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At least 199 records · Page 11

Rapid and robust squashed spore/colony PCR of industrially important fungi

Fungi have been utilized for centuries in medical, agricultural, and industrial applications. Development of systems biology techniques has enabled the design and metabolic engineering of these fungi to produce novel fuels, chemicals, and enzymes from renewable feedstocks. Many genetic tools have been developed for manipulating the genome and creating mutants rapidly. However, screening and confirmation of transformants remain an inefficient step within the design, build, test, and learn cycle in many industrial fungi because extracting fungal genomic DNA is laborious, time-consuming, and involves toxic chemicals. In this study we developed a rapid and robust technique called “Squash-PCR” to break open the spores and release fungal genomic DNA as a template for PCR. The efficacy of Squash-PCR was investigated in eleven different filamentous fungal strains. Clean PCR products with high yields were achieved in all tested fungi. Spore age and type of DNA polymerase did not affect the efficiency of Squash-PCR. However, spore concentration was found to be the crucial factor for Squash-PCR in Aspergillus niger, with the dilution of starting material often resulting in higher PCR product yield. We then further evaluated the applicability of the squashing procedure for nine different yeast strains. We found that Squash-PCR can be used to improve the quality and yield of colony PCR in comparison to direct colony PCR in the tested yeast strains. The developed technique will enhance the efficiency of screening transformants and accelerate genetic engineering in filamentous fungi and yeast.

59 BASIC BIOLOGICAL SCIENCES↗

2023 Risk Management Plan and Register for Low-Power WEC for Non-Grid Applications

This is an updated risk management plan and risk register for the design, build and test of a novel, remote, low-power wave energy converter (WEC) for non-grid applications. This Columbia Power Technologies project seeks to develop a prototype low-power WEC that lowers the total cost of ownership and provides robust, new capabilities for customers in the maritime environment. The testing location for this prototype is the U.S. Navy Wave Energy Test Site (WETS) in Kaneohe Bay, O'ahu, Hawai'i. Detailed in the Risk Management Plan document is a Failure Modes, Effects, and Criticality Analysis (FMEC) that systematically identifies all potential failure modes and their effects on the system. Risk registers for major subsystems were completed according to the methodology described in the Risk Management Plan and are also included here.

16 TIDAL AND WAVE POWER↗

Energy Options Analysis Project (Final Report)

This Bear River Band of Rohnerville Rancheria (BRB) Energy Options Analysis Project provides a rigorous and comprehensive near-term renewable energy implementation plan that aligns with the BRB’s long term strategic vision of “zero net annual utility energy consumption.” Final recommendations were arrived at by following four key project phases:A gas and electricity load assessment was conducted for all existing buildings using historic consumption data, and projected loads of new or anticipated buildings using building designs. A renewable energy resource assessment was conducted that estimated the gross generation potential of solar and wind, constrained to areas that could potentially be developed. Other renewable generation technologies were not considered feasible to meet the loads of the BRB. Demand-side efficiency and fuel switching opportunities were identified that can reduce electrical and gas consumption. These opportunities were not integrated into the load assessment in order to provide a conservative implementation plan, but are recommended to be pursued in order to cost-optimize projects during a feasibility assessment. A strategic vision advisory committee was organized and consulted when iterating on the viability of possible projects. These project phases resulted in finalizing the following three solar PV projects for the near term, which also lay the foundation for a future community-scale or multiple-facility microgrid for added resiliency. Additional solar PV on the hillside south of the Tish-Non Community Center. Solar plus battery storage microgrid at the Pump & Play fuel station. Solar PV at the Casino.

14 SOLAR ENERGY↗

Hotel Room Computational Fluid Dynamics to Investigate Airborne Pathogen Dispersal Patterns

A hotel room unit consisting of a bedroom and bathroom was modelled using computational fluid dynamics (CFD) to investigate airborne pathogen dispersal patterns. The full-scale model includes a ‘typical’ hotel room configuration, furniture, and vents. The air sources and sinks include a bathroom vent, a heating, ventilation, and cooling (HVAC) unit located in the bedroom, and a ½” gap at the bottom of the entry door. In addition, the entry door and window can be opened or closed, as desired. Three key configuration simulations were conducted: 1) both the bathroom vent and HVAC were on, 2) only the HVAC was on, and 3) only the bathroom vent was on. If the HVAC air is from a fresh, clean source, or passes through a high-efficiency filter/UV device, then the first configuration is the safest, as contaminated air is highly reduced. The second configuration is also safe, but does not benefit from the outsourcing of potentially-infected air, such as contaminated air flowing through an ineffective filter. The third configuration should be avoided, as the bathroom vent causes air to flow from the hallway, which can be of dubious origin. The CFD simulations also showed that recirculation and swirling regions tend to accumulate the largest concentrations of heavier airborne particles, pathogens, dust, etc. These regions are associated with the largest turbulence kinetic energy (TKE) , and tend to occur in areas with flow recirculation and corners. Therefore, TKE presents a reasonable metric to guide the strategic location of pathogen mitigation devices. The simulations show complex flow patterns with distinct upper and lower flow regions, swirling flow, and significant levels of turbulent mixing. These simulations provide intriguing insights that can be applied to help mitigate pathogen aerosol dispersal, generate building design guidelines, as well as provide insights for the strategic placement of mitigation devices, such as ultraviolet (UV) light, supplemental fans, and filters.

54 ENVIRONMENTAL SCIENCES↗

Automated Production of Optimization-Based Control Logics for Dynamic Facade Systems, with Experimental Application to Two-Zone External Venetian Blinds

The primary goal of this research is to devise a system that produces controllers for complex fenestration systems that perform nearly as well as Model Predictive Control but at a level of cost and implementation complexity that rivals simple heuristic controls. To this end, a cloud-based automated controller production system has been set up for a motorized external Venetian blind device, with a simple web interface that can be used by non-experts. The computation cost per controller is in the range of a few dollars, and the control logic is simple enough to be implemented on small and cheap distributed controllers. The web interface allows the user to specify some details of their particular building and window configuration, including orientation, latitude, interior geometries, and lighting and HVAC system parameters. Upon submittal, a cloud-based system configures the necessary files and commands, and then runs thousands of optimizations with them. Once the calculations are finished, the system produces a lookup table and interpolation-based controller scripts that can be used on a simple and cheap distributed controller. This paper describes the underlying models and optimization processes. It also describes the resulting control logics for two cases tested at Lawrence Berkeley National Laboratory’s Advanced Windows Testbed Facility: illuminance maximization subject to glare constraints; and lighting + HVAC energy minimization. The performance of the model-based controllers produced by the automated web-based system are compared to a heuristic ‘block beam’ controller in physical experiments at the Testbed. The experimental results are supplemented by simulation experiments with the same configuration as the Testbed. The results show the illuminance maximizing controller significantly outperforms the heuristic controller in terms of glare avoidance, and also outperforms it in terms of hours of daylight autonomy. The energy minimizing controller also outperforms the heuristic controller. This paper also discusses how the web-based system may be extended to consider other configurations, such as electrochromic windows and thermally massive HVAC systems. Potential roles for this type of system within the building design and construction industry are discussed.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Medium Voltage Integrated Drive and Motor

The objective of this program was to design, build, and test a medium voltage (4,160VAC) high speed permanent magnet machine (HSPMM) and variable speed drive (VSD) that incorporates next generation 10kV silicon carbide (SiC) modules. The use of a HSPMM allows for high efficiency, small footprint, maintenance free operation while the SiC modules enable higher voltage operating conditions, improved efficiency, and small footprint.

30 DIRECT ENERGY CONVERSION↗

Schema Elements for Granta Annual Report: FY2022

Granta: Materials Intelligence, also known as Granta:MI or Granta, is a commercial database software by Ansys, Inc. that is utilized by the Nuclear Security Enterprise (NSE) to organize and store relevant materials data. For a complete discussion of the use of Granta:MI at NSE sites, see the FY21 annual report. Granta:MI is used by five NSE sites locally, and all NSE sites have access to an enterprise instance on the Enterprise Secure Network (ESN) as well as an unclassified development instance. It has been recognized by NNSA management that a shared repository for additive manufacturing (AM) data would not only ensure data and knowledge is not lost but would provide a pool of information relating AM inputs (build parameters, raw materials properties, post-processing information) to the as-built properties of AM parts. Such a pool of data would enable optimization of AM build design and help NNSA achieve the goals of shortening fielding times for new components.

36 MATERIALS SCIENCE↗

Snowmass Early Career

The Snowmass 2021 strategic planning process provided an essential opportunity for the United States high energy physics and astroparticle (HEPA) community to come together and discuss upcoming physics goals and experiments. As this forward-looking perspective on the field often reaches far enough into the future to surpass the timescale of a single career, consideration of the next generation of physicists is crucial. The 2021 Snowmass Early Career (SEC) organization aimed to unite this group, with the purpose of both educating the newest generation of physicists while informing the senior generation of their interests and opinions. SEC is the latest in a series of the previously dubbed "Snowmass Young" organizations, from 2013 and 2001. This iteration has expanded on these efforts to significantly increase involvement and broaden the representation of the early career community in the process. Early career physicists are the future of the field. They will design, build, and operate next-generation experiments, and put in the work to usher in new discoveries. They are also disproportionately involved in work to improve the climate within HEPA. This document summarizes the work of SEC in consolidating a huge variety of physics perspectives and community opinions towards a bright, strategic future.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Advanced Collision Detection and Site Monitoring for Avian and Bat Species for Offshore Wind Energy (Final Technical Report)

This final technical report summarizes the outcomes from a project that aimed to design, build, and test a persistent and autonomous monitoring system for avian and bat collisions with offshore wind turbines blades and structures. The system comprises four primary sensor modules: 1) on-blade sensor modules for collision detection and dual-vision image capture on each blade with both visible light and near-infrared imagers; 2) additional on-blade collision sensors mounted further from the root; 3) a nacelle-mounted unit including a 360º camera and ultrasonic microphone array; and, 4) an on-blade, high-performance infrared camera module. Primary targeted outcomes were high sensitivity for the detection of blade strikes from bats and small birds, and automatically captured visual confirmation of the striking object; these features are critical for monitoring offshore wind turbine installations, where ground-based methods are not viable. In addition, local recording will provide a long-term sensor recording database. Following laboratory validation, field testing was conducted on an operational wind turbine in collaboration with the National Wind Technology Center at the NREL Flatirons campus over two planned field tests.

17 WIND ENERGY↗

Geopolymer Cements: Resistance-Engineered Sewer Infrastructure for Longevity using Innovative, Energy-efficient, Synthesis Techniques (RESILIENT)

The primary objective of this project was to engineer an ultra-acid-resistant low-calcium alkali-activated cement paste for wastewater infrastructure applications to address the critical need for concrete materials with enhanced sulfuric acid resistance compared to ordinary Portland cement (OPC) concrete. In this project, the first milestone was to benchmark the sulfuric acid (SA) resistance of OPC and metakaolin-based geopolymer cement pastes. The second milestone was to model, select, and evaluate the efficacy of metal cation additions on the SA resistance of geopolymer cements. The third milestone was to create synthetic metakaolin that performed similarly to natural metakaolin. The fourth milestone was to design, build, and test the efficacy of four abiotic and biotic nano seeding agents. The fifth and final milestone was to quantify the breakeven material cost requirements and estimated environmental lifecycle costs of the most durable geopolymer cement formulations.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Pulsed High Temperature Superconducting Central Solenoid Model Coil for Plasma Current Drive and Control in High-Field Compact Commercial Fusion Power Plants (CRADA Final Report)

This ARPA-E BETHE project was aimed to design, build and test a fast-ramping HighTemperature Superconducting (HTS) Central Solenoid Model Coil (CSMC) that significantly derisks a full-size HTS Central Solenoid (CS) capable of driving and controlling the plasma current in a compact, high-field, low-cost tokamak power plant. The LBNL objectives and milestones for this project were divided into two distinct tracts: Diagnostics and Quench Simulation.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Tracking Aerosol Convection Interactions Experiment (TRACER) Field Campaign Report

Convective clouds serve a critical role in the Earth’s energy and water cycles through their transport of heat, moisture, momentum, and chemical species through the troposphere driving the global circulation (e.g., Hartmann et al. 1984, Del Genio et al. 2012, Su et al. 2014). On more local scales, convective clouds impact the atmospheric heating profile through diabatic heating effects, removal of water from the atmospheric column through precipitation, and conditioning of the local environment impacting further development of clouds (e.g., Sullivan and Voigt 2021). These critical roles underscore the importance of realistic representation of convective processes across scales of models from large-eddy simulation (LES), to convection-permitting models (CPM; e.g., Kendon et al. 2020, Marinescu et al. 2021), to numerical weather prediction (NWP) models used for operational weather forecasting, to Earth system models used to predict climate sensitivity (Sanderson et al. 2011, Sherwood et al. 2014, Tomassini et al. 2014, Zhao et al. 2016, Cronin et al. 2017). A key component of improving model representation of convective clouds is better quantification and parameterization of updraft microphysics and dynamics, including their interactions with the surrounding environment and storm organization (Bony et al. 2015, Hagos and Houze 2016, Donner et al. 2016, Morrison et al. 2020). Aerosol is an important environmental factor that could affect convective clouds and precipitation since cloud droplet and ice formation processes are initiated by it. Andrae et al. (2004) hypothesized that aerosols associated with increased biomass burning particles acting as cloud condensation nuclei (CCN) result in smaller and more monodisperse cloud droplets leading to suppression of warm rain formation, ultimately leading to more cloud water being lofted above the freezing level based on observations in the Amazon region. The subsequent increase in latent heat release increases the buoyancy of rising convective parcels invigorating the deep convection. This work was followed by a description of the theoretical basis for this “cold-phase invigoration” by Rosenfeld et al. (2008), who argued that it could have a significant effect for deep convective clouds with warm cloud-bases. Several modeling studies (e.g., Khain et al. 2005, 2009, van den Heever et al. 2006, Fan et al. 2007, 2009, 2012, Lee et al. 2008, Storer et al. 2010, Lebo et al. 2012, Storer and van den Heever 2013, Chen et al. 2020, Dagan et al. 2022) have investigated these aerosol-convection interactions and the environmental factors that influence their relative importance and magnitude. More recently, several studies have indicated that “warm-phase invigoration”, the enhancement of convection through condensational heating, also appears to play a role in enhancing both shallow cumuli (Seiki and Nakajima 2014, Saleeby et al 2015) and deeper tropical convection (Lebo and Seinfeld 2011, Khain et al. 2012, Sheffield et al 2015, Fan et al. 2018, Igel and van den Heever 2021), as well as Houston thunderstorms (Fan et al. 2007, 2020). However, still other studies have provided additional evidence of systematic biases in simulated convective outflow ice size distribution properties, which are consistent with a lack of poorly understood secondary ice production within convective updrafts (e.g., Fridlind et al. 2017). To help address these critical gaps in our understanding of cloud processes, aerosol processes and aerosol-cloud interactions, the Tracking Aerosol Convection Interactions Experiment was designed building upon efforts by the Aerosol, Cloud, Precipitation and Climate (ACPC) Initiative (http://acpcintiative.org/), a joint effort of the International Geosphere-Biosphere Programme (IGBP) and the World Climate Research Program (WCRP) that focused on resolving uncertainties in the interactions between aerosol and clouds towards better understanding the role that these interactions play in the climate system. The TRACER campaign was motivated by recommendations from a number of pilot studies undertaken by ACPC (van den Heever et al. 2017, Fridlind et al. 2019, Hu et al. 2019, Fan et al. 2020, Marinescu et al. 2021, Hernandez-Deckers et al. 2022) that pointed towards the southeastern Texas region as a locale where aerosol-convection interactions could be studied owing to the copious occurrence of isolated convection during the summer months accompanied by diverse and significant sources of aerosols from both anthropogenic and natural sources. The TRACER campaign began on 01 October 2021 and extended through 30 September 2022 with an intensive operational period (IOP) during June-September 2022. Three main sites (Table 1) were managed by the U.S. Department of Energy (DOE) Atmospheric Radiation Measurement (ARM) user facility.

54 ENVIRONMENTAL SCIENCES↗

Advanced Algal Biofoundries for the Production of Polyurethane Precursors

The primary goal of the BEEPs project was to develop a process that could accelerate the development of algae as bioproduction platforms, from initial chemical product concept to an economically viable market supply. Under this program we elected to develop strains of algae that could generate polyurethane precursors, while simultaneously developing basic genetic tools to enable improved algal production systems. This program was specifically designed to incorporate National Laboratories as a means to utilize the expertise and facilities for new bio-production platforms. To that end, we designed a program to collaborate with the Agile BioFoundry at Lawrence Berkeley National Laboratory (LBNL) and computational platforms at Pacific Northwest National Laboratory (PNNL). In addition to these National Laboratory partners, we also had academic partners from UC Davis and Georgia Tech, as well as commercial partners Algenesis Materials and BASF. To achieve these goals, we initially focused on developing the genetic tools and high throughput screening technologies necessary to generate and assess production of polymer precursors (succinic acid) in algae and cyanobacteria, including advanced promoters and biosensors. In parallel, we computationally identified potential production bottlenecks and then used the developed genetic tools to increase production rates and yields. Constant feedback of data was used in conjunction with machine learning, high-throughput cell sorting, and synthetic biology, for additional targeted metabolic engineering. Multiple rounds of tool design, building, testing, and learning were supplied to partners at PNNL and LBNL to develop new models and tools that could expedite bioproduction platform development and increase yield performance. We targeted, and achieved, the FOA requirement yield metric of 20 g/L, as a milestone and deliverable from at least one of our engineered strains for the production of succinic acid.

09 BIOMASS FUELS↗

High-throughput chemical imaging for optimizing biofuel synthesis using synthetic biology (Final Technical Report)

Fatty acids can be produced biosynthetically in microbes and these compounds can serve as precursors to biodiesels and other high value oleochemicals. However, progress on engineering fatty acid biosynthesis, and biofuel synthesis more generally, has been hindered by current quantification methods that are either indirect or not amenable to high-throughput or single-cell resolution screening. In this project, we assembled an interdisciplinary team with complimentary expertise in synthetic biology and microscopy, metabolic engineering, and chemical imaging to address these challenges. We used chemical imaging to directly measure lipid biosynthesis in Escherichia coli engineered to produce fatty acids, obtaining detailed single-cell resolution measurements. We deployed stimulated Raman scattering (SRS) microscopy in concert with multiplexed genome engineering and gene circuit design strategies from synthetic biology to optimize production of fatty acids. These results provided novel insight into cell-to-cell heterogeneity present in biofuel production strains. In addition, we introduced new chemical imaging methods which are label-free and do not require fluorescent reporters. These efforts were complemented by other studied developing foundational tools for regulation and control, which offer excellent potential for advancing researchers’ ability to rapidly design, build, and test strains for enhanced biofuel synthesis.

09 BIOMASS FUELS↗

Accelerating polyketide synthase engineering for high TRY production of biofuels and bioproducts (Final Technical Report)

Polyketide synthase (PKS) enzymes have a modular, deterministic logic that holds the potential to act as a flexible chemical factory for the biological production of a huge diversity of valuable small molecule compounds. However, engineering a custom PKS to produce a specific desired product currently requires years of trial and error, for reasons that remain poorly understood. In this project, we have developed a rapid, high throughput, Design-Build-Test-Learn (DBTL) cycle for polyketide synthases (PKSs) and demonstrate its utility for production of materials precursors. The objectives are 1) to develop a rapid, high-throughput (HT) DBTL cycle for PKSs that will enable production of a large number of unnatural, organic molecules on demand at high titer, rate, and yield (TRY); 2) to demonstrate the utility of the PKS DBTL cycle to produce three molecules: one commodity chemical (caprolactam or valerolactam) and two novel materials precursors (caprolactam or valerolactam derivatives); and 3) to demonstrate the utility of the PKS DBTL cycle to increase the TRY of one molecule (caprolactam or valerolactam). In this project, we have successfully demonstrated our high throughput PKS DBTL pipeline, and have biologically produced valerolactam and several other novel nylon monomers.

60 APPLIED LIFE SCIENCES↗

Accelerating Engineered Microbe Optimization through Machine Learning and Multi-Omics Datasets [Abstract]

The Agile Biofoundry (ABF) is a multi-national lab consortium funded by the DOE Bioenergy Technologies Office that has developed a biofoundry enabling the rapid deployment of bioproducts into the market. The ABF is a flexible platform that can adjust to the needs of numerous government, academic and industrial partners, thus enabling them to rapidly develop and optimize the production of a wide range of bioproducts. To demonstrate this capability, three ABF labs (NTESS, LBNL, and PNNL) have collaborated with the biomanufacturer Lygos, Inc. to use the ABF to demonstrate a high-throughput Design-Build-Test-Learn (DBTL) engineering cycle incorporating multi-omics analysis and machine learning with best in industry cycle times.

60 APPLIED LIFE SCIENCES↗

Accelerating polyketide synthase engineering for high TRY production of biofuels and bioproducts (CRADA Final Report)

Polyketide synthase (PKS) enzymes have a modular, deterministic logic that holds the potential to act as a flexible chemical factory for the biological production of a huge diversity of valuable small molecule compounds. However, engineering a custom PKS to produce a specific desired product currently requires years of trial and error, for reasons that remain poorly understood. In this project, we have developed a rapid, high throughput, Design-Build-Test-Learn (DBTL) cycle for polyketide synthases (PKSs) and demonstrate its utility for production of materials precursors. The objectives are 1) to develop a rapid, high-throughput (HT) DBTL cycle for PKSs that will enable production of a large number of unnatural, organic molecules on demand at high titer, rate, and yield (TRY); 2) to demonstrate the utility of the PKS DBTL cycle to produce three molecules: one commodity chemical (caprolactam or valerolactam) and two novel materials precursors (caprolactam or valerolactam derivatives); and 3) to demonstrate the utility of the PKS DBTL cycle to increase the TRY of one molecule (caprolactam or valerolactam). In this project, we have successfully demonstrated our high throughput PKS DBTL pipeline, and have biologically produced valerolactam and several other novel nylon monomers.

09 BIOMASS FUELS↗