Yilin Fang | Environmental Molecular Sciences Laboratory

A new workflow to incorporate molecularly and spatially resolved data into soil biogeochemical modeling

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jianqiu Zheng

We propose a new modeling workflow to integrate molecular-level information on the composition and structure of soil and resident microbial communities into mechanistic process representations and…

Numerical Modeling of Hydrologic Exchange and Biogeochemistry in Dynamic Rivers

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Timothy Scheibe

Project type

Large-Scale EMSL Research

The River Corridor SFA project (https://www.pnnl.gov/projects/river-corridor) uses a ModEx (integrated models and experiments) approach to study hydrologic exchange fluxes (HEFs) between river…

Role of Microenvironments and Transition Zones in Subsurface Reactive Contaminant Transport

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

James McKinley

This is a renewal proposal for a previous collaborative effort between the PNNL Scientific Focus Area (SFA) and EMSL. The research proposed will resolve critical Hanford and basic subsurface science…

Integrating genome-scale metabolic modeling of a microbial community into simulations of subsurface flow and biogeochemical reactive transport.

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Steven Yabusaki

Project type

Exploratory Research

The goal of this project is to develop a mechanistic, quantitative, and predictive simulation capability for coupled flow and biogeochemical reactive transport that accounts for • genome-specific…

Integrating genome-scale metabolic modeling of a microbial community into simulations of subsurface flow and biogeochemical reactive transport.

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Steven Yabusaki

Project type

Large-Scale EMSL Research

The goal of this project is to develop a mechanistic, quantitative, and predictive simulation capability for coupled flow and biogeochemical reactive transport that accounts for: - genome-specific…

SGI Altix Allocation for Advanced Computing Technology Lab

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jarek Nieplocha

This is a placeholder proposal to manage time allocation under EMSL resource tracking system.

Role of Microenvironments and Transition Zones in Subsurface Reactive Contaminant Transport

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

James McKinley

This is a renewal proposal for a previous collaborative effort between the PNNL Scientific Focus Area (SFA) and EMSL. The research proposed will resolve critical Hanford and basic subsurface science…

(emsl2402)Subsurface Multifluid Flow and Multicomponent Reactive Transport: Characterization of Processes and Properties

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Steven Yabusaki

Project type

Capability Research

This proposal targets the characterization of subsurface processes and properties in multidimensional porous media as the unifying theme for a team of researchers from six DOE labs (INEEL, LANL, LBNL…

Hydro-Biogeochemical Process Dynamics in the Groundwater-Surface Water Interaction Zone

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

John Zachara

This is a renewal proposal for a previous collaborative effort between the PNNL Scientific Focus Area (SFA) and EMSL.PNNL Scientific Focus Area. The PNNL SFA will develop a predictive understanding…

Hybrid Numerical Methods for Multiscale Modeling of Subsurface Biogeochemical Processes

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Bruce Palmer

Project type

Limited Scope

This proposal for a development account on the EMSL MPP2 cluster is to support the SciDAC Science Application (SA) proposal "Hybrid Numerical Methods for Multiscale Modeling of Subsurface…

3D Reality Check: Developing Structural Support for Predicting Microbial Function and Interpreting Microbial "Omics" Data

Lead Institution

Marine Biological Laboratory

Principal Investigator

Zoe Cardon

Project type

FICUS Research

Microbial activities on which humanity and ecosystems depend, and which influence climate and support biofuel production, are determined both by microbial community membership and by the resources…

Hybrid Numerical Methods for Multiscale Modeling of Subsurface Biogeochemical Processes

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Bruce Palmer

Project type

Large-Scale EMSL Research

The project is focused on developing a component-based framework and associated parallel software components for doing large scale simulations of subsurface reactive transport by combining different…

Multiscale Numerical Experiments on Multiphase Flow using a Geologically Realistic Numerical Testbed

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Timothy Scheibe

The dynamics of multiphase fluid flow and immiscible displacement play an important role in many subsurface applications including water drainage and imbibition, geological carbon sequestration,…

Role of Microenvironments and Transition Zones in Subsurface Reactive Contaminant Transport

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

James McKinley

Project type

Exploratory Research

The PNNL Scientific Focus Area (SFA) will resolve critical Hanford and basic subsurface science issues through integrated, multi-disciplinary, science-theme focused research on the role of…

Multiscale Numerical Experiments on Multiphase Flow using a Geologically Realistic Numerical Testbed

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Timothy Scheibe

The dynamics of multiphase fluid flow and immiscible displacement play an important role in many subsurface applications including water drainage and imbibition, geological carbon sequestration,…

Mechanistic Modeling of Subsurface Multifluid Flow and Biogeochemical Reactive Transport

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Steven Yabusaki

Project type

Capability Research

A reliable means of quantitatively predicting fluid movement and biogeochemistry in the subsurface environment is of significant value to the Department of Energy (DOE) and to our nation as a whole. …

Hydro-Biogeochemical Process Dynamics in the Groundwater-Surface Water Interaction Zone

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

John Zachara

This is a renewal proposal for a previous collaborative effort between the PNNL Scientific Focus Area (SFA) and EMSL.PNNL Scientific Focus Area. The PNNL SFA will develop a predictive understanding…

(gc3573)Multifluid Flow and Multicomponent Reactive Transport in Heterogeneous Subsurface Systems

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Steven Yabusaki

Project type

Capability Research

Long-term, scientifically defensible predictions of subsurface contaminant fate are critical to the development of remediation alternatives that can accelerate the cleanup of DOE waste sites and…

Multiscale Numerical Experiments on Multiphase Flow using a Geologically Realistic Numerical Testbed

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Timothy Scheibe

The dynamics of multiphase fluid flow and immiscible displacement play an important role in many subsurface applications including water drainage and imbibition, geological carbon sequestration,…

Enabling Quantitatively Predictive Understanding of Multifluid Flow and Multicomponent Biogeochemical Reactive Transport in Complex, Subsurface Systems

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Steven Yabusaki

Project type

Capability Research

The activities described in this proposal are directed at the goal of a quantitatively mechanistic predictive understanding of multifluid flow and multicomponent biogeochemical reactive transport in…

Influences of Hydrologic Exchange Flows on River Corridor and Watershed Biogeochemical Function

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

James Stegen

We are developing predictive understanding of the processes that govern influences of hydrologic exchange flows on water quality, nutrient dynamics, and ecosystem health in dynamic river corridor…

Role of Microenvironments and Transition Zones in Field scale microbial ecology and biogeochemistry

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

James McKinley

Project type

Exploratory Research

This is a renewal proposal for a previous collaborative effort between the PNNL Scientific Focus Area (SFA) and EMSL. The research proposed will resolve critical Hanford and basic subsurface science…

Model-Driven Datasets for Plant-Soil-Microbe Interactions using a RhizoCell Experimental System

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Timothy Scheibe

A critical aspect of SSA system-level studies is the iterative integration of models and experiments (ModEx) across multiple physical scales and processes. This project will produce holistic…

Role of Microenvironments and Transition Zones in Field Scale Microbial Ecology and Biogeochemistry

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

James McKinley

Project type

Limited Scope

This is a renewal proposal for a previous collaborative effort between the PNNL Scientific Focus Area (SFA) and EMSL. The research proposed will resolve critical Hanford and basic subsurface science…

Influences of Hydrologic Exchange Flows on River Corridor and Watershed Biogeochemical Function

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

James Stegen

We are developing predictive understanding of the processes that govern influences of hydrologic exchange flows on water quality, nutrient dynamics, and ecosystem health in dynamic river corridor…

The Role of Microenvironments and Physicochemical Subsurface Components on Field Scale Biogeochemistry and Contaminant Mobility

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

James McKinley

Project type

Exploratory Research

This is a renewal proposal for a previous collaborative effort between the PNNL Scientific Focus Area (SFA) and EMSL. The research proposed will resolve critical Hanford and basic subsurface science…

Influences of Hydrologic Exchange Flows on River Corridor and Watershed Biogeochemical Function

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

James Stegen

We are developing predictive understanding of the processes that govern influences of hydrologic exchange flows on water quality, nutrient dynamics, and ecosystem health in dynamic river corridor…

Pore-scale Carbon Biogeochemical Processes in Soils and Their Impact to Climate Models

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Chongxuan Liu

Project type

Exploratory Research

Carbon (C) flux from terrestrial soils is an important component in Earth System Models (ESMs) to simulate global carbon cycling and its effect on climate changes. One major challenge to reliably…

River Corridor Hydrobiogeochemistry from Reaction to Basin Scale

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

James Stegen

The PNNL SBR SFA will transform understanding of spatial and temporal dynamics in river corridor hydrobiogeochemistry from reaction to watershed and basin scales, enabling mechanistic representation…

CLM4 simulations for the Multi-scale Synthesis and Terrestrial Model Intercomparison Project (MsTMIP)

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Maoyi Huang

Project type

Exploratory Research

In this project, we will conduct global and regional simulations of the community land model (CLM4) as required by the CLM4 simulations for the Multi-scale Synthesis and Terrestrial Model…

A cross-scale modeling framework of organic matter biochemistry in river corridor system: Scaling biogeochemical reaction kinetics from molecular to reach scales

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Peiyuan Gao

Project type

Large-Scale EMSL Research

Predicting the decomposition of organic matter in biochemical processes driven by microbes at reach scale remains challenging. These challenges are deeply rooted in the scarcity of rate measurements…

Projects