GLBRC Data Sets
Highlighted below are a variety of published studies that include data sets that might be of interest to the scientific community and have been deposited in online data repositories. Only data sets published in GLBRC-approved repositories following the FAIR Guiding Principles are highlighted. More information can be found on our guidelines page.
GLBRC Sustainability Data Catalog
This Data Catalog is a collection of data from GLBRC's Sustainability research carried out in Michigan and Wisconsin. The Data Catalog summarizes each data table in order to allow the GLBRC community to better understand the data that have been collected and encourage collaboration.
Accuracy, Bias, and Improvements in Mapping Crops and Cropland across the United States Using the USDA Cropland Data Layer
The U.S. Department of Agriculture’s (USDA) Cropland Data Layer (CDL) is a 30 m resolution crop-specific land cover map produced annually to assess crops and cropland area across the conterminous United States.
Assembly and seasonality of core phyllosphere microbiota on perennial biofuel crops
Perennial grasses are promising feedstocks for biofuel production, with potential for leveraging their native microbiomes to increase their productivity and resilience to environmental stress.
Quantifying and correcting for pre-assay CO2 loss in short-term carbon mineralization assays
The active fraction of soil organic carbon is an important component of soil health and often is quickly assessed as the pulse of CO2 released by re-wetting dried soils in short-term (24–72 h) assays.
Eudicot Nutshells: Cell-Wall Composition and Biofuel Feedstock Potential
Nutshells are the recalcitrant and membranous layers that encompass and provide protection to the seed of a fruit. Rich in lignin, these are often waste products of the food industry and are a potential energy-dense feedstock for biorefineries to convert to biofuels.
A temporal hierarchy underpins the transcription factor–DNA interactome of the maize UPR
Adverse environmental conditions reduce crop productivity and often increase the load of unfolded or misfolded proteins in the endoplasmic reticulum (ER). This potentially lethal condition, known as ER stress, is buffered by the unfolded protein response (UPR), a set of signaling pathways designed to either recover ER functionality or ignite programmed cell death.
Switchgrass Rhizosphere Metabolite Chemistry Driven by Nitrogen Availability
Plants and soil microorganisms interact closely in the rhizosphere where plants may exchange carbon (C) for functional benefits from the microbial community. For example, the bioenergy crop, switchgrass (Panicum virgatum) is thought to exchange root-exuded C for nitrogen (N) fixed by diazotrophs (free-living N-fixers).
Cropland expansion in the United States produces marginal yields at high costs to wildlife
Recent expansion of croplands in the United States has caused widespread conversion of grasslands and other ecosystems with largely unknown consequences for agricultural production and the environment. Here we assess annual land use change 2008–16 and its impacts on crop yields and wildlife habitat.
The AGCVIII kinase Dw2 modulates cell proliferation, endomembrane trafficking, and MLG/xylan cell wall localization in elongating stem internodes of Sorghum bicolor
Stems of bioenergy sorghum (Sorghum bicolor L. Moench.), a drought‐tolerant C4 grass, contain up to 50 nodes and internodes of varying length that span 4–5 m and account for approximately 84% of harvested biomass. Stem internode growth impacts plant height and biomass accumulation and is regulated by brassinosteroid signaling, auxin transport, and gibberellin biosynthesis.
Genomic mechanisms of climate adaptation in polyploid bioenergy switchgrass
Long-term climate change and periodic environmental extremes threaten food and fuel security and global crop productivity.
Machine learning improves predictions of agricultural nitrous oxide emissions from intensively managed cropping systems
The potent greenhouse gas nitrous oxide (N2O) is accumulating in the atmosphere at unprecedented rates largely due to agricultural intensification, and cultivated soils contribute ~60% of the agricultural flux.
Repeated horizontal gene transfer of GALactose metabolism genes violates Dollo’s law of irreversible loss
Dollo’s law posits that evolutionary losses are irreversible, thereby narrowing the potential paths of evolutionary change. While phenotypic reversals to ancestral states have been observed, little is known about their underlying genetic causes.
Widespread irreproducibility in phylogenetics
Phylogenetic trees are essential for studying biology, but their reproducibility under identical parameter settings remains unexplored.
A majority of Rhodobacter sphaeroides promoters lack a crucial RNA polymerase recognition feature, enabling coordinated transcription activation
Bacterial promoters are often predicted by similarity to the Escherichia coli −10 and −35 consensus elements.
Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota
Ascomycota, the largest and most well-studied phylum of fungi, contains three subphyla: Saccharomycotina (budding yeasts), Pezizomycotina (filamentous fungi), and Taphrinomycotina (fission yeasts). Despite its importance, we lack a comprehensive genome-scale phylogeny or understanding of the similarities and differences in the mode of genome evolution within this phylum.
Diagnosing and predicting mixed culture fermentations with unicellular and guild-based metabolic models
Microbiomes are vital to human health, agriculture, and protecting the environment. Predicting behavior of self-assembled or synthetic microbiomes, however, remains a challenge. In this work, we used unicellular and guild-based metabolic models to investigate the production of medium-chain fatty acids by a mixed microbial community that is fed multiple organic substrates.
Seasonal dynamics of core fungi and bacterial networks in the switchgrass phyllosphere.
Plant leaves harbor complex microbial communities that influence plant health and productivity. Nevertheless, a detailed understanding of phyllosphere community assembly and drivers is needed, particularly for phyllosphere fungi. Here, we investigated seasonal dynamics of epiphytic phyllosphere fungal communities in switchgrass (Panicum virgatum L.), a focal bioenergy crop.
The biosynthesis of the anti‐microbial diterpenoid leubethanol in Leucophyllum frutescens proceeds via an all‐cis prenyl intermediate
Serrulatane diterpenoids are natural products found in plants that have been characterized as having anti‐microbial properties and share a common diterpene backbone. One example, leubethanol from Texas sage (Leucophyllum frutescens) has demonstrated activity against multi‐drug‐resistant tuberculosis.
Genome-wide identification of transcription start sites in two Alphaproteobacteria
The alphaproteobacteria have metabolic activities and lifestyles of societal and industrial importance that differ from those in many other bacteria. Here we report the genome-wide identification of transcription start sites (TSSs) from two alphaproteobacteria grown under conditions that result in significant changes in gene expression.
GLBRC energy balance measurements
AmeriFlux is a network of sites measuring ecosystem CO2, water, and energy fluxes in North, Central, and South America supported by the U.S. Department of Energy's Office of Biological and Environmental Research.
