A5020880379- Methane Hydrates and Related Phenomena
- Seismic Waves and Analysis
- Earthquake Detection and Analysis
- Ionosphere and magnetosphere dynamics
- Geophysics and Gravity Measurements
- Solar and Space Plasma Dynamics
- Plant Molecular Biology Research
- Polysaccharides and Plant Cell Walls
- Tissue Engineering and Regenerative Medicine
- Plant responses to elevated CO2
- Agronomic Practices and Intercropping Systems
- Plant Gene Expression Analysis
- Plant-Microbe Interactions and Immunity
- Microbial Community Ecology and Physiology
- Biofuel production and bioconversion
- Plant Water Relations and Carbon Dynamics
- Plant Stress Responses and Tolerance
- Legume Nitrogen Fixing Symbiosis
- Photosynthetic Processes and Mechanisms
- Bioenergy crop production and management
- Tree Root and Stability Studies
- Plant Reproductive Biology
- Cell Adhesion Molecules Research
- Soil Carbon and Nitrogen Dynamics
- Genetic Mapping and Diversity in Plants and Animals
Environmental Molecular Sciences Laboratory
2017-2025
Pacific Northwest National Laboratory
2017-2025
University of Massachusetts Amherst
2012-2024
Government of the United States of America
2023
Battelle
2022
Lawrence Berkeley National Laboratory
2022
Amazon (Germany)
2022
Richland College
2019
The rhizosphere is arguably the most complex microbial habitat on earth, comprising an integrated network of plant roots, soil and a diverse consortium bacteria, archaea, viruses, microeukaryotes. Understanding, predicting controlling structure function will allow us to harness plant-microbe interactions other activities as means increase or restore ecosystem productivity, improve responses wide range environmental perturbations, mitigate effects climate change by designing ecosystems for...
Agricultural cropping systems and pasture comprise one third of the world's arable land have potential to draw down a considerable amount atmospheric CO2 for storage as soil organic carbon (SOC) improving budget. An improved budget serves dual purpose promoting health, which supports crop productivity, constituting pool from can be converted recalcitrant forms long-term mitigation measure global warming. In this perspective, we propose design ideotypes with functionality being highly...
With growing populations and pressing environmental problems, future economies will be increasingly plant-based. Now is the time to reimagine plant science as a critical component of fundamental science, agriculture, stewardship, energy, technology healthcare. This effort requires conceptual technological framework identify map all cell types, comprehensively annotate localization organization molecules at cellular tissue levels. framework, called Plant Cell Atlas (PCA), for understanding...
Abstract The mevalonate pathway plays a critical role in multiple cellular processes both animals and plants. In plants, the products of this impact growth development, as well response to environmental stress. A forward genetic screen Arabidopsis thaliana using Ca 2+ -imaging identified kinase (MVK) component plant purinergic signaling. MVK interacts directly with extracellular ATP (eATP) receptor P2K1 is phosphorylated by eATP. Mutation P2K1-mediated phosphorylation sites eliminates...
Abstract Background Cellulose is an integral component of the plant cell wall and accounts for approximately forty percent total biomass but understanding its mechanism synthesis remains elusive. CELLULOSE SYNTHASE A (CESA) proteins function as catalytic subunits a rosette-shaped complex that synthesizes cellulose at plasma membrane. Arabidopsis thaliana rice ( Oryza sativa ) secondary CESA loss-of-function mutants have weak stems irregular or thin walls. Results Here, we identify candidates...
MINI REVIEW article Front. Plant Sci., 23 April 2012Sec. Physiology Volume 3 - 2012 | https://doi.org/10.3389/fpls.2012.00074
Predicting phenotypic expression from genomic and environmental information is arguably the greatest challenge in today's biology. Being able to survey content, e.g., as single-nucleotide polymorphism data, within a diverse population predict phenotypes of external traits, represents holy grail across genome-informed disciplines, personal medicine nutrition plant breeding. In present study, we propose two-step procedure bridging genome phenome gap where are viewed emergent properties...
Abstract Interactions between MADS box transcription factors are critical in the regulation of floral development, and shifting protein-protein interactions predicted to have influenced evolution. However, precisely how evolutionary variation affects protein function remains unknown. To assess impact changing on factor function, we turned grasses, where B-class proteins vary. We tested functional consequences this variability using maize (Zea mays) as an experimental system. found that...
Phenotyping methods for seed morphology are mostly limited to two-dimensional imaging or manual measures. In this study, we present a novel phenotyping approach utilizing lab-based X-ray microscopy (XRM) characterize 3D morphology, internal structures, and cellular analysis from single scan. Seeds of pennycress (Thlaspi arvense L.) an oilseed cover crop, were scanned segmented using machine learning model. Seed morphological coat thickness map was applied compare volumes four genotypes....
Pennycress is a winter annual intermediate crop with approximately 30% seed oil content suitable for producing biofuels. Here, we evaluated development, anatomy, and agronomically relevant traits of transparent testa 8 knockout mutant ( tt8-2bp ) generated by CRISPR genome editing to improve quality. We performed histochemical analyses on wild-type seeds at different developmental stages. No visible anatomical defects were observed in embryos endosperm seeds. However, coats completely lost...
ABSTRACT Field pennycress ( Thlaspi arvense L.) is an annual in the Brassicaceae family and currently being developed as oilseed intermediate crop suitable for renewable biodiesel jet fuel. It displays many desirable characteristics this role including cold tolerance, a rapid life cycle, seed fatty acid profile conducive to bioenergy generation. These traits make field favorable winter cultivation inland Pacific Northwest (iPNW). Simultaneously, crops are increasingly recognized component of...
Pennycress ( Thlaspi arvense ) is a promising intermediate oilseed crop, producing oil suitable for conversion to biofuels—including aviation fuels. While domestication efforts are ongoing, deeper understanding of the genetic architecture traits crucial informing future breeding efforts. Here, we conducted largest genomic and phenotypic survey pennycress date, analyzing 739 accessions collected across four continents. Leveraging whole-genome sequencing field-collected phenotypes,...
Grass biomass is comprised chiefly of secondary walls that surround fiber and xylem cells. A regulatory network interacting transcription factors in part regulates cell wall thickening. We identified Brachypodium distachyon SECONDARY WALL ASSOCIATED MYB1 (SWAM1) as a potential regulator biosynthesis based on gene expression, phylogeny, transgenic plant phenotypes. SWAM1 interacts with cellulose lignin promoters preferential binding to AC-rich sequence motifs commonly found the wall-related...
The rhizosphere is arguably the most complex microbial habitat on Earth, comprising an integrated network of plant roots, soil and a highly diverse community (the microbiome). Understanding, predicting controlling plant-microbe interactions in will allow us to harness microbiome as means increase or restore ecosystem productivity, improve responses wide range environmental perturbations, mitigate effects climate change by designing ecosystems for long-term carbon storage. To this end, it...
Plant roots and the associated rhizosphere constitute a dynamic environment that fosters numerous intra- interkingdom interactions, including metabolite exchange between plants soil mediated by root exudates microbiome. These interactions affect plant fitness performance, health, belowground carbon budget. Exploring understanding molecular mechanisms governing ecosystem responses via allow rational sustainable design of future ecosystems. However, visualizing system architecture with...
Drought is the largest stress affecting agricultural crops, resulting in substantial reductions yield. Plant adaptation to water a complex trait involving changes hormone signaling, physiology, and morphology. Sorghum (Sorghum bicolor (L.) Moench) C4 cereal grass; it an staple, particularly drought-tolerant. To better understand drought strategies, we compared cytosolic- organelle-enriched protein profiles of leaves from two genotypes, RTx430 BTx642, with differing preflowering tolerances...
High temperatures alter the thermal sensitivities of numerous physiological and biochemical processes that impact tree growth productivity. Foliar root applications methanol have been implicated in plant acclimation to high temperature via C1 pathway. Here, we characterized at 35 °C leaf gas exchange, chlorophyll fluorescence, extractable metabolites potted Populus trichocarpa saplings examined potential influences mM concentrations added during soil watering over a two-month period....
Abstract Plant growth requires the integration of internal and external cues, perceived transduced into a developmental programme cell division, elongation wall thickening. Mechanical forces contribute to this regulation, thigmomorphogenesis typically includes reducing stem height, increasing diameter, canonical transcriptomic response. We present data on bZIP transcription factor involved in process grasses. Brachypodium distachyon SECONDARY WALL INTERACTING (SWIZ) protein translocated...
Abstract We present a simple one‐pot extraction protocol, which rapidly isolates hydrophilic metabolites, lipids, and proteins from the same pulverized plant sample. Also detailed is global proteomics sample preparation method utilizing iTRAQ multiplexing reagents that enables deep proteome coverage due to use of HPLC fractionation peptides prior mass spectrometric analysis. have successfully used this protocol on several different tissues (e.g., roots, stems, leaves) plants sorghum, poplar,...
Abstract Sorghum ( bicolor ) is a major food and bioenergy grass species cultivated worldwide. To promote more robust sustainable growth of this important crop, we need deeper understanding the plant-microbe interactions between sorghum soil microbial communities that benefit plant host resiliency enhance nutrient acquisition. The release specific metabolites from roots, or root exudation, drives these interactions, but molecular pathways by which exudates shape rhizosphere microbiome...
Abstract The mevalonate (MVA) pathway plays a critical role in multiple cellular processes both animals and plants. In plants, the products of this impact growth development, as well response to environmental stress. A forward genetic screen Arabidopsis thaliana using Ca 2+ imaging identified kinase (MVK) component plant purinergic signaling. MVK interacts directly with extracellular ATP (eATP) receptor P2K1 is phosphorylated by eATP. Mutation P2K1-mediated phosphorylation sites eliminates...