hypotheses, and date phylogenies. Combined-evidence analyses provide an integrative assessment of tree topology. However, no attempt has been made to simultaneously analyze next-generation genomic datasets and morphological data, and the future of morphology in the context of genomic data is uncertain. I conducted combined-evidence analyses that include genomic and morphological datasets, specifically, with...

Ice-age persistence and genetic isolation of the disjunct distribution of larch in Alaska

Joseph Napier, Matias Fernandez, Guillaume De Lafontaine & Feng Sheng Hu
Larix laricina (eastern larch, tamarack) is a transcontinental North American conifer with a prominent disjunction in the Yukon isolating the Alaskan distribution from the rest of its range. We investigate whether in situ persistence during the Last Glacial Maximum (LGM) or long-distance postglacial migration from south of the ice sheets resulted in the modern-day Alaskan distribution. We analyzed variation in three chloroplast DNA regions of 840 trees from a total of 69 populations (24 new...

Targeted CT: Predictive Digital Rock Physics Models Without Segmentation

Eric Goldfarb, Masa Prodanovic, Richard Ketcham, Nicola Tisato & Ken Ikeda
In order to understand measurements from geophysical surveys, it is important to study rock samples in a laboratory setting. Digital rock physics (DRP) is a non invasive way estimate these same properties using numerical models. We have introduced a workflow to estimate rock properties, and this repository accompanies a manuscript where we explain the method. Here, we include our CT scans of four Berea Sandstone plugs which are used in the manuscript by Goldfarb et...

Evaluation of Capillary Pressure in Digital Rock Petrophysics

Christoph Arns, , , &

Data from: Plant community dynamics and carbon sequestration in Sphagnum-dominated peatlands in the era of global change

Tobi A. Oke & Heather A. Hager
Aim: Hydroclimatic shift and anthropogenic-driven nitrogen deposition are major outcomes of global change that could compromise the functioning of many peatlands as a carbon sink. For Sphagnum-dominated peatlands, an emerging hypothesis is that the change could be triggered by shifts in competitive dominance among plant functional groups, specifically from the currently predominant decay-resistant Sphagnum to the more decomposable vascular plants. However, the relationship between Sphagnum and vascular plant occurrence is notably complex and also includes...

Data from: Chemical novelty facilitates herbivore resistance and biological invasions in some introduced plant species

Brian Sedio, John Devaney, Jamie Pullen, Geoffrey Parker, S. Joseph Wright & John Parker
Ecological release from herbivory due to chemical novelty is commonly predicted to facilitate biological invasions by plants, but has not been tested on a community scale. We used metabolomics based on mass spectrometry molecular networks to assess the novelty of foliar secondary chemistry of 15 invasive plant species compared to 46 native species at a site in eastern North America. Locally, invasive species were more chemically distinctive than natives. Among the 15 invasive species, the...

QTL × environment interactions underlie adaptive divergence in switchgrass across a large latitudinal gradient

David Lowry, John Lovell, Li Zhang, Jason Bonnette, Philip Fay, Robert Mitchell, John Lloyd-Reilley, Arvid Boe, Yanqi Wu, Francis Rouquette, Richard Wynia, Xiaoyu Weng, Kathrine Behrman, Adam Healey, Kerrie Barry, Anna Lipzen, Diane Bauer, Aditi Sharma, Jerry Jenkins, Jeremy Schmutz, Felix B. Fritschi & Thomas E. Juenger
Local adaptation is the process by which natural selection drives adaptive phenotypic divergence across environmental gradients. Theory suggests that local adaptation results from genetic trade-offs at individual genetic loci, where adaptation to one set of environmental conditions results in a cost to fitness in alternative environments. However, the degree to which there are costs associated with local adaptation is poorly understood because most of these experiments rely on two-site reciprocal transplant experiments. Here, we quantify...

Resurrection of a global, metagenomically defined gokushovirus

Paul Kirchberger
Gokushoviruses are single-stranded, circular DNA bacteriophages found in metagenomic datasets from diverse ecosystems wordwide, including human gut microbiomes. Despite their ubiquity and abundance, little is known about their biology or host range: isolates are exceedingly rare, known only from three obligate intracellular bacterial genera. By synthesizing circularized phage genomes from prophages embedded in diverse enteric bacteria, we produced gokushoviruses in an experimentally tractable model system, allowing us to investigate their features and biology. We demonstrate...

A new species of Eogruidae (Aves: Gruiformes) from the Miocene of the Linxia Basin, Gansu, China: Evolutionary and climatic implications

Grace Musser, Zhiheng Li & Julia A Clarke
Despite having one of the most robust fossil records within core-gruiform birds (rails, cranes, and allies), the biogeographic history of Gruidae (cranes) and key drivers of diversification within this group remain largely unknown. The Eogruidae of Eurasia represent some of the earliest known crane-like fossils. Here, we present description of a new species represented by a well-preserved specimen of a foot from the late Miocene (7–6.5 mya) Liushu Formation of Linxia Basin, Gansu, China. It...

High-Resolution SEM Image Mosaics of Overburden Shales: Wilcox Group, Midway, Navarro

Christopher Landry, Masa Prodanovic & Bruce Hart

Barriers to cross-shelf coral connectivity in the Florida Keys

Mikhail Matz

Capillary rise in vuggy porous media

Hasan J Khan, Masa Prodanovic, Ayaz Mehmani, David DiCarlo & Dayeed Khan
Capillary rise in vuggy porous media

Mudrock images from Nankai Trough

Abhishek Bihani, Hugh Daigle, Masa Prodanovic, Kitty Milliken & Javier E. Santos
An image analysis workflow was used to study the electron microscopy images of uncemented muds obtained at various depths (< 1.1 km burial) in the Kumano Basin of Nankai Trough offshore Japan for studying the silt bridging phenomenon. Forty-nine images from five core samples at different depths of Site C0002 obtained during Integrated Ocean Drilling Program (IODP) Expeditions 315 and 338 were used for the study. The original image set can be found at https://www.digitalrocksportal.org/projects/42....

Data from: Exploring genomic variation associated with drought stress in Picea mariana populations

Joseph Napier, Guillaume De Lafontaine & Feng Sheng Hu
Predicted increases in drought and heat stress will likely induce shifts in species bioclimatic envelopes. Genetic variants adapted to water limitation may prove pivotal for species response under scenarios of increasing drought. In this study, we aimed to explore this hypothesis by investigating genetic variation in 16 populations of black spruce (Picea mariana) in relation to climate variables in Alaska. A total of 520 single nucleotide polymorphisms (SNPs) were genotyped for 158 trees sampled from...

Data from: Dynamics of diet-egg transfer of fatty acids in the teleost fish, red drum (Sciaenops ocellatus)

Zhenxin Hou, Cynthia Faulk & Lee Fuiman
Eggs of marine organisms are increasingly being recognized as important components of marine food webs. The degree to which egg fatty acid profiles reflect maternal diet fatty acid profiles, and therefore the value of fatty acids in eggs as trophic biomarkers, depends on the species’ reproductive strategy and the extent of modification of ingested fatty acids. We measured the dynamics of transfer of recently ingested fatty acids to spawned eggs in a batch-spawning teleost, red...

Natural enemy-herbivore networks along local management and landscape gradients in urban agroecosystems

Stacy Philpott, Azucena Lucatero, Peter Bichier, Monika Egerer, Shalene Jha, Brenda Lin & Heidi Liere
Ecological networks can provide insight into how biodiversity loss and changes in species interactions impact the delivery of ecosystem services. In agroecosystems that vary in management practices, quantifying changes in ecological network structure across gradients of local and landscape composition can inform both the ecology and function of productive agroecosystems. In this study, we examined natural enemy-herbivore co-occurrence networks associated with Brassica oleracea (cole crops), a common crop in urban agricultural systems. Specifically, we investigated...

Data from: Multiple constraints cause positive and negative feedbacks limiting grassland soil CO2 efflux under CO2 enrichment

Philip Fay, Dafeng Hui, Robert Jackson, Harold Collins, Lara Reichmann, Michael Aspinwall, Virginia Jin, Albina Khasanova, Robert Heckman & Wayne Polley
Terrestrial ecosystems are increasingly enriched with resources such as atmospheric CO2 that limit ecosystem processes. The consequences for ecosystem carbon cycling depend on the feedbacks from other limiting resources and plant community change, which remain poorly understood for soil CO2 efflux, JCO2, a primary carbon flux from the biosphere to the atmosphere. We applied a unique CO2 enrichment gradient (250 to 500 µL L-1) for eight years to grassland plant communities on soils from different...

Data from: Terrestrial evaporation and global climate: lessons from Northland, a planet with a hemispheric continent

Marysa M. Lague, Marianne Pietschnig, Sarah Ragen, Timothy A. Smith & David S. Battisti
Motivated by the hemispheric asymmetry of land distribution on Earth, we explore the climate of Northland, a highly idealized planet with a Northern Hemisphere continent and a Southern Hemisphere ocean. The climate of Northland can be separated into four distinct regions: the Southern Hemisphere ocean, the seasonally wet tropics, the mid-latitude desert, and the Great Northern Swamp. We evaluate how modifying land surface properties on Northland drives changes in temperatures, precipitation patterns, the global energy...

Registration Year

  • 2020

Resource Types

  • Dataset
  • Text
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  • Output Management Plan
  • Service


  • The University of Texas at Austin
  • Indiana University
  • Stanford University
  • New York University
  • Texas A&M University
  • Georgetown University
  • Agricultural Research Service
  • University of Florida
  • University of Illinois at Urbana Champaign
  • Université du Québec à Rimouski