Dehong Hu

An integrated pest management approach to algal crop protection based on metagenomic characterization, antimicrobial peptides, and adaptive laboratory evolution

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Erin Bredeweg

This project uses a multi-pronged approach to improve pest management in open air algal cultivation, an important crop strategy for decarbonization. This includes identification of the most…

Multiplexed isotope in situ hybridization (iISH) to profile complex microbial assemblages

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Jeremy Bougoure

The use of fluorescence based in situ hybridization (FISH) is an established method for identifying specific nucleic acids associated with microorganism identification (rRNA) and/or function (mRNA,…

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…

Characterization of the Local Order of Organic Thin Film Material by Combined Atomic Force Microscopy and Optical Microscopy

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Dehong Hu

Project type

Large-Scale EMSL Research

This project will develop, demonstrate and publish a new method to study the local order of organic thin film materials. The nanometer scale local order and disorder of organic thin film materials…

Detecting Seismically-Sustained Deep Subsurface CH4-cycling Chemolithoautotrophic Microbial Communities Using Multi-Omic Analyses and NanoSIMS

Lead Institution

Princeton University

Principal Investigator

Tullis Onstott

Project type

FICUS Research

The specific objective of the proposed JGI/EMSL project is to document the microbial ecosystem of an active fault zone at 3.5 to 3.6 kilometers depth in South Africa. More specifically, the goal is…

Simulation of the Conformation of Single Conjugated Polymer Molecules with Varying Conjugation Length in a Nematic Liquid Crystal

Lead Institution

University of Texas at Austin

Principal Investigator

Paul Barbara

Project type

Capability Research

The optical and electronic properties of conjugated polymers have been studied intensively due to their potential application in molecular optoelectronic devices such as organic light emitting diodes…

Characterization of Bio-inspired Photonic Crystals for Enhancing Solar Energy Conversion by Single-Molecule Spectroscopy

Lead Institution

Oregon State University

Principal Investigator

Greg Rorrer

Project type

Large-Scale EMSL Research

Currently, there is a need for more efficient and cost-effective conversion of solar energy to electricity. The efficiency of photovoltaic solar cells is compromised by the mismatch between the…

Elucidating synergistic plant-bacteria metabolic pathways for alleviating iron deficiency

Lead Institution

Oregon State University

Principal Investigator

Rene Boiteau

Nutrient mobilization from soil minerals is critical for plant growth, particularly in marginal lands with high pH soils or low phosphate availability. One way that rhizospheric bacteria enhance…

Measurement and Optimization of the Redox Properties of Enzymes Using Single-Molecule Imaging, Controlled Electrochemical Potential, and Nanoscale Confinement

Lead Institution

Western University of Health Sciences

Principal Investigator

Thomas Squier

Project type

Large-Scale EMSL Research

We propose a new multi-disciplinary approach to single-molecule spectroscopy to image the redox kinetics of enzymes in spatially confined geometries under controlled electrochemical potential. We…

Understanding the Interactions of the Plant Root and Plant Growth Promoting Bacteria with Unique Correlative Surface Imaging Tools

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Zihua Zhu

This research aims to achieve the following objectives: 1) integrate surface tools and apply them in submicron chemical mapping of the plant-microbe interface; 2) provide novel in vivo analysis of…

Evaluation of Newly Developed Multiuse Affinity Probes for Subdiffraction Imaging

Lead Institution

Western University of Health Sciences

Principal Investigator

Thomas Squier

Project type

Exploratory Research

We plan to apply our newly developed cyanine derivatives to take advantage of recent developments by Zhuang and coworkers involving photoswitchable dyes for subdiffraction limited fluorescence…

Yarrowia lipolytica for biotechnology and synthetic biology

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Erin Bredeweg

The team at PNNL is using a combination of flow cytometry, microscopy and lipidomics/metabolomics to establish baseline cell biological and metabolite data on DNA agility in eukaryotic organisms, and…

Single Molecule Studies of Multi-Chromophoric Foldamers

Lead Institution

Washington State University

Principal Investigator

Alexander Li

Project type

Exploratory Research

Folding is a strategy ubiquitously used by nature to accomplish remarkable functions such as molecular recognition and enzymatic chemical catalysis. Since we are unable to design synthetic polymers…

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…

AFM Imaging of Photo System Protein in Photosynthetic Membranes (Lu's LDRD-EMSL GC Biomembranes, PNNL Scope #90001)

Lead Institution

Bowling Green State University

Principal Investigator

H. Peter Lu

Project type

Grand Challenge

AFM imaging will be used to characterize photo system protein distributions and aggregations in photosyntetic membranes.

Single Molecule Studies of Multi-Chromophoric Foldamers

Lead Institution

Washington State University

Principal Investigator

Alexander Li

Project type

Limited Scope

Folding is a strategy ubiquitously used by nature to accomplish remarkable functions such as molecular recognition and enzymatic chemical catalysis. Since we are unable to design synthetic polymers…

Enzymatic Single-Molecule Spectroelectrochemistry by Nanoscale Confinement and Nanometer Scale Super Resolution Fluorescence Imaging

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Dehong Hu

We propose a new multi-disciplinary approach via single-molecule spectroscopy to study enzyme-catalyzed single-molecule electron transfer reaction and image the redox kinetics of enzymes in nanometer…

Characterization of mixed monolayers with x-ray photoelectron spectroscopy (XPS)

Lead Institution

Portland State University

Principal Investigator

Li Liu

Project type

Exploratory Research

We are interested in the covalent immobilization of polymer thin films by a photochemically initiated ligation process, with special emphasis on how the surface and interface properties influence the…

Photoswitchable Dyes and Nanoparticles Enable High Resolution and Accurate Fluorescent Probes for Cell Imaging

Lead Institution

Washington State University

Principal Investigator

Alexander Li

Project type

Large-Scale EMSL Research

We have developed photoswitchable dyes and nanoparticles for high-resolution and high-accuracy cell imaging. Upon photoactivation, the fluorescent molecules switch either emission colors or between…

Investigations on Electrode/Electrolyte Interfacial Reactions in Localized High-Concentration Electrolytes for Various Energy Storage Chemistries

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Mark Engelhard

Localized high-concentration electrolytes (LHCEs) developed at PNNL in 2017 for rechargeable lithium (Li) metal batteries show not only significant enhancement in protection of Li metal anode and…

Combinatorial Operando Catalyst Research

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Zongchao Zhang

Project type

Exploratory Research

The main objective of this proposal is to build and demonstrate a combinatorial operando system for accelerated catalyst research. This system will be the first of its kind. It integrates FTIR and…

Single-Molecule Enzymatic Reaction Dynamics

Lead Institution

Bowling Green State University

Principal Investigator

H. Peter Lu

Project type

Exploratory Research

T4 lysozyme catalyzes the hydrolization of the bacterial cell wall and involves complex conformational changes. Although this hydrolization is one of the most important enzymatic reactions, its…

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,…

(emslcsd4)Graphic presentation of conformational motions of dye-labeled enzyme

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Dehong Hu

Project type

Capability Research

We have studied the conformation change of enzyme molecules by single molecule spectroscopy by monitoring the energy transfer efficiency of dyes labeled on the enzyme. In additional to spectroscopy…

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…

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…

Probing and Manipulating Protein Conformation Changes by Time-Resolved Single-Molecule Spectroscopy and Site-Specific Ultramicroscopy (Hu's DARPA, PNNL Scope #52021)

Lead Institution

Bowling Green State University

Principal Investigator

H. Peter Lu

Project type

Exploratory Research

The key goal of our proposed effort is to develop an unprecedented single-molecule spectroscopy technique with high spatial and temporal resolution. This technique will be capable of manipulating and…

Microscale Spectroscopic Analyses of Cellulose Degradation and
Uptake by a Microbial Community

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Nancy Hess

Project type

Exploratory Research

We seek to describe the acquisition and incorporation of cellulose-derived C into a complex microbial community that was been enriched from soil. In doing so at batch culture scales we will further…

Deep UV laser ablation system for spatial single-cell proteomics

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

William Chrisler

Laser capture microdissection (LCM) is the key capability for spatially resolved omicss. However, commercially available LCM systems are designed for mammalian tissues and feature UV lasers (330 nm),…

Characterization of the Local Order of Organic Thin Film Material by Combined Atomic Force Microscopy and Optical Microscopy

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Dehong Hu

Project type

Exploratory Research

This project will develop, demonstrate and publish a new method to study the local order of organic thin film materials. The nanometer scale local order and disorder of organic thin film materials…

Growth analysis in mixed microbial populations using microscopy coupled with computational approaches

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Alex Beliaev

Project type

Large-Scale EMSL Research

Microbial phototroph-heterotroph associations (PHA) are common in nature as they provide basis for many water- and terrestrial-based ecosystems. Metabolic interactions between partners are the…

Single-Molecule and Single-Particle Spectroelectrochemistry by Super- Resolution Fluorescence Imaging

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Dehong Hu

In chemical and biological systems, interfacial redox processes play important roles. Redox reactions are ubiquitous in biological systems, from metabolism and nutrient utilization from the…

Single-molecule imaging at LB bilayers

Lead Institution

Bowling Green State University

Principal Investigator

H. Peter Lu

Project type

Exploratory Research

The proposed experiments with the LB trough are to create lipid bi-layer membranes with low concentrations of either fluorescence labeled lipids and/or low concentrations of fluorescence labeled…

Quantitative Characterization of Biomass Deconstruction

Lead Institution

Washington State University Tri-Cities

Principal Investigator

Bin Yang

Project type

Exploratory Research

The objective of this research is to apply advanced characterization techniques to gain a deeper understanding of lignocellulosic biomass conversion to biofuels. The proposed research will take…

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…

Fluorescence Imaging of Tobacco Cells

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Ziyu Dai

Project type

Limited Scope

We will explore to use the single molecule fluorescence microscopy in EMSL for our biomass core research and development (core R&D) program. We have prepared the model plant cells-tobacco…

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…

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.

Nanoparticles-Based Biosensors for Detection of Environmental Biomarkers

Lead Institution

Washington State University

Principal Investigator

Yuehe Lin

Project type

Large-Scale EMSL Research

Human exposure to toxic chemical agents (i.e. pesticides, nerve agents) and infectious agents, such as pathogens, may have some immune response, which is composed of both cellular and acellular…

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…

Single Molecule Electron Transfer Dynamics (Lu's BES-Single-Molecule/Ultrafast Spec, PNNL Scope #16248)

Lead Institution

Bowling Green State University

Principal Investigator

H. Peter Lu

Project type

Exploratory Research

Electron transfer dynamics is highly homogeneous, and single molecule spectroscopy has been demonstrated to be powerful to study such complex dynamics.

Combinatorial Operando Catalyst Research

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

David King

Project type

Large-Scale EMSL Research

This is the continuation of EMSL proposal 21610. The main objective of this proposal is to build and demonstrate a combinatorial operando system for accelerated catalyst research. This system will…

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…

AFM-enhanced FLIM and Raman imaging.

Lead Institution

Bowling Green State University

Principal Investigator

H. Peter Lu

Project type

Exploratory Research

Metallic AFM tip enhanced spectroscopy will be developed and applied to study chemical process and biological process.

Real-Time Imaging of Lignocellulosic Biomass Degradation by Fluorescence Microscopy and Atomic Force Microscopy

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Dehong Hu

Project type

Large-Scale EMSL Research

The degradation of lignocellulosic biomass by enzymes is a potentially important new source for our nation's energy need. However the structure of lignocellulose in plant cell walls and the…

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…

Selective immobilization of biological molecules on single walled carbon nanotube (SWNT) surfaces

Lead Institution

Korea Research Institute of Chemical Technology

Principal Investigator

Yung Suh

Project type

Exploratory Research

Selective immobilization of biological molecules on single walled carbon nanotube (SWNT) surface is very interesting and important topic for various nanoscale biosensor applications. Confirmative…

Projects