Combinatorial pathway engineering using type I-E CRISPR interference
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Biotechnology & Applied Microbiology↗
SEARCH · Engineering Papers
Results for “Strain engineering”
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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Optogenetics and biosensors set the stage for metabolic cybergenetics
We report cybergenetic systems use computer interfaces to enable feed-back controls over biological processes in real time. The complex and dynamic nature of cellular metabolism makes cybergenetics attractive for controlling engineered metabolic pathways in microbial fermentations. Cybergenetics would not only create new avenues of research into cellular metabolism, it would also enable unprecedented strategies for pathway optimization and bioreactor operation and automation. Implementation of metabolic cybergenetics, however, will require new capabilities from actuators, biosensors, and control algorithms. The recent application of optogenetics in metabolic engineering, the expanding role of genetically encoded biosensors in strain development, and continued progress in control algorithms for biological processes suggest that this technology will become available in the not so distant future.
59 BASIC BIOLOGICAL SCIENCES↗
Distributed fiber optic strain sensing of bending deformation of a well mockup in the laboratory
Well integrity is critical to the safety and success of subsurface energy exploration and management, as leakage of fluids from subsurface reservoirs is often induced by compromised wells. This study investigates bending deformation of a mockup of an oil/gas well that is subjected to loads expected in deviated wells under reservoir compaction and assesses the feasibility of utilizing distributed fiber optic strain sensing to monitor the deformation. Here, a well mockup, which consists of outer and inner steel pipes with a cemented annulus, is tested under three-point bending loading and its strain and curvature development is monitored by Brillouin optical time domain reflectometry/analysis (BOTDR/A) as well as optical frequency domain reflectometry (OFDR). The primary objective of this research is to assess the strain sensing performance of newly fabricated fiber optic cables and to identify key cable characteristics which could improve the quality of distributed strain measurements with BOTDR/A. Results show that the tight-buffered cable is best suited for strain sensing as its maximum errors in the strain measurement were -36% and -24% against conventional sensors at the maximum elastic and plastic bending loads, respectively, whereas those of the non-tight-buffered cable were -45% and -71%, respectively. Similar trends were obtained in the bending curvature measurement. The detailed design of the tight-buffered cable is presented to elucidate key characteristics of such a cable, which will facilitate accurate distributed strain sensing in oil and gas wells.
42 ENGINEERING↗
Industrial brewing yeast engineered for the production of primary flavor determinants in hopped beer
Flowers of the hop plant provide both bitterness and "hoppy" flavor to beer. Hops are, however, both a water and energy intensive crop and vary considerably in essential oil content, making it challenging to achieve a consistent hoppy taste in beer. Here, we report that brewer's yeast can be engineered to biosynthesize aromatic monoterpene molecules that impart hoppy flavor to beer by incorporating recombinant DNA derived from yeast, mint, and basil. Whereas metabolic engineering of biosynthetic pathways is commonly enlisted to maximize product titers, tuning expression of pathway enzymes to affect target production levels of multiple commercially important metabolites without major collateral metabolic changes represents a unique challenge. By applying state-of-the-art engineering techniques and a framework to guide iterative improvement, strains are generated with target performance characteristics. Finally, beers produced using these strains are perceived as hoppier than traditionally hopped beers by a sensory panel in a double-blind tasting.
59 BASIC BIOLOGICAL SCIENCES↗
Optimal Ge/SiGe nanofin geometries for hole mobility enhancement: Technology limit from atomic simulations
We use first principles simulations to engineer Ge nanofins for maximum hole mobility by controlling strain tri-axially through nano-patterning. Large-scale molecular dynamics predict fully relaxed, atomic structures for experimentally achievable nanofins, and orthogonal tight binding is used to obtain the corresponding electronic structure. Hole transport properties are then obtained via a linearized Boltzmann formalism. This approach explicitly accounts for free surfaces and associated strain relaxation as well as strain gradients which are critical for quantitative predictions in nanoscale structures. We show that the transverse strain relaxation resulting from the reduction in the aspect ratio of the fins leads to a significant enhancement in phonon limited hole mobility (7× over unstrained, bulk Ge, and 3.5× over biaxially strained Ge). Maximum enhancement is achieved by reducing the width to be approximately 1.5 times the height and further reduction in width does not result in additional gains. These results indicate significant room for improvement over current-generation Ge nanofins, provide geometrical guidelines to design optimized geometries and insight into the physics behind the significant mobility enhancement.
71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
Phototaxis in a wild isolate of the cyanobacterium Synechococcus elongatus
Many cyanobacteria, which use light as an energy source via photosynthesis, have evolved the ability to guide their movement toward or away from a light source. This process, termed “phototaxis,” enables organisms to localize in optimal light environments for improved growth and fitness. Mechanisms of phototaxis have been studied in the coccoid cyanobacterium Synechocystis sp. strain PCC 6803, but the rod-shaped Synechococcus elongatus PCC 7942, studied for circadian rhythms and metabolic engineering, has no phototactic motility. In this study we report a recent environmental isolate of S. elongatus , the strain UTEX 3055, whose genome is 98.5% identical to that of PCC 7942 but which is motile and phototactic. A six-gene operon encoding chemotaxis-like proteins was confirmed to be involved in phototaxis. Environmental light signals are perceived by a cyanobacteriochrome, PixJ Se (Synpcc7942_0858), which carries five GAF domains that are responsive to blue/green light and resemble those of PixJ from Synechocystis . Furthermore, plate-based phototaxis assays indicate that UTEX 3055 uses PixJ Se to sense blue and green light. Mutation of conserved functional cysteine residues in different GAF domains indicates that PixJ Se controls both positive and negative phototaxis, in contrast to the multiple proteins that are employed for implementing bidirectional phototaxis in Synechocystis .
59 BASIC BIOLOGICAL SCIENCES↗
Domain nucleation across the metal-insulator transition of self-strained V 2 O 3 films
Bulk V 2 O 3 features concomitant metal-insulator (MIT) and structural (SPT) phase transitions at T C ~ 160 K. In thin films, where the substrate clamping can impose geometrical restrictions on the SPT, the epitaxial relation between the V 2 O 3 film and substrate can have a profound effect on the MIT. Here we present a detailed characterization of domain nucleation and growth across the MIT in (001)-oriented V 2 O 3 films grown on sapphire. By combining scanning electron transmission microscopy (STEM) and photoelectron emission microscopy (PEEM), we imaged the MIT with planar and vertical resolution. We observed that upon cooling, insulating domains nucleate at the top of the film, where strain is lowest, and expand downwards and laterally. This growth is arrested at a critical thickness of 50 nm from the substrate interface, leaving a persistent bottom metallic layer. As a result, the MIT cannot take place in the interior of films below this critical thickness. However, PEEM measurements revealed that insulating domains can still form on a very thin superficial layer at the top interface. Our results demonstrate the intricate spatial complexity of the MIT in clamped V 2 O 3 , especially the strain-induced large variations along the c axis. Finally, engineering the thickness-dependent MIT can provide an unconventional way to build out-of-plane geometry devices by using the persistent bottom metal layer as a native electrode.
75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
Effects of the foil flatness on the stress-strain characteristics of U10Mo alloy based monolithic mini-plates
The effects of the foil flatness on stress-strain behavior of monolithic fuel mini-plates during fabrication and irradiation were studied. Monolithic plate-type fuels are a new fuel form being developed for research and test reactors to achieve higher uranium densities. This concept facilitates the use of low-enriched uranium fuel in the reactor. These fuel elements are comprised of a high density, low enrichment, U–Mo alloy based fuel foil encapsulated in a cladding material made of Aluminum. To evaluate the effects of the foil flatness on the stress-strain behavior of the plates during fabrication, irradiation and shutdown stages, a representative plate from RERTR-12 experiments (Plate L1P756) was considered. Both fabrication and irradiation processes of the plate were simulated by using actual irradiation parameters. The simulations were repeated for various foil curvatures to observe the effects of the foil flatness on the peak stress and strain magnitudes of the fuel elements. Results of fabrication simulations revealed that the flatness of the foil does not have a considerable impact on the post fabrication stress-strain fields. Furthermore, the irradiation simulations indicated that any post-fabrication stresses in the foil would be relieved relatively fast in the reactor. While, the perfectly flat foil provided the slightly better mechanical performance, overall difference between the flat-foil case and curved-foil case was not significant. Even though the peak stresses are less affected, the foil curvature has several implications on the strain magnitudes in the cladding. It was observed that with an increasing foil curvature, there is a slight increase in the cladding strains.
42 ENGINEERING↗
Draft Genome Sequence of Methylomicrobium buryatense Strain 5G, a Haloalkaline-Tolerant Methanotrophic Bacterium
Robust growth of the gammaproteobacterium Methylomicrobium buryatense strain 5G on methane makes it an attractive system for CH 4 -based biocatalysis. Here we present a draft genome sequence of the strain that will provide a valuable framework for metabolic engineering of the core pathways for the production of valuable chemicals from methane.
59 BASIC BIOLOGICAL SCIENCES↗
Report on Aging and Irradiation Theoretical Model Development for Alloy 690 in Grizzly
This report describes the current efforts to implement a model to predict the engineering scale behavior of irradiated and aged Ni 2 Cr model alloy and Alloy 690 into the Grizzly software. Grizzly is a multiphysics simulation code under development at Idaho National Laboratory to simulate aging mechanisms and their effects on the integrity of critical LWR components. Engineering scale behavior of materials are strongly impacted by the underlying microstructure: the distribution and interaction of dislocations and defects within the individual grains dictates how the material will respond to loading. The evolution of these dislocations and defects determines how the engineering scale material will perform under different loading and environmental conditions. Mesoscale models can function as a bridge to connect microstructure evolution models to engineering models of the ductile-brittle transition temperature (DBTT) curve and fracture. The toughness of a material, which governs the engineering scale fracture behavior, is a function of both elastic deformation and plastic deformation. While the yield stress measurements capture the elastic contribution to a material’s toughness, information about the dislocation movement is required to understand the plastic component of toughness. Crystal plasticity models predict dislocation density evolution and thereby connect microstructure evolution to engineering scale behavior predictions. These models calculate the plastic strain within a metal as a function of dislocations and other crystal defects, including precipitates and interstitial loops, among others, by tracking dislocation movement and the interaction of these dislocations with the crystal defects. Within NiCr alloys, long-range ordered (LRO) precipitates form under aging conditions. These precipitates act as barriers to dislocation motion and are either sheared by dislocations or pin dislocations. Additional defects, such as stacking fault tetrahedra (SFTs) from irradiation damage, also impede dislocation motion in these alloys. A crystal plasticity mode for Ni 2 Cr model alloy and Alloy 690 is being currently implemented in the Grizzly code at INL. This report includes a description of the theoretical models incorporated into the Grizzly crystal plasticity code. These theoretical models include mechanisms for dislocation glade and twinning as well as dislocation-defect interaction relationship for both LRO precipitates and SFTs. We have selected these dislocation models based on the deformation mechanisms observed in experimental micropillar compression tests conducted on the Ni 2 Cr model alloy. The models are then extended to Alloy 690 with ongoing parameter fitting.
36 MATERIALS SCIENCE↗
KBase Narrative - Methylobacterium fujisawaense Strain C14 Genomic Sequence
Methylobacterium fujisawaense strain C14 was isolated from a weathered concrete cylinder. Using PacBio sequencing, a high-quality genome secquence was generated for strain C14 to facilitate the development genetic tools for engineering of microorganisms inhabiting concrete.
Kiledal, E. Anders↗
HOST structural analysis program overview
Hot-section components of aircraft gas turbine engines are subjected to severe thermal structural loading conditions, especially during the startup and takeoff portions of the engine cycle. The most severe and damaging stresses and strains are those induced by the steep thermal gradients induced during the startup transient. These transient stresses and strains are also the most difficult to predict, in part because the temperature gradients and distributions are not well known or readily predictable and, in part, because the cyclic elastic-viscoplastic behavior of the materials at these extremes of temperature and strain are not well known or readily predictable. A broad spectrum of structures related technology programs is underway to address these deficiencies at the basic as well as the applied level. The three key program elements in the HOST structural analysis program are computations, constitutive modeling, and experiments for each research activity. Also shown are tables summarizing each of the activities.
Thompson, Robert L.↗
Pd/Cr Strain Gauges For High Temperatures
Temperature-compensated Pd/Cr electrical-resistance strain gauges measure static strains in combustors, blades, and vanes of gas turbine engines. Made of alloy of 87 weight percent Pd and 13 weight percent Cr. Microstructure highly stable; undergoes no transformation of phase between ambient temperature and 1,000 degrees C. Gives highly repeatable readings with low drift at temperatures from ambient to 600 degrees C.
Lei, Jih-Fen↗
Computation and modeling of aero-thermal fields in turbine cascades and strongly curved ducts
Advanced turbulence models are crucial for accurate prediction of rocket engine flows, due to existence of very large extra strain rates, such as strong streamline curvature. Numerical simulation of the turbulent flow in a strongly curved turn-around duct (TAD) has been carried out with a Reynolds stress model (RSM), an algebraic Reynolds stress model (ARSM) and a kappa-epsilon model. the RSM model and the ARSM model are found to capture the turbulence damping due to the convex curvature, but underpredict the turbulence enhancement caused by the concave curvature. To capture the concave curvature effects, it is necessary to modify the epsilon-equation. The modification of episilon-equation suggested by Launder, et.al, provides the correct trend, but over-corrects the curvature effects. A comparative study of two modes of transition in gas turbine, the by-pass transition and the separation-induced transition, has been carried out with several low-Reynolds-number (LRN) kappa-epsilon models. Effects of blade surface pressure gradient, freestream turbulence and Reynolds number on the blade boundary layer development, and particularly the inception of transition are examined in detail. The present study indicates that the turbine blade transition, in the presence of high freestream turbulence, is predicted well with LRN kappa-epsilon models employed.
Luo, J.↗
Turbulence Modeling and Computation of Turbine Aerodynamics and Heat Transfer
The objective of the present research is to develop improved turbulence models for the computation of complex flows through turbomachinery passages, including the effects of streamline curvature, heat transfer and secondary flows. Advanced turbulence models are crucial for accurate prediction of rocket engine flows, due to existance of very large extra strain rates, such as strong streamline curvature. Numerical simulation of the turbulent flows in strongly curved ducts, including two 180-deg ducts, one 90-deg duct and a strongly concave curved turbulent boundary layer have been carried out with Reynolds stress models (RSM) and algebraic Reynolds stress models (ARSM). An improved near-wall pressure-strain correlation has been developed for capturing the anisotropy of turbulence in the concave region. A comparative study of two modes of transition in gas turbine, the by-pass transition and the separation-induced transition, has been carried out with several representative low-Reynolds number (LRN) k-epsilon models. Effects of blade surface pressure gradient, freestream turbulence and Reynolds number on the blade boundary layer development, and particularly the inception of transition are examined in detail. The present study indicates that the turbine blade transition, in the presence of high freestream turbulence, is predicted well with LRN k-epsilon models employed. The three-dimensional Navier-Stokes procedure developed by the present authors has been used to compute the three-dimensional viscous flow through the turbine nozzle passage of a single stage turbine. A low Reynolds number k-epsilon model and a zonal k-epsilon/ARSM (algebraic Reynolds stress model) are utilized for turbulence closure. An assessment of the performance of the turbulence models has been carried out. The two models are found to provide similar predictions for the mean flow parameters, although slight improvement in the prediction of some secondary flow quantities has been obtained by the ARSM model. It's found that the wake profiles inside the endwall boundary layers are predicted better than those near the mid-span.
Lakshminarayana, B.↗
Advanced Subsonic Technology (AST) Area of Interest (AOI) 6: Develop and Validate Aeroelastic Codes for Turbomachinery
AlliedSignal Engines, in cooperation with NASA GRC (National Aeronautics and Space Administration Glenn Research Center), completed an evaluation of recently-developed aeroelastic computer codes using test cases from the AlliedSignal Engines fan blisk and turbine databases. Test data included strain gage, performance, and steady-state pressure information obtained for conditions where synchronous or flutter vibratory conditions were found to occur. Aeroelastic codes evaluated included quasi 3-D UNSFLO (MIT Developed/AE Modified, Quasi 3-D Aeroelastic Computer Code), 2-D FREPS (NASA-Developed Forced Response Prediction System Aeroelastic Computer Code), and 3-D TURBO-AE (NASA/Mississippi State University Developed 3-D Aeroelastic Computer Code). Unsteady pressure predictions for the turbine test case were used to evaluate the forced response prediction capabilities of each of the three aeroelastic codes. Additionally, one of the fan flutter cases was evaluated using TURBO-AE. The UNSFLO and FREPS evaluation predictions showed good agreement with the experimental test data trends, but quantitative improvements are needed. UNSFLO over-predicted turbine blade response reductions, while FREPS under-predicted them. The inviscid TURBO-AE turbine analysis predicted no discernible blade response reduction, indicating the necessity of including viscous effects for this test case. For the TURBO-AE fan blisk test case, significant effort was expended getting the viscous version of the code to give converged steady flow solutions for the transonic flow conditions. Once converged, the steady solutions provided an excellent match with test data and the calibrated DAWES (AlliedSignal 3-D Viscous Steady Flow CFD Solver). However, efforts expended establishing quality steady-state solutions prevented exercising the unsteady portion of the TURBO-AE code during the present program. AlliedSignal recommends that unsteady pressure measurement data be obtained for both test cases examined for use in aeroelastic code validation.
Gardner, Kevin D.↗
Neutronic engine
An internal combustion engine for neutron diffraction analysis is provided. The engine includes an elongated piston chamber formed from an aluminum alloy to ensure maximum neutron visibility into the combustion chamber. An elongated piston assembly reciprocates within the elongated piston chamber, the piston assembly including an upper piston joined to a lower piston. The upper piston and the lower piston are hollow, thereby reducing the reciprocating mass and increasing neutron access to the combustion chamber. The upper piston is lubricated with a neutron-transparent fluorocarbon lubricant such as perfluoropolyether (PFPE), while the lower piston and the crankcase are lubricated with hydrocarbon lubricant. The engine enables 3D and time-resolved measurements of strain, stress, and temperature, as well as phase transformation, texture, and microstructure.
Wissink, Martin L.↗
Assessment of the Resistance to Uranium (VI) Exposure by Arthrobacter sp. Isolated from Hanford Site Soil
Production of nuclear fuel has resulted in hazardous waste streams that have contaminated the soil and groundwater. Arthrobacter strains, G975, G968, andG954 were used in the prescreening tests to evaluate their tolerance to UO22+ and investigate bacteria-U(VI) interactions under oxidizing pH-neutral conditions. Experiments have shown G975 is the fastest growing and the most uranium tolerant strain that removed about 90% of uranium from growth media. Atomic Force Microscopy images exhibited an irregular surface structure, which perhaps provided a larger surface area for uranium precipitation. The data indicate that aerobic heterotrophic bacteria may offer a solution to sequestering uranium in oxic conditions, which prevail in the vadose zone.
42 ENGINEERING↗