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RMACC Summit Supercomputer

RMACC Summit is a heterogeneous supercomputing cluster based primarily on the Intel Xeon "Haswell" CPU, with additional NVidia Tesla K80 and high-memory nodes and an Intel Xeon Phi "knights landing" MIC component. All nodes sit on a first-generation Intel Omni-Path Architecture interconnect which also provides access to an IBM GPFS Parallel scratch file system.

Survey of Juno Observations in Jupiter's Plasma Disk: Density

E. Huscher, F. Bagenal & R.J. Wilson
The jovian plasma density data provided here was used in the following peer review publication, and contains the raw data analysed and values for some figures: Huscher, E., Bagenal, F., Wilson, R. J., Allegrini, F., Ebert, R. W., Valek, P. W., et al. (2021). Survey of Juno Observations in Jupiter's Plasma Disk: Density. Journal of Geophysical Research: Space Physics, 126, e2021JA029446. https://doi.org/10.1029/2021JA029446 This paper has the abstract: We explore the variation in plasma conditions through...

Recipes for Accessibility in Libary Instruction

Varsha Koushik & Jordan Wrigley
As a Provost Fellow, I focused on expanding Information Literacy Instruction by creating accessibility guidelines for librarians. My goal was to design a set of guidelines that are useful to librarians of all subject backgrounds. Following multiple consultations, I delved into an iterative cycle of designing guidelines and receiving feedback from my mentor and other librarians. As a computer science researcher, It was important for me to create resources that can be accessed by everyone...

Quantifying microburst wind and turbulence enhancement in canyons

Katja Friedrich & Luchetti Nicholas
This data set contains model output from NCARS's Weather and Research Forecasting(WRF) model run in large-eddy simulation (LES) mode (WRF v3.6). A series of idealized simulations were conducted with the center of microburst downdrafts were placed 1.3 and 3.3 km upwind of a series of canyon types differing in length and slope angle. These canyon simulations are compared to microburst outflow boundary characteristics in flat terrain deriving topographic multiplier and differences in horizontal winds (wsp),...


Lise St. Denis, Estelle Lindrooth, Travis Williams, Nathan Mietkiewicz, Jennifer Balch, Joe McGlinchy, Adam Mahood & Maxwell Cook
This is event- and daily-level polygons for the Fire event delineation (FIRED) product for Chile from November 2001 to March 2021. It is derived from the MODIS MCD64A1 burned area product (see https://lpdaac.usgs.gov/products/mcd64a1v006/ for more details). The MCD64A1 is a monthly raster grid of estimated burned dates. Firedpy (www.github.com/earthlab/firedpy) is an algorithm that converts these rasters into events by stacking the entire time series into a spatial-temporal data cube, then uses an algorithm to assign...

Data from \"2021 State of Open at the University of Colorado Boulder\" Report

Ryan Caillet, Melissa Cantrell, Andrew Johnson, Aditya Ranganath & Jordan Wrigley
This data set contains five data files that were used to produce the "2021 State of Open at the University of Colorado Boulder" report: 1. CUBoulderOAFund2013_2020.csv contains data from articles funded by the CU Boulder Libraries Open Access Fund from 2013 to 2020. This data was collected by CU Boulder Libraries personnel from successful applications to the Open Access Fund. 2. CUBoulderPublishedData2014_2020.csv contains data from the CU Boulder Faculty Reports of Professional Activities from 2014...

Why do parasites exhibit reverse latitudinal diversity gradients? Testing the roles of host diversity, habitat, and climate

Pieter Johnson & Sarah Haas
Aim: The latitudinal diversity gradient (LDG) – in which species richness decreases from the equator toward the poles – is among the most fundamental distributional patterns in ecology. Despite the expectation that the diversity of parasites tracks that of their hosts, available evidence suggests that many parasites exhibit reverse latitudinal gradients or no pattern, yet the rarity of large-scale datasets on host-parasite interactions calls into question the robustness of such trends. Here, we collected parasitological...

Dispersers and environment drive global variation in fruit color syndromes

Miranda Sinnott-Armstrong, Michael Donoghue & Walter Jetz
The colors of fleshy fruits play a critical role in plant dispersal by advertising ripe fruits to consumers. Fruit colors have long been classified into syndromes attributed to selection by animal dispersers, despite weak evidence for this hypothesis. Here, we test the relative importance of biotic (bird and mammal frugivory) and abiotic (wet season temperatures, growing season length, and UV-B radiation) factors in determining fruit color syndrome in 3,163 species of fleshy-fruited plants. We find...

Host controls of within-host disease dynamics: insight from an invertebrate system

Tara Stewart Merrill, Zoi Rapti & Carla Cáceres
Within-host processes (representing the entry, establishment, growth and development of a parasite inside its host) may play a key role in parasite transmission but remain challenging to observe and quantify. We develop a general model for measuring host defenses and within-host disease dynamics. Our stochastic model breaks the infection process down into the stages of parasite exposure, entry, and establishment and provides associated probabilities for a host’s ability to resist infections with barriers and clear...

Plant-pollinator interactions between generalists persist over time and space

Julian Resasco, Natacha Chacoff & Diego Vázquez
Generalist species are the linchpins of networks, as they are important for maintaining network structure and function. Previous studies have shown that interactions between generalists tend to occur consistently across years and sites. However, the link between temporal and spatial interaction persistence across scales remains unclear. To address this gap, we collected data on plant-pollinator interactions throughout the flowering period for five years across six plots in a subalpine meadow in the Rocky Mountains. We...

Data from: Multiple dimensions of bird beta diversity support that mountains are higher in the tropics

Flavia A. Montaño-Centellas, Bette Loiselle & Christy McCain
Aim We examine latitudinal effects of breeding bird taxonomic, phylogenetic and functional β-diversity (Tβ, Pβ and Fβ, respectively) along elevational gradients to test predictions derived from Janzen’s (1967) classic ideas that tropical mountains represent stronger dispersal barriers than temperate mountains. Location Global Taxon Birds Methods Using a global dataset from 46 mountains, we examine latitudinal patterns of Tβ, Pβ, and Fβ, and their components: β rich and β repl. For each mountain and each dimension...

Data from: Water the odds? Spring rainfall and emergence-related seed traits drive plant recruitment

Julie Larson, Kathleen Ebinger & Katharine Suding
Recruitment of new individuals from seed is a critical component of plant community assembly and reassembly, especially in the context of ecosystem disturbance and recovery. While frameworks typically aim to predict how communities will be filtered on the basis of traits influencing established plant responses to the environment, assembly from seed is more complex: the responses of seeds (affected by dormancy and germination function) and establishing plants (affected by root and leaf function) can both...

Data for: Dorsal premammillary projection to periaqueductal gray controls escape vigor from innate and conditioned threats

Peter Schuette, Weisheng Wang, Mimi La-Vu, Brooke Tobias, Marta Ceko, Philip Kragel, Fernando Reis, Shiyu Ji, Megha Sehgal, Sandra Maesta-Pereira, Meghmik Chakerian, Alcino Silva, Newton Canteras, Tor Wager, Jonathan Kao & Avishek Adhikari
Escape from threats has paramount importance for survival. However, it is unknown if a single circuit controls escape from innate and conditioned threats. The hypothalamic dorsal premammillary nucleus (PMd) may control escape, as it is strongly activated by escape-inducing threats and projects to the region most implicated in escape, the dorsolateral periaqueductal gray (dlPAG). We show that in mice cholecystokinin (cck)-expressing PMd cells are activated during escape, but not other defensive behaviors. PMd-cck ensemble activity...

A highly invasive malaria parasite has expanded its range to non-migratory birds in North America

Angela Theodosopoulos, Kathryn Grabenstein, Staffan Bensch & Scott Taylor
Parasite range expansions are a direct consequence of globalization and are an increasing threat to biodiversity. Here we report a recent range expansion of the SGS1 strain of a highly invasive parasite, Plasmodium relictum, to two non-migratory passerines in North America. Plasmodium relictum is considered one of the world’s most invasive parasites and causes the disease avian malaria: this is the first reported case of SGS1 in wild birds of Western North America and wild...

Qatar Instruction Materials

Jasmine Kirby, Teresa MacGregor & Tatiana Usova

2021 State of Open at the University of Colorado Boulder: Special Report on Open Access Article Processing Charges Based on Data from 2020

Melissa Cantrell & Andrew Johnson
As a complementary effort to the annual “2021 State of Open at the University of Colorado Boulder” report, this special report provides a deeper look at article processing charges (APCs) for open access (OA) articles published by authors at the University of Colorado Boulder (CU Boulder). This analysis is not intended to be updated regularly, which is why it is being presented separately from the larger report. This special report utilizes Dimensions as a data...

Muslim Women and Representation (2018)

Noreen Naseem Rodriguez


The PetaLibrary is a University of Colorado Boulder Research Computing service that supports the storage, archival, and sharing of research data. It is available at a subsidized cost to any researcher affiliated with the University of Colorado Boulder.

The effects of climate and demographic history in shaping genomic variation across populations of the Desert Horned Lizard (Phrynosoma platyrhinos)

Keaka Farleigh, Sarah A. Vladimirova, Christopher Blair, Jason T. Bracken, Nazila Koochekian, Drew R. Schield, Daren C. Card, Nicholas Finger, Jonathan Henault, Adam D. Leaché, Todd A. Castoe & Tereza Jezkova
Species often experience spatial environmental heterogeneity across their range, and populations may exhibit signatures of adaptation to local environmental characteristics. Other population genetic processes, such as migration and genetic drift, can impede the effects of local adaptation. Genetic drift in particular can have a pronounced effect on population genetic structure during large-scale geographic expansions, where a series of founder effects leads to decreases in genetic variation in the direction of the expansion. Here we explore...

A supergene underlies linked variation in color and morphology in a Holarctic songbird

Erik Funk, Nicholas Mason, Snæbjörn Pálsson, Tomáš Albrecht, Jeff Johnson & Scott Taylor
The genetic architecture of a phenotype can have considerable effects on the evolution of a trait or species. Characterizing genetic architecture provides insight into the complexity of a given phenotype and, potentially, the role of the phenotype in evolutionary processes like speciation. We use genome sequences to investigate the genetic basis of phenotypic variation in redpoll finches (Acanthis spp.). We demonstrate that variation in redpoll phenotype is broadly controlled by a ~55-Mb chromosomal inversion. Within...

Computational exploration of treadmilling and protrusion growth observed in fire ant rafts

Robert Wagner
Condensed active matter systems regularly achieve cooperative emergent functions that individual constituents could not accomplish alone. The rafts of fire ants (Solenopsis invicta) are often studied in this context for their ability to create structures comprised entirely of their own bodies, including tether-like protrusions that facilitate exploration of flooded environments. While similar protrusions are observed in cytoskeletons and cellular aggregates, they are generally dependent on morphogens or external gradients leaving the isolated role of local...

Data from: Modeling GPS signal propagation through volcanic plumes

Nicholas Rainville, Scott Palo & Kristine Larson
Extinction of Global Positioning System (GPS) signals has been observed at GPS sites located near erupting volcanoes as a decrease in the Signal to Noise Ratio (SNR) of recieved signals. While this effect has been used to detect volcanic ash plumes, the physical processes causing the signal extinction were not well understood. A simulation was developed to model absorption and scattering from ash particles in a plume which included plume density, composition, and charging as...

Data from: Leaf litter arthropod responses to tropical forest restoration

Rebecca J. Cole, Karen D. Holl, Rakan A. Zahawi, Philipp Wickey & Alan R. Townsend
Soil and litter arthropods represent a large proportion of tropical biodiversity and perform important ecosystem functions, but little is known about the efficacy of different tropical forest restoration strategies in facilitating their recovery in degraded habitats. We sampled arthropods in four 7‐ to 8‐year‐old restoration treatments and in nearby reference forests. Sampling was conducted during the wet and dry seasons using extractions from litter and pitfall samples. Restoration treatments were replicated in 50 × 50‐m...

Climate warming threatens the persistence of a community of disturbance-adapted native annual plants

Paul Reed, Scott Bridgham, Laurel Pfeifer-Meister, Megan Peterson, Bart Johnson, Bitty Roy, Graham Bailes, Aaron Nelson, William Morris & Daniel Doak
With ongoing climate change, populations are expected to exhibit shifts in demographic performance that will alter where a species can persist. This presents unique challenges for managing plant populations and may require ongoing interventions, including in-situ management or introduction into new locations. However, few studies have examined how climate change may affect plant demographic performance for a suite of species, or how effective management actions could be in mitigating climate change effects. Over the course...

Registration Year

  • 2021

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  • University of Colorado Boulder
  • University of California, Berkeley
  • University of California, Santa Barbara
  • University of Washington
  • University of Orléans
  • University of Minnesota
  • Laboratory for Atmospheric and Space Physics
  • University of Wisconsin-Madison
  • Charles University