Nathalie Munoz Munoz

Agile Biofoundry FY24-25

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Nathalie Munoz Munoz

This proposed EMSL Staff time proposal assists the DOE-EERE-BETO supported PNNL project: FY24-25 seven-national laboratory Agile BioFoundry (https://agilebiofoundry.org/). PNNL’s effort for this…

Nanodroplet sampling processing platform for amine containing metabolites in single Yarrowia lipolytical fungal protoplasts

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Sarah Williams

Single-cell metabolomics of bioproduction organisms such as Yarrowia lipolytica could significantly enhance our understanding of functional heterogeneity, yet remains a challenge due to limited input…

Spatiotemporal mapping of lignocellulose decomposition by a naturally evolved fungal garden microbial consortium

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Kristin Burnum-Johnson

Some microbial communities composed of bacteria and fungi can readily breakdown plant matter into its component sugars. Leaf-cutter ants take advantage of such microbial communities by maintaining…

Expanding metabolomics sample preparation with new desalting protocols for enhanced molecular coverage

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

William Kew

Metabolomics workflows are a cornerstone of EMSL’s user program. Routinely, samples are received which are rich in inorganic components such as salts, trace metals, and minerals. These ‘salts’ impede…

Pan-Omics Technology Development, Implementation, and Application to GSP Systems Biology Research

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

The BER Genome Science Program aims to understand complex biological and environmental systems across spatial and temporal scales to develop predictive knowledge relevant to DOE mission challenges…

Agile BioFoundry

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jon Magnuson

This proposed EMSL Resource Owner project, is a sub-project supporting two DOE-EERE-BETO supported PNNL projects: FY16-17 four-national laboratory “Agile BioFoundry” (ABF) seed project and a larger…

Agile BioFoundry

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Kristin Burnum-Johnson

This proposed EMSL Resource Owner project, is a sub-project supporting two DOE-EERE-BETO supported PNNL projects: FY16-17 four-national laboratory “Agile BioFoundry” (ABF) seed project and a larger…

Metabolomics of programmed cell death

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jennifer Kyle

Lipidomics is the study of cellular lipids to understand the function and structure of biological systems. The interaction of lipids with other cellular components, including proteins and…

Agile BioFoundry

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Scott Baker

This proposed EMSL Resource Owner project, is a sub-project supporting two DOE-EERE-BETO supported PNNL projects: FY16-17 four-national laboratory “Agile BioFoundry” (ABF) seed project and a larger…

Wood decomposition by brown rot fungi

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Young-Mo Kim

Fungi dominate the biological decomposition of wood and other lignocellulosic plant tissues in nature through a range of pathways for unlocking the sugars embedded in lignin, offering a proven model…

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…

Agile BioFoundry

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jon Magnuson

This proposed EMSL Resource Owner project, is a sub-project supporting DOE-EERE-BETO supported PNNL-national laboratory Agile BioFoundry (ABF) project. PNNL’s effort for this project, which includes…

Centralized Metabolomics Molecular Reference Database

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Yuri Eberlim de Corilo

Reference databases, both in-silico and molecular standard-based, are vital components in all metabolomics data annotation workflows. However, these databases are often decentralized or have…

Engineering Synthetic Anaerobic Consortia Inspired by the Rumen for Biomass Breakdown and Conversion

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Scott Baker

Lignocellulosic plant biomass is a widely-abundant renewable resource that can be harnessed for value-added production of fuels & chemicals. While microbes have been engineered to breakdown…

Automating Microbial Community Phenotyping within Synthetic Soil Aggregates

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Jayde Aufrecht

Microbial hotspots are the sites of nearly all biogeochemical transformations (BGT) in the soil. Unfortunately, the small size (µm to mm) and transient existence (hours to days) of microbial…

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