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At least 757 records · Page 42

Integration of Yeast Episomal/Integrative Plasmid Causes Genotypic and Phenotypic Diversity and Improved Sesquiterpene Production in Metabolically Engineered Saccharomyces cerevisiae

The variability in phenotypic outcomes among biological replicates in engineered microbial factories presents a captivating mystery. Establishing the association between phenotypic variability and genetic drivers is important to solve this intricate puzzle. Here, we applied a previously developed auxin-inducible depletion of hexokinase 2 as a metabolic engineering strategy for improved nerolidol production in Saccharomyces cerevisiae, and biological replicates exhibit a dichotomy in nerolidol production of either 3.5 or 2.5 g L –1 nerolidol. Harnessing Oxford Nanopore’s long-read genomic sequencing, we reveal a potential genetic cause—the chromosome integration of a 2μ sequence-based yeast episomal plasmid, encoding the expression cassettes for nerolidol synthetic enzymes. This finding was reinforced through chromosome integration revalidation, engineering nerolidol and valencene production strains, and generating a diverse pool of yeast clones, each uniquely fingerprinted by gene copy numbers, plasmid integrations, other genomic rearrangements, protein expression levels, growth rate, and target product productivities. Τhe best clone in two strains produced 3.5 g L –1 nerolidol and ~0.96 g L –1 valencene. Comparable genotypic and phenotypic variations were also generated through the integration of a yeast integrative plasmid lacking 2μ sequences. Our work shows that multiple factors, including plasmid integration status, subchromosomal location, gene copy number, sesquiterpene synthase expression level, and genome rearrangement, together play a complicated determinant role on the productivities of sesquiterpene product. Integration of yeast episomal/integrative plasmids may be used as a versatile method for increasing the diversity and optimizing the efficiency of yeast cell factories, thereby uncovering metabolic control mechanisms.

59 BASIC BIOLOGICAL SCIENCES↗

Tripartite interactions among free-living, N-fixing bacteria, arbuscular mycorrhizal fungi, and plants: Mutualistic benefits and community response to co-inoculation

Interactions between arbuscular mycorrhizal (AM) fungi and free-living nitrogen fixers (FLNF) occur in the rhizosphere where they can enhance plant nutrient acquisition, impact plant growth, and affect soil processes. Tripartite mutualism commonly occurs between nodule-forming plants, symbiotic diazotrophs, and AM fungi, and can occur between non-nodulating plants, FLNF, and AM fungi. However, information on the extent of, and controls on, tripartite mutualism in non-nodulating plant systems is limited to a small number of crop plants and culturable microbial inoculum, mostly in greenhouse growing conditions. We conducted a systematic literature review to synthesize the current understanding of the responses of plants, AM fungi, and FLNF to co-inoculation, as well as the conditions affecting tripartite mutualism and the magnitude and range of benefits conferred. Our review shows that plants generally benefit from co-inoculation with AM fungi and FLNF taxa, but benefits are highly variable and context dependent, ranging from 94% reduction in plant shoot biomass to 255% increase in total plant biomass. Additionally, the presence of AM fungi can increase abundance of FLNF and the presence of FLNF can increase AM fungal root colonization, but these responses also vary widely. Major factors influencing variation in response to co-inoculation by all organisms include plant phenology/age, soil type and nutrient availability, and partner pairing. There is potential for leveraging these tripartite mutualisms to improve plant productivity and soil microbial function, but successful application is more likely with a thorough understanding of the environmental and mechanistic controls on these relationships and testing of field-scale implementation.

59 BASIC BIOLOGICAL SCIENCES↗

Crystal Prediction and Design of Tunable Light Emission in BTB–Based Metal–Organic Frameworks

Metal-organic frameworks (MOFs) have recently been shown to exhibit unique mechanisms of luminescence based on charge transfer between structural units in the framework. These MOFs have the potential to be structural tuned for targeted emission with little or no metal participation. Here a computationally led, material design and synthesis methodology is presented that elucidates the mechanisms of light emission in interpenetrated structures comprised of metal centers (M = In, Ga, InGa, InEu) and BTB (1,3,5-Tris(4-carboxyphenyl)benzene) linkers, forming unique luminescent M-BTB MOF frameworks. Gas phase and periodic electronic structure calculations indicate that the intensity of the emission and the wavelength are overwhelmingly controlled by a combination of the number of interacting stacked linkers and their interatomic spacings, respectively. In the MOF, the ionic radii of the metal centers primarily control the expansion or shrinkage of the linker stacking distances. Experimentally, multiple M-BTB-based MOFs are synthesized and their photoluminescence was tested. Experiments validated the modeling by confirming that shifts in the crystal structure result in variations in light emission. Through this material design method, the mechanisms of tuning luminescence properties in interpenetrated M-BTB MOFs have been identified and applied to the design of MOFs with specific wavelength emission based on their structure.

36 MATERIALS SCIENCE↗

Amazonian terrestrial water balance inferred from satellite-observed water vapor isotopes

Atmospheric humidity and soil moisture in the Amazon forest are tightly coupled to the region’s water balance, or the difference between two moisture fluxes, evapotranspiration minus precipitation (ET-P). However, large and poorly characterized uncertainties in both fluxes, and in their difference, make it challenging to evaluate spatiotemporal variations of water balance and its dependence on ET or P. Here, we show that satellite observations of the HDO/H 2 O ratio of water vapor are sensitive to spatiotemporal variations of ET-P over the Amazon. When calibrated by basin-scale and mass-balance estimates of ET-P derived from terrestrial water storage and river discharge measurements, the isotopic data demonstrate that rainfall controls wet Amazon water balance variability, but ET becomes important in regulating water balance and its variability in the dry Amazon. Changes in the drivers of ET, such as above ground biomass, could therefore have a larger impact on soil moisture and humidity in the dry (southern and eastern) Amazon relative to the wet Amazon.

54 ENVIRONMENTAL SCIENCES↗

MusMorph, a database of standardized mouse morphology data for morphometric meta-analyses

Complex morphological traits are the product of many genes with transient or lasting developmental effects that interact in anatomical context. Mouse models are a key resource for disentangling such effects, because they offer myriad tools for manipulating the genome in a controlled environment. Unfortunately, phenotypic data are often obtained using laboratory-specific protocols, resulting in self-contained datasets that are difficult to relate to one another for larger scale analyses. To enable meta-analyses of morphological variation, particularly in the craniofacial complex and brain, we created MusMorph, a database of standardized mouse morphology data spanning numerous genotypes and developmental stages, including E10.5, E11.5, E14.5, E15.5, E18.5, and adulthood. To standardize data collection, we implemented an atlas-based phenotyping pipeline that combines techniques from image registration, deep learning, and morphometrics. Alongside stage-specific atlases, we provide aligned micro-computed tomography images, dense anatomical landmarks, and segmentations (if available) for each specimen (N = 10,056). Our workflow is open-source to encourage transparency and reproducible data collection.

59 BASIC BIOLOGICAL SCIENCES↗

Nonlinear saturation of ballooning modes in stellarators

Ballooning mode saturation is investigated in realistic stellarator configurations using the flux tube approach of Ham et al (2018 Plasma Phys. Control. Fusion 60 075017), Ham et al (2016 Phys. Rev. Lett. 116 235001). The method is adapted to account for the lack of exact force balance in stellarator equilibrium solvers that assume existence of nested flux surfaces. A variational approach for calculating flux tube energy is developed to overcome this force error problem in stellarator numerical equilibria. Saturated (equilibrium) flux tube states that cross 10%–20% of the plasma minor radius are shown to exist for linearly ballooning unstable profiles. It is shown that several features of the displaced flux tube structure in a full nonlinear MHD simulation of Wendelstein 7X are reproduced by our model. Saturated states are found in a compact stellarator equilibrium close but below the marginal ballooning linear instability, i.e. the unperturbed equilibrium is metastable. This suggests that edge-localized-mode-like explosive MHD behavior may be possible in stellarators.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Antioxidant Activity, Microbiological Quality, and Acceptability of Spontaneously Fermented Shrimp Sausage (Litopenaeus vannamei)

Fermented shrimp sausages are prepared spontaneously with Litopenaeus vannamei as raw material. Shrimp is one of the marine sources with rich chitosan as bioactive compounds, antioxidants, vitamin E, and probiotic lactic acid bacteria (LAB) produced by fermentation processes. This study aimed to analyze the variations in antioxidant activity, vitamin E content, total LAB, total pathogenic bacteria, pH, and acceptability of shrimp sausage produced at different fermentation times. A completely randomized experimental design study was performed using four levels of exposure time, including control (0 days), 1, 2, and 3 days. The treatment was conducted spontaneously with 1.2% salt concentration, a drying temperature of 50°C for 3 h, and fermentation at 35°C. The evaluated parameters included the antioxidant activity measured with the radical 2,2-azino-bis (3-ethylbenzothiazoline-6-sulphonic acid) method, vitamin E levels by high-performance liquid chromatography, total LAB with total plate count, and Escherichia coli bacteria by the most probable number method. Salmonella sp. and Staphylococcus aureus were estimated by the identification method. A pH meter was used to assess acidity, and hedonic organoleptic testing was performed for taste, aroma, color, and texture. The results show significant differences in antioxidant activity, vitamin E, and shrimp sausage acceptability at varied fermentation times p ≤ 0.05 . However, the best formulation was obtained with the first-day fermented shrimp sausage, as shown by its bioactive content and the level of acceptability.

Afifah, Diana N.↗

Modeling the impact of COVID-19 on air quality in southern California: implications for future control policies

Abstract. In response to the coronavirus disease of 2019 (COVID-19), California issued statewide stay-at-home orders, bringing about abrupt and dramatic reductions in air pollutant emissions. This crisis offers us an unprecedented opportunity to evaluate the effectiveness of emission reductions in terms of air quality. Here we use the Weather Research and Forecasting model with Chemistry (WRF-Chem) in combination with surface observations to study the impact of the COVID-19 lockdown measures on air quality in southern California. Based on activity level statistics and satellite observations, we estimate the sectoral emission changes during the lockdown. Due to the reduced emissions, the population-weighted concentrations of fine particulate matter (PM2.5) decrease by 15 % in southern California. The emission reductions contribute 68 % of the PM2.5 concentration decrease before and after the lockdown, while meteorology variations contribute the remaining 32 %. Among all chemical compositions, the PM2.5 concentration decrease due to emission reductions is dominated by nitrate and primary components. For O3 concentrations, the emission reductions cause a decrease in rural areas but an increase in urban areas; the increase can be offset by a 70 % emission reduction in anthropogenic volatile organic compounds (VOCs). These findings suggest that a strengthened control on primary PM2.5 emissions and a well-balanced control on nitrogen oxides and VOC emissions are needed to effectively and sustainably alleviate PM2.5 and O3 pollution in southern California.

54 ENVIRONMENTAL SCIENCES↗

Feed-Forward Compensation for Model Predictive Control in Tri-port Current-Source Medium-Voltage String Inverters for PV-Plus-Storage Farms

The novel tri-port current-source medium-voltage string inverter (TCS-MVSI) is a promising candidate for large-scale PV-plus-storage (PVS) farms owing to its galvanic isolation, easy storage integration, soft-switching capability across entire load range, controlled low dv/dt and EMI, benign fault tolerance, etc. Due to its low inertia feature, traditional PI-based control cannot manage large transients effectively. Instead, a model-based predictive control (MPC) is proposed to achieve robust and stable operation. As is well known, the control performance of MPC is compromised by the sampling and computational delay during implementation significantly, if not well addressed. This paper analyzed and quantified these delays and then proposes feed-forward compensation (FFC) for the MPC method to compensate the delays and the large parameter variations due to the low-inertia nature. In addition, this method also compensates for the high dc-link ripple within each switching cycle, a unique issue for low-inertia converters. Here, the proposed method requires low computational effort, allowing it to be extended for multiple ports. The effectiveness of the proposed method has been validated in experiments. In 10 kW test, the proposed method decreases the average dc-link current by 17%, leading to ~20% conduction losses and ~0.5% increase in converter efficiency. In addition, the peak dc-link current also decreases by 15%, resulting in reduced transformer size. As a result, an increased power density can be achieved with the proposed method. Similar improvements have been observed across the power range from 2 kW to 10 kW.

30 DIRECT ENERGY CONVERSION↗

Investigation of fuel film formation and soot emissions in a GDI engine during cold-start with Split-injection strategies

This study investigates the impact of fuel-film formation on engine-out soot emissions in a gasoline direct injection (GDI) engine under cold-start conditions. Split-injection strategies were applied by varying the number of injections, injection duration, and total fuel quantity to affect wall wetting and control the average in-cylinder equivalence ratio. A combined experimental and numerical approach was employed to analyze fuel-film deposition, combustion efficiency, and engine-out soot and unburnt hydrocarbons (UHC) emissions. In particular, fuel film distribution estimated by means of non-reacting, 3-D, computational fluid dynamics (CFD) simulations, together with experimentally measured soot data, were used to investigate fuel film formation and its role in soot generation. In the experiments, a skip-fired engine control strategy was applied to mimic the transient nature of engine cold-start operation. The results indicate that, under the same total number of injections, increasing the average in-cylinder equivalence ratio through longer injection durations improves combustion stability, as indicated by the decrease of the coefficient of variation of IMEP n (Net Indicated Mean Effective Pressure) from 6.0 % to 0.6 %. However, this strategy leads to higher soot emissions, which increased by nearly an order of magnitude, primarily due to enhanced wall-film formation. In contrast, increasing the number of injections while maintaining a constant equivalence ratio significantly impacts fuel-film deposition and, consequently, soot emissions, with a fivefold reduction of the measured engine-out soot, decreasing from 3.5 mg to 0.7 mg. A soot-film correlation was developed and achieved a high coefficient of determination (r 2 = 0.95) and was further extended to account for spark timing effects. These findings confirm the effectiveness of split-injection for avoiding wall film formation and soot emissions, and the critical role of fuel film in soot generation, supporting the hypothesis that pool fires play a crucial role in contributing to soot formation under these cold-start conditions. In conclusion, the study also indicates the value of a predictive soot-film correlation for developing cold-start emission control strategies.

Engine Cold-start↗

Cyber-Attack Detection for Active Neutral Point Clamped (ANPC) Photovoltaic (PV) Converter using Kalman Filter

With the upgrading of communication technology, cyber threats to power converters are increasing. In this paper, a model-based cyber-attack detection methodology is proposed for the interleaved Active neutral point clamped (ANPC) Photovoltaic (PV) converter. The proposed methodology identifies cyber-attacks using two estimations based on the Kalman filter and the state-space model of the ANPC PV converter. The residual between the two estimations is analyzed from a statistical perspective. Based on the Cumulative Sum (CUSUM) Control Chart, the standard errors shift of the residual is used to identify cyber-attacks. Besides, to validate the feasibility of the proposed methodology, several conditions are considered in the simulation, including white noise in the sensor, irradiance variation, and cyber-attacks in the PV converter. Furthermore, the simulation result demonstrates the proposed method can identify cyber-attacks in the ANPC PV converter.

14 SOLAR ENERGY↗

Transcriptomic and functional analyses uncover a conserved effector driving genotype-dependent virulence in the Sphaerulina musiva-Populus trichocarpa interaction

The introduction of invasive microbes compromises the structure, biodiversity, and function of naïve ecosystems. Sphaerulina musiva, a hemibiotrophic pathogen that causes leaf spot and stem cankers in Populus species, exemplifies an invasive fungal pathogen spread by human activities. However, the genetic mechanisms of pathogenicity and virulence are poorly understood, impeding mitigation strategies. We utilized RNA sequencing to identify fungal effectors linked to stem canker formation, informing the development of future strategies for effective disease management. Our analysis revealed 70 genes differentially expressed at 2 weeks and 110 genes at 3 weeks between inoculated trees and controls. Notably, the gene with the highest expression at 2 weeks and the second highest at 3 weeks was homologous to Extracellular protein 2 (Ecp2). Complementary genome-wide association studies linked sequence polymorphisms in this locus to phenotypic variation in disease severity. Infiltration of S. musiva Ecp2 into Populus trichocarpa leaves induced necrosis in susceptible genotypes. Gene disruption using a CRISPR-Cas9 RNP system resulted in a genotype-dependent reduction of stem canker and disease severity. Tracing the evolutionary history of this effector across the fungal kingdom, we uncovered clade-specific gene-family expansions and orthologs in new species. These findings raise questions about the function and adaptive significance of these gene families in fungal lifestyles. Our study provides the first tractable target for breeding resistant poplar genotypes, addressing the challenges of managing S. musiva and uncovering mechanisms that drive its virulence, and provides deeper insights into the evolutionary dynamics of a conserved small-secreted protein with a diversity of functions.

Sondreli, Kelsey L [Oregon State University]↗

Genetic variation and genetic complexity of nodule occupancy in soybean inoculated with USDA110 and USDA123 rhizobium strains

Abstract Background Symbiotic nitrogen fixation differs among Bradyrhizobium japonicum strains. Soybean inoculated with USDA123 has a lower yield than strains known to have high nitrogen fixation efficiency, such as USDA110. In the main soybean-producing area in the Midwest of the United States, USDA123 has a high nodule incidence in field-grown soybean and is competitive but inefficient in nitrogen fixation. In this study, a high-throughput system was developed to characterize nodule number among 1,321 Glycine max and 69 Glycine soja accessions single inoculated with USDA110 and USDA123. Results Seventy-three G. max accessions with significantly different nodule number of USDA110 and USDA123 were identified. After double inoculating 35 of the 73 accessions, it was observed that PI189939, PI317335, PI324187B, PI548461, PI562373, and PI628961 were occupied by USDA110 and double-strain nodules but not by USDA123 nodules alone. PI567624 was only occupied by USDA110 nodules, and PI507429 restricted all strains. Analysis showed that 35 loci were associated with nodule number in G. max when inoculated with strain USDA110 and 35 loci with USDA123. Twenty-three loci were identified in G. soja when inoculated with strain USDA110 and 34 with USDA123. Only four loci were common across two treatments, and each locus could only explain 0.8 to 1.5% of phenotypic variation. Conclusions High-throughput phenotyping systems to characterize nodule number and occupancy were developed, and soybean germplasm restricting rhizobium strain USDA123 but preferring USDA110 was identified. The larger number of minor effects and a small few common loci controlling the nodule number indicated trait genetic complexity and strain-dependent nodulation restriction. The information from the present study will add to the development of cultivars that limit USDA123, thereby increasing nitrogen fixation efficiency and productivity.

59 BASIC BIOLOGICAL SCIENCES↗

A System Approach to Deep Heating Savings Through Measurement, Management, and Motivation

Across multi-tenant commercial office and multifamily buildings, centrally metered fuel use represents a substantial fraction of whole-building energy use. Energy audit practitioners understand that improving heating distribution efficiency is typically more of an opportunity than combustion efficiency and that differing thermal comfort preferences between tenants are the bane of operators across these building typologies. There is an unmet market need for retrofit technologies that allow for the delivery of the right amount of heat to the right spaces, at the right time. The Energy Management and Information System (EMIS) package fills this gap through enhanced controls and metering, incorporating low-cost sensors and wireless communication infrastructure to provide a platform for ongoing commissioning and tenant feedback, including heat cost allocation. With support from the US DOE Building Technologies Office, Steven Winter Associates, Inc. (SWA) partnered with Sentient Buildings, E Source, building owners, and utility and policy stakeholders, to demonstrate a market viable EMIS that achieves a reduction in space heating energy use by reducing heating load, improving control, and positively impacting behavior while providing an acceptable financial return. In this study, EMIS packages were implemented in two New York City multifamily rental buildings. Both buildings conducted basic mechanical work (e.g., repairing steam traps) to ensure the heating system was operating well before any tenant feedback was layered in. Heating Energy Use Reports (HEUR) were created to provide tenants with social comparisons and energy savings tips to influence their behavior; these were provided monthly to all tenants in both buildings. Additionally, one building allocated heating costs to a portion of the tenants. Heat cost allocation (HCA) has a long history in the European Union (EU), although it is not common in the US or in steam-heated buildings. SWA leveraged existing EU best practices and stakeholder feedback to develop a Heat Cost Allocation algorithm that was considered equitable and intuitive. Energy use and tenant behavior impacts were tracked throughout the study. The basic mechanical repair work saved between 11-20% of heating energy. Those savings rose to 17-24% with the addition of tenant feedback. While it may not be possible to precisely determine the impact of COVID-19 on research studies like this, there may have been additional savings realized had the study taken place in a period of normal occupancy patterns. These types of central heating systems have been a blind spot for utilities, who have traditionally had little visibility into detailed behind-the-meter gas usage. Heating energy savings stayed consistent during the coldest months, indicating the potential for utilities to utilize EMIS packages for peak gas demand reductions or demand response programs. Tenant comfort was also improved. Post installation, room temperatures more closely matched thermostat set points. Perhaps due to this greater level of control, the vast majority of tenants being billed for heating were accepting of the allocation costs. And tenants receiving heat cost allocations were more likely to reduce their thermostat setpoints than tenants receiving behavioral feedback without financial impacts were. Variation in building specifics makes it difficult to provide precise energy and financial savings estimates. But within the range of expected conditions, the study identified a few key variables that can have the greatest impact on financial returns: the cost of fuel, the ability and willingness to allocate heating costs to tenants, and a well-functioning heating system as a starting point. This study focused on two multifamily buildings, but additional use cases, such as commercial buildings and affordable housing, should be explored to better understand the full market potential. While this type of upgrade has the potential for deep energy reductions and cost savings, future projects should take into account the balance of costs and benefits between owners and tenants, especially in the affordable, regulated, or other low-to-moderate income (LMI) segments of the market. Rent credits, utility allowances, or a shared savings program are possible options to accelerate adoption of this strategy in these market segments.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

AN EXPERIMENTAL STUDY OF FUEL SELECTION FOR A GASOLINE MULTI-MODE

In this study of fuels of different reactivities and their performance in a low-temperature combustion (LTC) engine. The engine was a 2.2L CRDI engine code D4HB provided by industry partner Hyundai America Technical Center inc. (HATCI). The engine was instrumented with in-cylinder pressure sensors allowing for monitoring of the combustion process. First, the engine was operated with standard US pump grade gasoline, Research Octane number (RON) 91 E10, to find initial operation conditions as well as control points of stable operation for daily checks on system conditions. Tested were 8 different fuel blends, the four base blends were provided by Phillips 66 (P66) with a RON value ranging from 60 to 91, and three other variations of these fuels were formulated by splash blending alcohols, iso-butanol, and ethanol, with the RON60 fuel and the final blend, was US RON91 E10 pump gasoline. Using these 8 fuels, the low load performance was analyzed allowing a selection of one of the fuels to be made to proceed with experimentation. To study the low load performance of each fuel, the load was decreased until combustion became too unstable to continue. This was done at 1500 rpm with all of the fuels. At 1200 rpm, the same methodology was applied, though all of the fuels were not tested, only the fuels which showed promise at 1500 rpm. Meaning that the lowest targeted load was achieved without any aid to the combustion process other than advancing combustion, increasing intake air temperature (IAT) for example was not done to maintain consistency across all fuels. The same methodology was applied at 800 rpm based upon the 1200 rpm results to see the ability of the engine to idle with the given fuel. It was found that fuel with a RON of 80 showed good low load performance while allowing for high load performance to be maintained. A blend of 25% Iso-Butanol and 75% RON 60 equated to a RON of 80 and showed good low load performance and showed peak indicated thermal efficiency (ITE) numbers of 46% at 17 bar indicated mean effective pressure (IMEP) and 2200 rpm.

02 PETROLEUM↗

Tailoring material microstructure and property in wire-laser directed energy deposition through a wiggle deposition strategy

Developing effective strategies to directly control material microstructure, property, and anisotropy is an active research area in metal additive manufacturing. This work develops a wiggle deposition pattern for wire-laser directed energy deposition (DED) of 316L stainless steel (SS) to modify the solidification texture, particularly in the building direction, in as-deposited samples. Through multi-physics simulation, operando near-infrared imaging, and synchrotron x-ray characterization, it is found that the wiggle deposition strategy induces highly dynamic melt flow and oscillating thermal gradient in the melt pool, which is responsible for the variation of preferable grain growth direction and crystallographic texture in the sample. The specific texture reduces the anisotropy in the tensile strength of as-printed 316L SS samples cut along different directions. Also, it largely increases the ductility along the build direction. Crystal plasticity simulation is performed to correlate the sample texture with mechanical property. In conclusion, this work offers a unique approach for tailoring local properties through the control of melt pool instability by applying different tool paths.

36 MATERIALS SCIENCE↗