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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 523 records · Page 29
All sourcesNASA NTRSDOE OSTI
DOE OSTI2014

SECARB Permits for Seismic and Other Site Preparation Plan

The Southeast Regional Carbon Sequestration Partnership’s (SECARB’s) Anthropogenic Test is a demonstration of the deployment of CO 2 capture, transport, geologic storage and monitoring technologies. This project is one of the first and the largest fully integrated commercial prototype coal-fired carbon capture and storage projects in the USA. Drilled in January 2011, a deep characterization well provided geologic data confirming that the test site represented an attractive location for safe, long-term storage of CO 2 . Two Class V Experimental Injection Well underground injection control (UIC) permits were issued in November 2011 and subsequently the project’s injection wells were installed. A robust monitoring, verification and accounting (MVA) plan has been developed to monitor and track the CO 2 plume and the associated pressure field. The CO 2 MVA effort for the Anthropogenic Test CO 2 (Test) injection demonstration includes two wellbore seismic methods, specifically time-lapse Croswell seismic and vertical seismic profiles (VSP). Due to the unique challenges presented by this Test (injection depth of 9,500+ ft. into thin, stacked reservoir sands and limited injection volumes) surface seismic was eliminated as a Monitoring, Verification, and Accounting (MVA) tool. However, the newly drilled project wells provided ample casing diameters (prior to running tubing) to accommodate wellbore seismic receivers (wireline and tubing deployed) and a Croswell source.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2013

Completed and Interpreted Baseline Seismic Survey Report (SECARB Phase III Work Product 4.2.2.b)

Advanced Resources presents the results of the seismic survey performed at the SECARB Citronelle project in Alabama. The CO 2 monitoring effort for the Anthropogenic Test includes two wellbore seismic methods, specifically time-lapse crosswell seismic and vertical seismic profiles (VSP). Due to the unique challenges presented by this test (injection depth of 9,500+ ft. into thin, stacked reservoir sands and limited injection volumes) surface seismic was eliminated as a Monitoring, Verification, and Accounting (MVA) tool. However, the newly drilled project wells provided ample casing diameters (prior to running tubing) to accommodate wellbore seismic receivers (wireline and tubing deployed) and a crosswell source. Baseline surveys were conducted in 2012 prior to the onset of CO 2 injection operations. Reports document the results from the baseline vertical seismic profile (VSP) and crosswell seismic surveys performed by SR2020 and Schlumberger Carbon Services, respectively.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2018

Present Early Test Results at SECARB Industry Briefing [Slides]

Contents include the following presentations: 1) SECARB Phase III Early Test Cranfield, MS; 2) SECARB Phase III Early Test at Cranfield, March 9, 2010; 3) Update on Results of SECARB "Early" Test of Monitoring Large Volume Injection at Cranfield; 4) Progress Update SECARB "Early" Test Monitoring 3.5 Million Tons at Cranfield, March 7, 2012; 5) Cranfield Geophysical Monitoring Status and Results, March 8, 2012; 6) Large Volume CO 2 Injection at Cranfield, Early Field Test of the SECARB Phase III–Near-Surface Monitoring, March 7, 2012; 7) Shallow Groundwater Study at the Cranfield Site, March 12, 2013; 8) Subsurface Monitoring Studies–Results and Integration, March 12, 2013; 9) Review of the Petrophysics for the Cranfield Phase III Project, March 12, 2013; 10) Geomechanics at Cranfield, March 5, 2014; 11) Gulf Coast Carbon Center Near-Surface Update, March 4-5, 2014; 12) Monitoring Design Best Practices, March 5, 2014; 13) Assessing Impacts of CO 2 Leakage on Groundwater Quality and Monitoring Network Efficiency–Case Study at a CO 2 -EOR site, March 11, 2013; 14) Near-surface Stratigraphy and Geophysics, March 11, 2015; 15) Update on Reservoir Modeling and Final Testing and P&A Underway, March 11, 2013; 16) SECARB Early Test Retrospective; 17) Fluid Source Attribution at CCS and CO 2 -EOR Sites, March 8, 2016; 18) SECARB "Early Test" at Cranfield, March 8-9, 2017; 19) Analysis of Seismic Time-Lapse Observations at Cranfield; 20) SECARB Phase III Cranfield Project (Early Test), March 8, 2018; 21) Enhanced Analytical Simulation Tool (EASiTool) Dynamic Capacity Estimation; 22) Net Carbon Negative Oil Mass Accounting–Cranfield Case Study; 23) Knowledge Sharing; 24) Advancing Toward Commercialization Final Stages of the Early Test; 25) CO 2 EOR Feasibility in SECARB Region Limited by CH 4 ; 26) Understanding of CO2 Migration and Entrapment–Cranfield Site

01 COAL, LIGNITE, AND PEAT↗
DOE OSTI2014

Bell Creek Test Site: 3-D Seismic and Characterization Report

The Plains CO 2 Reduction (PCOR) Partnership, led by the Energy & Environmental Research Center (EERC), is working with Denbury Onshore (Denbury) to evaluate the effectiveness of large-scale injection of carbon dioxide (CO 2 ) into the Bell Creek oil field for CO 2 enhanced oil recovery (EOR) and to study long-term incidental CO 2 storage. A technical team that includes Denbury, the EERC, and others are conducting activities to determine the baseline reservoir characteristics for development of a geologic model for predictive simulations and to serve as a comparison to time-lapse data as they are acquired. One of the activities was the acquisition and interpretation of a baseline three-dimensional (3-D) surface seismic survey acquired over a major portion of the field which is the subject of this report. The interpretation will be used to advance the field characterization effort. The geophysical data will be integrated with the EERC’s geologic model to improve its accuracy. In the future, when paired with at least one subsequent 3-D surface seismic survey, the data difference will provide a direct indication of where the CO 2 has migrated within the reservoir and aid in monitoring, verification, and accounting goals.

02 PETROLEUM↗
DOE OSTI2022

Syntrophic Co-Cultures of Clostridium Organisms to Produce Higher Alcohols & Other C6-C8 Metabolites (Final Report)

The goal of this project was to advance the systems biology understanding and predictive modeling of synthetic & syntrophic Clostridium microbial consortia, focusing on elucidation of metabolic networks and environmental signals in the consortia. The project has direct applicability to lignocellulosic-biomass based production of higher alcohols as advanced biofuels and C6-C8 metabolites, that can be used as chemicals or serve as biofuel precursors. This project studied and optimized three synthetic syntrophic systems. It examined the population dynamics using flow-cytometry, time-lapse microscopy and PCR analysis. 13C-based tracer analyses was used to examine the metabolite exchange between the syntrophic cell populations and the impact of those interactions on the transcriptome of the individual populations. To enhance our analytical and predictive capabilities, genome-scale models (GSMs) for these syntrophies was developed. RNAseq data for these syntrophic coculture systems were acquired to enable a molecular level understanding of the syntrophies aiming to identify the genetic networks of each organism in the co-culture and compare those against the networks of pure cultures.

09 BIOMASS FUELS↗
DOE OSTI2024

ESIAS Pseudocode

The Explosive Shock Image Analysis System (ESAIS) is designed to provide a semiautomated quantitative analysis of fast-frame imagery taken during the detonation of high explosive (HE) rate sticks. ESIAS does this by assisting the user in identifying the HE stick geometry on the image (i.e., sides of the undetonated HE stick, detonation front, an axial reference point to assist in the inter-comparison of images); scaling the images based on the known diameter of the undetonated HE stick; identifying the profiles of various surfaces resulting from the detonation process such as the shock wave and product gases or the outer pipe surface; calculating the detonation speed of the HE by tracking the distance it travels between two images with a known time lapse between the images; and determining the slit velocities resulting from the detonation. ESIAS will also import scope traces from oscilloscopes and assist in identifying the time of arrival of significant peaks.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2024

Assessing the Value of Seismic Amplitude Versus Offset (AVO) Attributes for CO2 Storage Project Using a Bayesian Network Model for Decision Support

Attributes versus offset (AVO) are a set of measurements to analyze how the characteristics of reflected seismic waves change as a function of the offset. It can be useful for monitoring CO2 storage sites because the presence of leaked CO2 into the overlying aquifer can change the properties of the rocks and pore fluids composition that can alter the way seismic waves reflect and their amplitudes. The time-lapse changes in AVO attributes derived from repeat seismic surveys can help identify anomalies or shifts in the subsurface that could potentially be used as an indicator for CO2 leak detection. Our study leverages multiple seismic attributes derived from synthetic seismic data and Bayesian network model to quantify the probability of leak detection in the overlying aquifer above the storage reservoir. It helps to quantify the value of individual seismic attributes at multiple monitoring periods based upon their sensitivities.

Kumar, Abhash↗
DOE OSTI2025

Integration and Demonstration of Monitoring, Modeling, and Prediction of DV-1 Amendment Performance at the Bench Scale: DV-1 Amendment Demonstration

During fiscal years 2024 and 2025, the U.S. Department of Energy’s Hanford Field Office commissioned Pacific Northwest National Laboratory to conduct applied research aimed at reducing the cost, time, and uncertainty associated with in situ treatment of vadose zone contaminants at the Hanford Site. This report outlines the integration of three key research efforts into a meso-scale demonstration designed to advance field-scale solutions that aim to (1) optimize the delivery of chemical amendments to contaminated soils, (2) reduce uncertainty in amendment delivery performance assessment using advanced monitoring techniques, and (3) provide real-time insights into when and where amendment-induced precipitation reactions occur in the subsurface. To achieve these objectives, the tank-scale (~ 1 cubic meter) Geophysical Imaging of Flow and Transport (GIFT) system was developed. GIFT enables experimental testing of amendment delivery while incorporating automated multi-modal monitoring approaches, including pressure measurements, direct fluid sampling, and remote time-lapse geophysical imaging. The data generated from these monitoring techniques will serve as inputs for a generative artificial-intelligence-driven digital twin – a numerical simulation model designed to honor observed data while quantifying uncertainty in simulation accuracy. Using this simulator, researchers will refine an amendment injection strategy to maximize delivery efficiency within a low-permeability soil zone. Monitoring data will be interpreted through simulated outputs to enhance understanding of the injection process. The efficacy of this integrated approach will be evaluated through direct sampling at the conclusion of the experiment.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2025

Phase II Field Demonstration at Lansing Smith Generating Plant, Southport, Florida (Final Report)

The Final Technical Report: Field Test Design and Pressure Management Strategies for Phase II Field Demonstration of Optimal Pressure Control, Plume Management, and Produced Water Strategies presents the culmination of multi-year efforts under the U.S. Department of Energy’s Brine Extraction and Storage Test (BEST) program, led by EPRI in partnership with Gulf Power at the Plant Smith site near Panama City, Florida. The project was designed to evaluate and demonstrate the technical feasibility of managing subsurface pressures and fluid movement associated with large-scale CO₂ injection, using low-salinity water as a proxy fluid. Through a combination of field injection testing, reservoir modeling, and optimization studies, the research team developed and refined active and passive brine extraction strategies aimed at controlling injection-induced pressure buildup, mitigating risks of fault activation, and managing plume migration. The field demonstration incorporated a new injection well (TIW-2), a new monitoring/extraction well (TEMW-A), and an existing well (TIW-1) repurposed for passive pressure relief. Complementary geophysical monitoring was designed to track plume development and evaluate the effectiveness of pressure management strategies. The report details the integrated workflow encompassing wellfield development, regulatory permitting, model calibration, and survey design. It includes a comprehensive electromagnetic (EM) modeling and inversion study used to develop a cost-effective, time-lapse geophysical monitoring plan capable of imaging the evolving low-salinity plume within the highly saline Lower Tuscaloosa formation. Reservoir simulation results guided the design of the 17-month injection program and the timing of active extraction to maintain formation pressures below a hypothetical fault reactivation threshold. Supporting analyses evaluated potential injectivity risks related to clay fines migration and geochemical incompatibility, identifying practical mitigation measures such as salinity and pH control. The final design recommends a series of crosswell EM surveys—conducted before, during, and after injection—as the most effective and economical approach for plume imaging, supplemented by continuous downhole pressure and flow monitoring. Collectively, the study provides a field-ready framework for cost-effective pressure management and monitoring in support of future CO₂ storage projects.

01 COAL, LIGNITE, AND PEAT↗
DOE OSTI2025

Capability Building Progression of an Insider Threat Mitigation Program at an International Research Reactor

The nuclear industry recognizes the difficulties involved in developing effective managerial and leadership skills in a highly technical and proficient workforce such as that found in nuclear facilities. Implementing an insider threat mitigation program (ITMP) within the nuclear industry is a complex and ongoing process that demands a comprehensive understanding of human behavior, an organization’s security culture, and rigorous regulatory requirements yet also accounts for facility characteristics, physical security, material flow, and activities involving nuclear material. Given the high-consequence nature of research reactor operations, even minor lapses can lead to safety, security, and reputational risks. An effective ITMP requires a defense-in-depth approach that incorporates behavioral analysis, robust vetting procedures, continuous monitoring, and cross-disciplinary coordination. It must also promote a culture of vigilance and accountability at all levels up to and including executive leadership but be flexible enough to adapt to evolving global threats and technological advances. Insider threat mitigation is not a one-time effort but rather a sustained commitment to excellence in safety and security. Establishing a culture in which personnel proactively report incidents and issues that could affect nuclear safety and security is vital to maintaining a safe and secure operational environment. This document was developed to guide senior management and research reactor organizations in creating comprehensive programs to effectively manage and mitigate insider threat behaviors and actions. It focuses on the key pillars of an effective ITMP, including the national legal framework, security culture, preventive and protective measures, cyber security, and performance evaluation. By using a systematic approach during implementation, facilities can foster environments conducive to insider threat detection and support long-term program sustainability. The document also provides strategies for improving communication across all levels of an organization, helping to eliminate barriers that hinder the development of robust ITMPs and enhance overall security culture. In today’s organizations, the concept of leveraging safety and security culture lessons to facilitate knowledge transfer is rapidly evolving to expedite insider threat management and security culture improvements. This document outlines the rationale for evaluating an ITMP based on national customs, culture, and stakeholders. The elements are all germane to reliability and trustworthiness and relate to security concerns that states may encounter. The document focuses not only on individual perceptions regarding security issues and capability building but also on team building and how to resolve concerns. The implementers of a facility’s ITMP may zero in on indicators of insider threats within their enterprise. This material will benefit organizations when it is applied using a systematic and structured approach as demonstrated throughout the document.

98 NUCLEAR DISARMAMENT, SAFEGUARDS, AND PHYSICAL P↗
DOE OSTI2023

Estimating Vadose Zone Flow Properties at the 100 K-East Soil Flushing Site Using ERT Monitoring Data: 2023 Interim Report - 100 KE Soil Property Estimation

In situ soil flushing is being using at the Hanford 100 K-East (100 KE) area to transport mobile chromium contamination in the vadose zone to the water table, where it can be collected and treat through pump and treat operations. The efficacy of soil flushing is directly related to the volume of clean water that infiltrates through contaminated soils. In practice, it is infeasible to comprehensively monitor which regions of the vadose zone are being infiltrated through direct sampling of pore water. Consequently, there can be significant uncertainty about which regions of the subsurface have been treated, especially if hydrogeologic conditions are favorable for the development of unstable flows and preferred flow pathways through the vadose zone (Jarvis, Koestel, and Larsbo 2016). Current approaches for quantitative monitoring of soil flushing performance rely on contaminant concentration measurements collected from extractions wells. There is no quantitative information on the volume of flush water delivered to targeted regions of the vadose zone at the Hanford Site, leading to significant uncertainty regarding source term removal and long-term impacts to groundwater. If the subsurface hydrogeologic properties at the 100 KE Area were adequately known, qualitative metrics of soil flushing performance could be simulated, thereby negating expenses required to obtain quantitative performance information through borehole drilling/sampling. However, estimating in situ hydrogeologic properties has long proven elusive, due primarily to a lack of sufficient information to constrain heterogeneous property estimates to a useful degree of certainty. Estimating vadose zone hydrogeologic properties is particularly challenging due the dependence of hydraulic conductivity on saturation. This report describes progress toward a first-of-its-kind demonstration using surface time-lapse 3D electrical resistivity tomography (ERT) monitoring data to estimate the hydrogeologic properties that control flush water transport at the 100 KE soil flushing site. The ultimate objective is (1) to verify sufficient information exists in the ERT monitoring data to adequately resolve vadose zone hydraulic properties, and (2) generate a “digital twin” (i.e., a numerical simulator) that can be used to simulate the amount of flush water that has been delivered to each targeted region of the vadose zone, and thereby assess the efficacy of flush water delivery. Resulting performance estimates can be used in leu of comprehensive borehole drilling and direct sampling (or wellbore logging) that would otherwise be required to obtain the same information.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2024

Geophysical Imaging of Flow and Transport (GIFT): FY24 Status Report

The GIFT (Geophysical Imaging of Flow and Transport) system will improve predictive capabilities as a platform for collecting multi-physical (MP) time-lapse datasets from well-controlled laboratory experiments. This will enable more accurate prediction of multi-phase fluid flow during delivery and transport of insitu remedial amendments as important components of the overall Hanford Site cleanup mission. Design and construction of the GIFT system, which consists of a meter-scale test cell and a network of custom gas circulation and analysis systems, was accomplished in fiscal year (FY) 2024, with plans to add liquid circulation to the system and use this new capability for multi-phase deep vadose experiments starting in FY25.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2025

Where do the fish go in winter? A year of observing seasonal changes in Sequim Bay’s nearshore fish community

The use of environmental DNA (eDNA) sampling has been proposed as a complementary method to monitor fish species in marine environments. eDNA offers a non-invasive, cost-effective, and scalable way to detect aquatic species. It is appealing in environments where traditional methods are limited by access or visibility, especially in complex or sensitive habitats such as tidal channels and other marine energy sites. Before eDNA can be fully relied upon, we must verify its accuracy against established methods, like underwater photography. In this study, we collected eDNA samples and concurrently deployed a 360-degree camera near the floating dock of PNNL-Sequim in the tidal channel of Sequim Bay once a month for twelve consecutive months. During deployments, the camera remained on the seafloor for several hours overlapping slack tide and captured time-lapse photographs at ten second intervals. Counts and identifications of fish species observed in the images were used to calculate monthly Shannon diversity and Pielou evenness indices. These values were compared across the months using a Kruskal-Wallis test paired with a Conover-Iman post-hoc test. Cliff’s Delta was also calculated to quantify the effect size of the monthly differences. No fish were observed from December through April, likely due to seasonal behavior changes within the local fish community. Fish returned to the shoreline in May, with the greatest diversity and evenness recorded in September. These findings reveal substantial seasonal variation in nearshore fish communities. Many monthly comparisons were found to contain statistically significant differences within the diversity and evenness, and even more were found to have large effect sizes, signifying large ecological changes throughout the seasons. The absence of fish observed during the winter months is a key outcome of this survey that will hopefully be reflected in the eDNA results still to come, which would help validate the eDNA approach.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2019

Microfluidics and Metabolomics Reveal Symbiotic Bacterial–Fungal Interactions Between Mortierella elongata and Burkholderia Include Metabolite Exchange

We identified two poplar ( Populus sp.)-associated microbes, the fungus, Mortierella elongata strain AG77, and the bacterium, Burkholderia strain BT03, that mutually promote each other’s growth. Using culture assays in concert with a novel microfluidic device to generate time-lapse videos, we found growth specific media differing in pH and pre-conditioned by microbial growth led to increased fungal and bacterial growth rates. Coupling microfluidics and comparative metabolomics data results indicated that observed microbial growth stimulation involves metabolic exchange during two ordered events. The first is an emission of fungal metabolites, including organic acids used or modified by bacteria. A second signal of unknown nature is produced by bacteria which increases fungal growth rates. We find this symbiosis is initiated in part by metabolic exchange involving fungal organic acids.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2018

Coordinated Unmanned Aircraft System (UAS) and Ground-Based Weather Measurements to Predict Lagrangian Coherent Structures (LCSs)

Concentrations of airborne chemical and biological agents from a hazardous release are not spread uniformly. Instead, there are regions of higher concentration, in part due to local atmospheric flow conditions which can attract agents. We equipped a ground station and two rotary-wing unmanned aircraft systems (UASs) with ultrasonic anemometers. Flights reported here were conducted 10 to 15 m above ground level (AGL) at the Leach Airfield in the San Luis Valley, Colorado as part of the Lower Atmospheric Process Studies at Elevation—a Remotely-Piloted Aircraft Team Experiment (LAPSE-RATE) campaign in 2018. The ultrasonic anemometers were used to collect simultaneous measurements of wind speed, wind direction, and temperature in a fixed triangle pattern; each sensor was located at one apex of a triangle with ∼100 to 200 m on each side, depending on the experiment. A WRF-LES model was used to determine the wind field across the sampling domain. Data from the ground-based sensors and the two UASs were used to detect attracting regions (also known as Lagrangian Coherent Structures, or LCSs), which have the potential to transport high concentrations of agents. This unique framework for detection of high concentration regions is based on estimates of the horizontal wind gradient tensor. To our knowledge, our work represents the first direct measurement of an LCS indicator in the atmosphere using a team of sensors. Our ultimate goal is to use environmental data from swarms of sensors to drive transport models of hazardous agents that can lead to real-time proper decisions regarding rapid emergency responses. The integration of real-time data from unmanned assets, advanced mathematical techniques for transport analysis, and predictive models can help assist in emergency response decisions in the future.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Hyperspectral Infrared Observations of Arctic Snow, Sea Ice, and Non-Frozen Ocean from the RV Polarstern during the MOSAiC Expedition October 2019 to September 2020

This study highlights hyperspectral infrared observations from the Marine-Atmospheric Emitted Radiance Interferometer (M-AERI) collected as part of the Department of Energy (DOE) Atmospheric Radiation Measurement (ARM) Mobile Facility (AMF) deployment on the icebreaker RV Polarstern during the Multidisciplinary drifting Observatory for the Study of Arctic Climate (MOSAiC) expedition from October 2019 to September 2020. The ARM M-AERI directly measures the infrared radiance emission spectrum between 520 cm –1 and 3000 cm –1 (19.2–3.3 μm) at 0.5 cm –1 spectral resolution. These ship-based observations provide a valuable set of radiance data for the modeling of snow/ice infrared emission as well as validation data for the assessment of satellite soundings. Remote sensing using hyperspectral infrared observations provides valuable information on sea surface properties (skin temperature and infrared emissivity), near-surface air temperature, and temperature lapse rate in the lowest kilometer. Comparison of the M-AERI observations with those from the DOE ARM meteorological tower and downlooking infrared thermometer are generally in good agreement with some notable differences. Operational satellite soundings from the NOAA-20 satellite were also assessed using ARM radiosondes launched from the RV Polarstern and measurements of the infrared snow surface emission from the M-AERI showing reasonable agreement.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2015

Sealable femtoliter chamber arrays for cell-free biology

Cell-free systems provide a flexible platform for probing specific networks of biological reactions isolated from the complex resource sharing (e.g. global gene expression, cell division) encountered within living cells. However, such systems, used in conventional macro-scale bulk reactors, often fail to exhibit the dynamic behaviors and efficiencies characteristic of their living micro-scale counterparts. Understanding the impact of internal cell structure and scale on reaction dynamics is crucial to understanding complex gene networks. Here we report a microfabricated device that confines cell-free reactions in cellular scale volumes while allowing flexible characterization of the enclosed molecular system. This multilayered poly(dimethylsiloxane) (PDMS) device contains femtoliter-scale reaction chambers on an elastomeric membrane which can be actuated (open and closed). When actuated, the chambers confine Cell-Free Protein Synthesis (CFPS) reactions expressing a fluorescent protein, allowing for the visualization of the reaction kinetics over time using time-lapse fluorescent microscopy. Lastly, we demonstrate how this device may be used to measure the noise structure of CFPS reactions in a manner that is directly analogous to those used to characterize cellular systems, thereby enabling the use of noise biology techniques to characterize CFPS gene circuits and their interactions with the cell-free environment.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2017

Assembly and Tracking of Microbial Community Development within a Microwell Array Platform

The development of microbial communities depends on a combination of complex deterministic and stochastic factors that can dramatically alter the spatial distribution and activities of community members. In this study, we have developed a microwell array platform that can be used to rapidly assemble and track thousands of bacterial communities in parallel. This protocol highlights the utility of the platform and describes its use for optically monitoring the development of simple, two-member communities within an ensemble of arrays within the platform. This demonstration uses two mutants of Pseudomonas aeruginosa, part of a series of mutants developed to study Type VI secretion pathogenicity. Chromosomal inserts of either mCherry or GFP genes facilitate the constitutive expression of fluorescent proteins with distinct emission wavelengths that can be used to monitor community member abundance and location within each microwell. This protocol describes a detailed method for assembling mixtures of bacteria into the wells of the array and using time-lapse fluorescence imaging and quantitative image analysis to measure the relative growth of each member population over time. Lastly, the seeding and assembly of the microwell platform, the imaging procedures necessary for the quantitative analysis of microbial communities within the array, and the methods that can be used to reveal interactions between microbial species area all discussed.

59 BASIC BIOLOGICAL SCIENCES↗