Galya Orr

Super resolution fluorescence imaging of plant receptors

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Dehong Hu

This proposal covers work done under a DOE BER funded research project led by the University of Missouri. The project focuses on developing and demonstrating the application of a fluorescence…

Development of Single Molecule Force Microscopy Capability to Examine the Moleuclar Mechanism of Lignocellulosic Material Degradation

Lead Institution

The Ohio State University

Principal Investigator

Brian Lower

Project type

Large-Scale EMSL Research

The objective of this proposal is to develop a novel capability based on scanning probe microscopy to examine the enzyme-catalyzed hydrolysis of insoluble lignocellulosic material at the molecular…

Optimizing Oil Production in Oleaginous Yeast by Cell-Wide Measurements and Genome-Based Models

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Scott Baker

The team at PNNL is using a combination of flow cytometry, microscopy and lipidomics to establish baseline cell biological and metabolite data on lipid production by the W29 strain of Yarrowia…

PhenoAccess: Physiological Phenotyping of Brachypodium Accessions

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Amir Ahkami

Although the effects of elevated CO2 on plant growth, physiology and metabolism has been investigated thoroughly, the underlying integrated organismal, cellular and molecular mechanisms of these…

EGFR Dimerization

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

Project type

Exploratory Research

We will assemble a molecular model for EGFR homodimerization and heterodimerization with HER2 to calculate the distance between two dye molecules attached to the corresponding antibodies. This…

Pathways and fate of individual nanoparticles in vivo; a whole organism approach

Lead Institution

Oregon State University

Principal Investigator

Robert Tanguay

Project type

Large-Scale EMSL Research

The growing commerce in micro- and nanotechnology is expected to increase human exposure to submicrometer and nanoscale particles, including certain forms of amorphous silica nanoparticles. Adverse…

Single-Bacterium Transcriptomics Using Nanoliter Microfluidic Droplets

Lead Institution

Brigham Young University

Principal Investigator

Ryan Kelly

RNA-seq has been emerging as an advanced approach to the characterization and quantification of transcriptomes using next-generation sequencing technologies. Nevertheless, most studies target to…

Single Cell Resolution Omics Analysis of T1D islets

Lead Institution

National Institutes of Health

Principal Investigator

Charles Ansong

Type 1 diabetes mellitus (T1D) is a chronic disease resulting from the autoimmune destruction of insulin-producing pancreatic beta cells. In addition to evolving ideas about the role of beta cells in…

Single Molecule Approach for Understanding EGFR Molecular Interactions (Orr LDRD-FRET, PNNL Scope #48287)

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

Project type

Exploratory Research

We will use cutting edge fluorescence imaging techniques to study the molecular interactions of EGFR with other molecules in the pathway to better understand its role in determining cell fate.

Tissue distribution and fate of nanoparticles following in vivo exposure

Lead Institution

Procter and Gamble

Principal Investigator

Katherine Sarlo

Project type

Large-Scale EMSL Research

The growing commerce in micro- and nanotechnology is expected to increase human exposure to submicrometer and nanoscale engineered particles. Adverse effects of submicrometer and nanoscale particles…

Microbial Community Dynamics and Plant Phenomics with Single-Cell Gene Expression and Imaging Mass Spectrometry

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

John Cliff

The inherent heterogeneity of biological systems, including microbial communities or cell populations, limits the questions that can be resolved by averaged cell population measurements, which lump…

SyPro Poplar: Improving Poplar Biomass Production under Abiotic Stress Conditions: an
Integrated Omics, Bioinformatics, Synthetic Biology and Genetic Engineering Approach

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Amir Ahkami

To engineer bioenergy crops that can grow in dry, marginal lands, this project will introduce into poplar trees tolerance to different environmental stresses such as water deficit, high soil salinity…

Nanoparticle-Cell Interactions and Intracellular Fate; Roles of Particle Surface Properties

Lead Institution

Oregon State University

Principal Investigator

Bettye Maddux

Project type

Large-Scale EMSL Research

The growing commerce in micro- and nanotechnology is expected to increase human exposure to submicrometer and nanoscale particles, including certain forms of gold and amorphous silica. Adverse…

Molecular Mechanisms Underlying Nanomaterial Toxicity or Biocompatibility

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

This proposal covers research conducted with funding from several agencies, including NIEHS and the NSF-funded Center for Sustainable Nanotechnology. The rapid growth in nanotechnology is expected to…

Reprogramming Plant Gene Regulatory Networks for Source-to-Sink Carbon Allocation

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Amir Ahkami

The regulation of carbon partitioning between source and sink tissues plays a critical role in plant growth and development. Plant productivity is enhanced by sink strength and source activity, which…

Physicochemical determinants of distribution and fate of nanoparticles following in vivo exposure

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Justin Teeguarden

Project type

Large-Scale EMSL Research

The risks associated with the use of nanomaterials have been recently under investigation (1) as increasingly more nanosized products are developed and commercialized. The advent of nanotoxicology as…

Enabling Agile Biomanufacturing with Leading Edge Analytical Biology

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Mark Butcher

This proposed EMSL User project supports a larger multi-lab "Agile Biomanufacturing" project (LBNL, PNNL, SNL). Through the EMSL’s leading edge analytical biology, GC and LC mass…

Single Cell Resolution Omics Analysis of T1D islets

Lead Institution

National Institutes of Health

Principal Investigator

Charles Ansong

Type 1 diabetes mellitus (T1D) is a chronic disease resulting from the autoimmune destruction of insulin-producing pancreatic beta cells. In addition to evolving ideas about the role of beta cells in…

Computer Simulations of Protein-Nanomaterial Interactions

Lead Institution

Universidade Federal de Pernambuco

Principal Investigator

Roberto Lins Neto

Project type

Capability Research

The development of nanotechnology has led to an increasing interest in interfacing biological molecules with nanomaterials. Proteins have been used to functionalize nanomaterials controlling their…

Systems Biology Through an Integrated Multimodal Imaging and Analysis Framework

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

James Evans

Organisms have evolved a number of spatially localized processes to efficiently break down, absorb, and use necessary metabolites. Although progress has been made in identifying the genes that are…

Increase the throughput for quantifying transcript copies in single microbes using single molecule fluorescence in situ hybridization

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Dehong Hu

Single molecule fluorescence in situ hybridization (smFISH) is a powerful method to provide information about the spatial location, species, and activities of microbes through their gene expression…

Fluorescence Imaging of Cellular Protein Dynamics

Lead Institution

Brigham Young University

Principal Investigator

Gretchen Carr

Project type

Exploratory Research

Advance fluorescence advanced technology will be used to study the interactions of proteins at the cell membrane and within the cytoplasm to better understand the molecular cascades underlying…

Optimizing Oil Production in Oleaginous Yeast by Cell-Wide Measurements and Genome-Based Models

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Scott Baker

The team at PNNL is using a combination of flow cytometry, microscopy and lipidomics to establish baseline cell biological and metabolite data on lipid production by the W29 strain of Yarrowia…

Single Cell Resolution Omics Analysis of T1D islets

Lead Institution

National Institutes of Health

Principal Investigator

Charles Ansong

Type 1 diabetes mellitus (T1D) is a chronic disease resulting from the autoimmune destruction of insulin-producing pancreatic beta cells. In addition to evolving ideas about the role of beta cells in…

Isoprene Research Campaign: Making Isoprene from Biomass Material using Bacillus Species

Lead Institution

Washington State University Tri-Cities

Principal Investigator

Birgitte Ahring

Project type

Research Campaign

The overarching goal of this project is to understand the pathway of isoprene production in Bacillus subtilis, to serve as the basis for genetically modifying the pathway to substantially increase…

Microbial Community Dynamics and Plant Phenomics with Single-Cell Gene Expression and Imaging Mass Spectrometry

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

The inherent heterogeneity of biological systems, including microbial communities or cell populations, limits the questions that can be resolved by averaged cell population measurements, which lump…

Molecular Mechanisms Underlying Nanomaterial Interactions with Biological Systems

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

This proposal covers research conducted with funding from several agencies, including NIEHS and the NSF-funded Center for Sustainable Nanotechnology. Accumulating observations demonstrate the…

Dynamic Changes in Molecular Interactions along the Circadian Rhythm (Orr-LDRD Membrane Biology GC, PNNL Scope #90001)

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

Project type

Grand Challenge

One of the most challenging tasks in cell biology is the study of the molecular interactions in the natural cellular environment in order to gain information about their dynamic changes in time and…

Cellular Interactions and Fate of Engineered Nanomaterials in Alveolar Epithelial Cells at the Air-Liquid Interface

Lead Institution

Oregon State University

Principal Investigator

Bettye Maddux

Project type

Large-Scale EMSL Research

The growing commerce in micro- and nanotechnology is expected to increase human exposure to submicrometer and nanoscale particles. Adverse effects of these particles on living systems have been…

Single Cell Resolution Omics Analysis of T1D islets

Lead Institution

National Institutes of Health

Principal Investigator

Charles Ansong

Type 1 diabetes mellitus (T1D) is a chronic disease resulting from the autoimmune destruction of insulin-producing pancreatic beta cells. In addition to evolving ideas about the role of beta cells in…

Multiplexed high resolution fluorescence imaging in plants

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

This proposal covers work done under a DOE-funded project led by the University of Missouri. The project focuses on developing and demonstrating the application of a fluorescence microscopy platform,…

Nanoscale Insight into the Living Cell Membrane Responses to Ultrafine PM (Orr LDRD-EBI, PNNL Scope #49989)

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

Project type

Exploratory Research

Ultrafine particulate air pollutants exert harmful effects on human health to a greater extent than other fine particulate matter (PM), and these effects have been linked to the surface properties of…

Molecular mechanisms underlying nanomaterial toxicity or biocompatibility

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

Accumulating observations demonstrate the potential of engineered nanoparticles (NPs) to induce adverse effects in vivo and in vitro, but the properties that make a particle toxic or biocompatible…

Advancing Materials for Quantum Information Science: CVD Growth and Functionalization of Graphene with Ordered Arrays of Nanodiamonds

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Marvin Warner

Quantum information science is an up and coming area of research aimed to transform computing capabilities in the future. The use of quantum bits, or qubits, in place of traditional bits is predicted…

SyPro Poplar: Improving Poplar Biomass Production under Abiotic Stress Conditions: an
Integrated Omics, Bioinformatics, Synthetic Biology and Genetic Engineering Approach

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Amir Ahkami

To engineer bioenergy crops that can grow in dry, marginal lands, this project will introduce into poplar trees tolerance to different environmental stresses such as water deficit, high soil salinity…

FRET Screening of Protein-Protein Interactions in Shewanella (Orr GTL-Imaging, PNNL/ORNL Scope #43930)

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

Project type

Exploratory Research

Fluorescence resonance energy transfer (FRET) imaging and spectroscopy techniques will be used to identify specific molecular interactions among proteins in Shewanella. The techniques incorporate…

Membrane Biology Research Campaign: Use of synthetic biology to probe molecular machines in photosynthesis

Lead Institution

Washington University in St. Louis

Principal Investigator

Himadri Pakrasi

Project type

Research Campaign

We have shown in our previous EMSL collaborations our ability to develop systems-level models of cyanobacterial processes. In the present proposal, our objective is to characterize and…

Tracking the Fate of new C in Northern Peatlands by a Compound-Specific Stable Isotope-Labeling Approach coupled with FISH-NanoSIMS

Lead Institution

University of Arizona

Principal Investigator

Malak Tfaily

Here, we propose to examine the priming effect, drivers, and dynamics of the "new C" that is stimulated by climate change in Northern peatlands soil using a stable isotope labeling approach…

Quantitative multiplexed analysis of gene and protein expression patterns in intact cells

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Dehong Hu

Understanding the function of metabolic and regulatory pathways requires identifying their spatial and temporal expression patterns under different conditions. Furthermore, predictive modeling and…

Regulation of Cell Surface Ligand Dynamics (Orr LDRD-BSI, PNNL Scope #90001)

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

Project type

Exploratory Research

We will develop a set of new imaging technologies that can directly visualize ligand oligomerization as well as interaction with other cell surface molecules. We expect to observe an increase in…

Rhizosphere Research Campaign: The plant-soil interface - understanding dynamic interactions in the context of environmental change

Lead Institution

University of Missouri - Columbia

Principal Investigator

Gary Stacey

Project type

Research Campaign

The ultimate, long-term goal is to determine what drives source-sink relationships that control the cycling of plant nutrients belowground. To fully appreciate the complexities of this dynamic…

Single Cell Resolution Omics Analysis of T1D islets

Lead Institution

National Institutes of Health

Principal Investigator

Charles Ansong

Type 1 diabetes mellitus (T1D) is a chronic disease resulting from the autoimmune destruction of insulin-producing pancreatic beta cells. In addition to evolving ideas about the role of beta cells in…

High throughput generation of small molecule probes for discovery of unique cellular functions using Substrate Activity Screening

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Sankarganesh Krishnamoorthy

We propose a method to demystify the massive catalog of proteins-of-unknown-function accumulated by recent advances in genome sequencing by direct assignment of function. We will query enzyme…

Roles for Membrane Receptors in Cellular Responses to External Cues;
The Case of ErbB4 and Morphology Dynamics

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

Project type

Exploratory Research

Understanding the mechanisms that underlie the cellular responses to the environment has been the subject of intensive research. Membrane proteins are found within the interface between the living…

Optimizing Oil Production in Oleaginous Yeast by Cell-Wide Measurements and Genome-Based Models

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Scott Baker

The team at PNNL is using a combination of flow cytometry, microscopy and lipidomics to establish baseline cell biological and metabolite data on lipid production by the W29 strain of Yarrowia…

Optimizing Oil Production in Oleaginous Yeast by Cell-Wide Measurements and Genome-Based Models

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Scott Baker

The team at PNNL is using a combination of flow cytometry, microscopy and lipidomics to establish baseline cell biological and metabolite data on lipid production by the W29 strain of Yarrowia…

Elucidation of the Roles of Diazotrophic EndoPopulus: Endophyte Communities in Promoting Productivity and Resilience of Populus through Systems Biology Approaches (EndoPopulus)

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Amir Ahkami

The plant microbiome, including microbial endophytes living within plants and the epiphytes living on the plant surface, has a profound influence on the productivity and resilience of the host plant…

Roles for Membrane Receptors in Cellular Responses to External Cues; The Case of ErbB4 and Morphology Dynamics

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

Project type

Large-Scale EMSL Research

This proposal is a continuation of research pursued under EMSL User Proposal #22092. Understanding the mechanisms that underlie the cellular responses to the environment has been the subject of…

Molecular mechanisms underlying nanomaterial toxicity or biocompatibility

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Galya Orr

Accumulating observations demonstrate the potential of engineered nanoparticles (NPs) to induce adverse environmental and health effects, but the properties that make a particle toxic or…

Advancing Materials for Quantum Information Science: CVD Growth and Functionalization of Graphene with Ordered Arrays of Nanodiamonds

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Marvin Warner

Quantum information science is an up and coming area of research aimed to transform computing capabilities in the future. The use of quantum bits, or qubits, in place of traditional bits is predicted…

Projects