Engineered yeast tolerance enables efficient production from toxified lignocellulosic feedstocks
Rationally engineered tolerance enables broadly efficient lignocellulosic fermentation of diverse feedstocks and bioproducts.
09 BIOMASS FUELS↗
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Bioenergy Feedstock Library Annual Summary Report 2024
The Bioenergy Feedstock Library (BFL), part of the Biomass Feedstock National User Facility (BFNUF) located at Idaho National Laboratory (INL), is a physical sample repository and a web-accessible electronic database. The BFL stores physical and chemical characteristics of biomass and waste carbon sources for energy use, as well as samples generated from U.S. Department of Energy (DOE) Bioenergy Technologies Office (BETO) and U.S. Department of Agriculture-funded projects. The objective of this Bioenergy Feedstock Library Annual Summary Report for 2024, similar to the 2023 Annual Summary Report , is to focus on the updates to: (1) publicly available analytical data and equipment tracked through the BFNUF, (2) significant increases in the physical samples available for request, (3) sample and data archival progress from recent BETO-funded projects, and (4) publicly available data sets created upon request from BETO, INL projects, or outside entities compared to the previous annual summary reports. This report highlights key statistics and available data and information important for INL, BFL users, academics, and industry.
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Novel candidate genes for lignin structure identified through genome-wide association study of naturally varying Populus trichocarpa
Populus is a promising lignocellulosic feedstock for biofuels and bioproducts. However, the cell wall biopolymer lignin is a major barrier in conversion of biomass to biofuels. To investigate the variability and underlying genetic basis of the complex structure of lignin, a population of 409 three-year-old, naturally varying Populus trichocarpa genotypes were characterized by heteronuclear single quantum coherence (HSQC) nuclear magnetic resonance (NMR). A subsequent genome-wide association study (GWAS) was conducted using approximately 8.3 million single nucleotide polymorphisms (SNPs), which identified 756 genes that were significantly associated (−log 10 ( p -value)>6) with at least one lignin phenotype. Several promising candidate genes were identified, many of which have not previously been reported to be associated with lignin or cell wall biosynthesis. These results provide a resource for gaining insights into the molecular mechanisms of lignin biosynthesis and new targets for future genetic improvement in poplar.
59 BASIC BIOLOGICAL SCIENCES↗
Characterization of terrestrial ecosystems for biogeochemical studies using remote sensing
Work is in progress to estimate leaf area index (LAI) of temperate closed canopy coniferous forests using transects in Oregon and California. This variable will be measured using remote sensing techniques including correlations of ground dimensional analysis with linear waveband combinations. LAI will be related to important biological variables such as net primary productivity, biomass, and biogenic gas emission fluxes. The spatial variation in LAI, when coupled with species composition, will be used in part to describe the spatial variation and temporal dynamics of biogeochemical cycling.
Peterson, D. L.↗
Recent Changes in Tropospheric Ozone in the Tropics
This paper presents a detailed characterization of tropical tropospheric column ozone variability on time scales varying from a few days to a solar cycle. The study is based on more than 20 years (1979 to the present) of tropospheric column ozone time series derived from the convective cloud differential (CCD) method using total ozone mapping spectrometer (TOMS) data. Results indicate three distinct regions in the tropics with distinctly three different zonal characteristics related to seasonal, interannual and solar variabilities. These three regions are the eastern Pacific, Atlantic, and western Pacific. Tropospheric column ozone in the Atlantic region peaks at about the same time (September-October) from 20 N to 20 S. The amplitude of the annual cycle, however, varies from about 3 to 6 Dobson unit (DU) from north to south of the equator. In comparison, the annual cycle in both the eastern and western Pacific is generally week and the phase varies from peak values in March and April in the northern hemisphere to September and October in the southern hemisphere. The interannual pattern in the three regions are also very different. The Atlantic region indicates a quasi biennial oscillation in the tropospheric column ozone which is out of phase with the stratospheric ozone. This is consistent with the photochemical control of this region caused by high pollution and high concentration of ozone producing precursors. The observed pattern, however, does not seem to be related to the interannual variability in ozone precursors related to biomass burning. Instead, it appears to be a manifestation of the UV modulation of upper tropospheric chemistry on a QBO time scale caused by stratospheric ozone. During El Nino events, there is anomalously low ozone in the eastern Pacific and high values in the western Pacific indicating the effects of convectively driven transport. The observed increase of 10-20 DU in tropospheric column ozone in the Indonesian region in the western Pacific during the recent 1997-1998 El Nino was associated with large-scale forest fires which may have contributed 5-10 DU of the total increase.
Chandra, S.↗
Biological-Physical Coupling in the Gulf of Maine: Satellite and Model Studies of Phytoplankton Variability
The goals of this project were to acquire, process, QC, archive and analyze SeaWiFS chlorophyll fields over the Gulf of Maine and Scotia Shelf region. The focus of the analysis effort was to calculate and quantify seasonality and interannual. variability of SeaWiFS-measured phytoplankton biomass in the study area and compare these to physical forcing and hydrography. An additional focus within this effort was on regional differences within the heterogeneous biophysical regions of the Gulf of Maine / Scotia Shelf. Overall goals were approached through the combined use of SeaWiFS and AVHRR data and the development of a coupled biology-physical numerical model.
Thomas, Andrew C.↗
Interparticle Characterization of Mechanical Biomass Particle-Particle and Particle-Wall Interactions
The biomass materials industry faces significant challenges in managing material variability and its impact on storage and handling systems. Physical properties such as moisture content, particle size, and density fluctuate considerably, leading to operational issues like bridging and ratholing that disrupt material flow. These variations create a complex cascade effect throughout the process chain, affecting transportation, storage, and conversion processes. The economic consequences of this variability manifest in increased operational costs, maintenance requirements, and system downtime. Environmental factors further complicate the situation, as weather conditions and seasonal availability influence material properties and system performance. Engineers employ specialized equipment design, material characterization protocols, and pre-processing steps like size reduction and homogenization to address these challenges. A critical knowledge gap exists between continuous-level constitutive models and particle-scale behavior. This project developed a novel device to quantify interparticle mechanics between biomass particles, measuring friction and adhesion forces between particles and wall materials. The research focused on corn stover and southern pine forest residue, creating a comprehensive database of particle interactions. This breakthrough enables direct application in particle-based computational modeling, advancing the field's understanding of biomass handling characteristics and supporting the development of more reliable and efficient storage and handling systems. The project's outcomes contribute significantly to understanding biomass's mechanical and flow characteristics, particularly how variability at the particle level affects larger-scale handling operations. This knowledge is crucial for engineering feedstock supply systems that consistently meet quality and cost specifications for various conversion processes. The innovative experimental setup developed through this research represents a significant advancement in biomass characterization methodology. Providing precise measurements of particle-level interactions establishes a foundation for more accurate predictive modeling of bulk material behavior. This enhanced understanding of fundamental particle mechanics enables engineers to anticipate better and address handling challenges before they manifest in full-scale operations. This research opens new avenues for optimizing biomass handling systems through data-driven design approaches. The comprehensive database of particle interactions serves as a valuable resource for future research and development efforts, potentially leading to more efficient and cost-effective biomass processing solutions. This advancement in particle-level mechanics could revolutionize how biomass handling systems are designed and operated, contributing to more sustainable and reliable renewable energy production.
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Description and Evaluation of the Multiscale Online Nonhydrostatic AtmospheRe CHemistry Model (NMMB-MONARCH) Version 1.0: Gas-Phase Chemistry at Global Scale
This paper presents a comprehensive description and benchmark evaluation of the tropospheric gas-phase chemistry component of the Multiscale Online Nonhydrostatic AtmospheRe CHemistry model (NMMBMONARCH), formerly known as NMMB/BSC-CTM, that can be run on both regional and global domains. Here, we provide an extensive evaluation of a global annual cycle simulation using a variety of background surface stations (EMEP, WDCGG and CASTNET), ozonesondes (WOUDC, CMD and SHADOZ), aircraft data (MOZAIC and several campaigns), and satellite observations (SCIAMACHY and MOPITT).We also include an extensive discussion of our results in comparison to other state-of-the-art models. We note that in this study, we omitted aerosol processes and some natural emissions (lightning and volcano emissions). The model shows a realistic oxidative capacity across the globe. The seasonal cycle for CO is fairly well represented at different locations (correlations around 0.3-0.7 in surface concentrations), although concentrations are underestimated in spring and winter in the Northern Hemisphere, and are overestimated throughout the year at 800 and 500 hPa in the Southern Hemisphere. Nitrogen species are well represented in almost all locations, particularly NO2 in Europe (root mean square error - RMSE - below 5 ppb). The modeled vertical distributions of NOx and HNO3 are in excellent agreement with the observed values and the spatial and seasonal trends of tropospheric NO2 columns correspond well to observations from SCIAMACHY, capturing the highly polluted areas and the biomass burning cycle throughout the year. Over Asia, the model underestimates NOx from March to August, probably due to an underestimation of NOx emissions in the region. Overall, the comparison of the modeled CO and NO2 with MOPITT and SCIAMACHY observations emphasizes the need for more accurate emission rates from anthropogenic and biomass burning sources (i.e., specification of temporal variability).
atmospheric chemistry↗
Radiative Effects of Aerosols Generated from Biomass Burning, Dust Storms, and Forest Fires
Atmospheric aerosol particles, both natural and anthropogenic, are important to the earth's radiative balance. They scatter the incoming solar radiation and modify the shortwave reflective properties of clouds by acting as Cloud Condensation Nuclei (CCN). Although it has been recognized that aerosols exert a net cooling influence on climate (Twomey et al. 1984), this effect has received much less attention than the radiative forcings due to clouds and greenhouse gases. The radiative forcing due to aerosols is comparable in magnitude to current anthropogenic greenhouse gas forcing but opposite in sign (Houghton et al. 1990). Atmospheric aerosol particles generated from biomass burning, dust storms and forest fires are important regional climatic variables. A recent study by Penner et al. (1992) proposed that smoke particles from biomass burning may have a significant impact on the global radiation balance. They estimate that about 114 Tg of smoke is produced per year in the tropics through biomass burning. The direct and indirect effects of smoke aerosol due to biomass burning could add up globally to a cooling effect as large as 2 W/sq m. Ackerman and Chung (1992) used model calculations and the Earth Radiation Budget Experiment (ERBE) data to show that in comparison to clear days, the heavy dust loading over the Saudi Arabian peninsula can change the Top of the Atmosphere (TOA) clear sky shortwave and longwave radiant exitance by 40-90 W/sq m and 5-20 W/sq m, respectively. Large particle concentrations produced from these types of events often are found with optical thicknesses greater than one. These aerosol particles are transported across considerable distances from the source (Fraser et al. 1984). and they could perturb the radiative balance significantly. In this study, the regional radiative effects of aerosols produced from biomass burning, dust storms and forest fires are examined using the Advanced Very High Resolution Radiometer (AVHRR) Local Area Coverage (LAC) data and the instantaneous scanner ERBE data from the NOAA-9 and NOAA-10 satellites.
Christopher Sundar A.↗
Southern Hemisphere Carbon Monoxide Inferannual Variability Observed by Terra/Measurement of Pollution in the Troposphere (MOPITT)
Biomass burning is an annual occurrence in the tropical southern hemisphere (SH) and represents a major source of regional pollution. Vegetation fires emit carbon monoxide (CO), which due to its medium lifetime is an excellent tracer of tropospheric transport. CO is also one of the few tropospheric trace gases currently observed from satellite and this provides long-term global measurements. In this paper, we use the 5 year CO data record from the Measurement Of Pollution In The Troposphere (MOPITT) instrument to examine the inter-annual variability of the SH CO loading and show how this relates to climate conditions which determine the intensity of fire sources. The MOPITT observations show an annual austral springtime peak in the SH zonal CO loading each year with dry-season biomass burning emissions in S. America, southern Africa, the Maritime Continent, and northwestern Australia. Although fires in southern Africa and S. America typically produce the greatest amount of CO, the most significant inter-annual variation is due to varying fire activity and emissions from the Maritime Continent and northern Australia. We find that this variation in turn correlates well with the El Nino Southern Oscillation precipitation index. Between 2000 and 2005, emissions were greatest in late 2002 and an inverse modeling of the MOPITT data using the MOZART chemical transport model estimates the southeast Asia regional fire source for the year August 2002 to September 2003 to be 52 Tg CO. Comparison of the MOPITT retrievals and NOAA surface network measurements indicate that the latter do not fully capture the inter-annual variability or the seasonal range of the CO zonal average concentration due to biases associated with atmospheric and geographic sampling.
Edwards, D. P.↗
An Evaluation of Biomass Burning Aerosol Mass, Extinction, and Size Distribution in Geos Using Observations From Camp2EX
Biomass burning aerosol impacts aspects of the atmosphere and Earth system through radiative forcing, serving as cloud condensation nuclei, and air quality. Despite its importance, the representation of biomass burning aerosol is not always accurate in numerical weather prediction and climate models or reanalysis products. Using observations collected as part of the Cloud, Aerosol and Monsoon Processes Philippines Experiment (CAMP2Ex) in August through October of 2019, aerosol concentration and optical properties are evaluated within the Goddard Earth Observing System (GEOS) and its underlying aerosol module, GOCART. In the operational configuration, GEOS assimilates aerosol optical depth observations at 550 nm to constrain aerosol fields. Particularly for biomass burning aerosol, without the assimilation of aerosol optical depth, aerosol extinction is underestimated compared to observations collected in the Philippines region during the CAMP2Ex campaign. The assimilation process adds excessive amounts of carbon to account for the underestimated extinction, resulting in positive biases in the mass of black and organic carbon, especially within the boundary layer, relative to in situ observations from the Langley Aerosol Research Group Experiment. Counteracting this, GEOS is deficient in sulphate and nitrate aerosol just above the boundary layer. Aside from aerosol mass, extinction within GEOS is a function of ambient relative humidity and an assumed particle size distribution. The relationship between dry and ambient extinction in GEOS reveals that hygroscopic growth is too aggressive within the model for biomass burning aerosol. An additional concern lies in the assumed particle size distribution for GEOS, which has a mode radius that is too small for organic carbon. Variability in the observed particle size distribution for biomass burning aerosol within a single flight also illuminates the fact that a single assumed particle size distribution is not sufficient and that for a proper representation, a more advanced aerosol module with GEOS may be necessary.
Aerosol Mass↗
Evaluation of GEOS Aerosols Using CAMP2Ex Observations
Biomass burning aerosol impacts aspects of the atmosphere and Earth system through direct and semi-direct effects, as well as influencing air quality. Despite its importance, the representation of biomass burning aerosol is not always accurate in numerical weather prediction and climate models or reanalysis products. Using observations collected as part of the Cloud, Aerosol and Monsoon Processes Philippines Experiment (CAMP2Ex) in August through October of 2019, aerosol concentration and optical properties are evaluated within the Goddard Earth Observing System (GEOS) and its underlying aerosol module, GOCART. In the operational configuration, GEOS assimilates aerosol optical depth observations at 550 nm from AERONET and MODIS to constrain aerosol fields. Particularly for biomass burning aerosol, without the assimilation of aerosol optical depth, aerosol extinction is underestimated compared to observations collected in the Philippines region during the CAMP2Ex campaign. The assimilation process adds excessive amounts of carbon to account for the underestimated extinction, resulting in positive biases in the mass of black and organic carbon, especially within the boundary layer, relative to in situ observations from the Langley Aerosol Research Group Experiment. Counteracting this, GEOS is deficient in sulfate and nitrate aerosol just above the boundary layer. Aerosol extinction within GEOS is a function of the mass of different aerosol species, the ambient relative humidity, the assumed spectral optical properties, and particle size distribution per species. The relationship between dry and ambient extinction in GEOS reveals that hygroscopic growth is too high within the model for biomass burning aerosol. An additional concern lies in the assumed particle size distribution for GEOS, which has a single mode radius that is too small for organic carbon. Variability in the observed particle size distribution for biomass burning aerosol within a single flight also illuminates the fact that a single assumed particle size distribution is not sufficient and that for a proper representation, a more advanced aerosol module within GEOS may be necessary.
Allison Collow↗
FCIC Task X - Project Management and Consortium Overview
The objective of the FCIC Program Management Task is to provide scientific direction and leadership to the nine participating labs, and to provide robust project management to ensure robust operational planning and execution. The FCIC directly supports the BETO portfolio by focusing on feedstock variability across the bioenergy value chain, and the Project Management Task ensures the smooth operation of the FCIC, making sure that the 9 independent projects with different objectives have a common focus - understanding and mitigating the impacts of feedstock variability across the value chain.
bioenergy↗
Divergent carbon use efficiency-growth rate tradeoff in popular biological growth models
Carbon use efficiency (CUE) is an important trait emerging from processes regulating biological growth. CUE can be computed either based on the growth of structural biomass or total biomass divided by substrate uptake rate. Nonequilibrium thermodynamics and observations suggest that, for an exponentially growing population of cells, structural biomass CUE should first increase, then peak, and finally decrease with specific growth rate; meanwhile, total biomass CUE increases asymptotically with specific growth rate. We compared predictions from six popular models that are often used for plant and microbial growth in existing ecosystem models. We found that, for an exponentially growing population of biological cells, (1) the source-driven Pirt and Compromise models predict that structural biomass CUE increase asymptotically with growth rate; (2) the apparent sink-driven modified Droop model predicts that structural biomass CUE decreases with growth rate; and (3) the sink-driven variable internal storage model and two dynamic energy budget models predict that structural biomass CUE first increases, then peaks, and finally decreases with growth rate. Moreover, the modified Droop model predicts that total biomass CUE is constant with growth rate, while all other five models predict that total biomass CUE increases with growth rate asymptotically. For non-exponential biological growth, we show that there is no static relationship between total biomass CUE or structural biomass CUE with respect to either growth rate or temperature. Therefore, we contend that biological growth models should explicitly represent interactions between substrate acquisition, substate transformation, and maintenance respiration to better capture observed CUE dynamics, and the sink-driven model should be preferred for general ecosystem biogeochemistry modeling.
Tang, Jinyun [Lawrence Berkeley National Laborator↗
Effect of Moisture and Feedstock Variability on the Rheological Behavior of Corn Stover Particles
Continuous feeding, processing, and handling of biomass powders is pivotal to the economic viability of integrated biorefineries. However, current challenges associated with the operational reliability of bulk solids handling and transport greatly impact the process economics and ultimately the widespread commercialization of integrated biorefineries. In this work, we examine the effect of moisture and feedstock variability on the flow behavior of corn stover biomass particles. The total flow energy, compressibility, shear properties, and wall friction angles were measured for corn stover samples A and B containing 0%, 15%, 25%, 50%, and 75% (mass fraction) moisture contents using a FT4 powder rheometer. In general, the flowability of both A and B was reduced when moisture was present as indicated by the stability and variable flow rate, compressibility, and shear tests. The 15% moisture sample had the highest flow energy, revealing the interplay between the increased surface tension and looser packing both of which were caused by liquid bridging. The 75% moisture sample had the highest compressibility and the lowest flowability factor (ff c ). The trend in wall friction angle was found to be dependent upon the surface hydrophobicity of the wall material. The wall friction angle on the hydrophilic, stainless-steel surface increased with moisture and therefore poses additional handling challenges. On the other hand, the wall friction angle on the hydrophobic polymer surfaces were the lowest for samples with intermediate moisture contents. Sample B had greater bulk density, smaller compressibility, and greater flowability than the sample A , as suggested by the compressibility and shear tests. The wall friction angle of sample B was higher than or equal to that of sample A depending on both the type and the surface roughness of the wall material.
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Distribution of Aboveground Live Biomass in the Amazon Basin
The amount and spatial distribution of forest biomass in the Amazon basin is a major source of uncertainty in estimating the flux of carbon released from land-cover and land-use change. Direct measurements of aboveground live biomass (AGLB) are limited to small areas of forest inventory plots and site-specific allometric equations that cannot be readily generalized for the entire basin. Furthermore, there is no spaceborne remote sensing instrument that can measure tropical forest biomass directly. To determine the spatial distribution of forest biomass of the Amazon basin, we report a method based on remote sensing metrics representing various forest structural parameters and environmental variables, and more than 500 plot measurements of forest biomass distributed over the basin. A decision tree approach was used to develop the spatial distribution of AGLB for seven distinct biomass classes of lowland old-growth forests with more than 80% accuracy. AGLB for other vegetation types, such as the woody and herbaceous savanna and secondary forests, was directly estimated with a regression based on satellite data. Results show that AGLB is highest in Central Amazonia and in regions to the east and north, including the Guyanas. Biomass is generally above 300Mgha(sup 1) here except in areas of intense logging or open floodplains. In Western Amazonia, from the lowlands of Peru, Ecuador, and Colombia to the Andean mountains, biomass ranges from 150 to 300Mgha(sup 1). Most transitional and seasonal forests at the southern and northwestern edges of the basin have biomass ranging from 100 to 200Mgha(sup 1). The AGLB distribution has a significant correlation with the length of the dry season. We estimate that the total carbon in forest biomass of the Amazon basin, including the dead and below ground biomass, is 86 PgC with +/- 20% uncertainty.
rainforest↗
Relationship between the Fluorescence Lifetime of Chlorophyll 'a' and Primary Productivity within the Mississippi River Plume and Adjacent Shelf Region
In situ measurements of chlorophyll fluorescence intensity have been widely used to estimate phytoplankton biomass. However, because the fluorescence quantum yield of chlorophyll a in vivo can be highly variable, measurements of chlorophyll fluorescence intensity cannot be directly correlated with phytoplankton biomass and do not provide information on the physiological state of the phytoplankton under study. Conversely, lifetime-based measurements of chlorophyll fluorescence provide a framework in which photosynthetic rates of phytoplankton can be analyzed according to phytoplankton physiology. Along with the measurement of primary production and ambient nutrient concentrations within the Mississippi River plume in the northern Gulf of Mexico, phytoplankton fluorescence lifetimes were measured using a Fluorescence Lifetime Phytoplankton Analyzer (developed under a NASA Small Business Innovative Research contract to Ciencia, Inc.). Variability of fluorescence lifetimes within the plume can be used as a background from which to interpret variations in the maximum quantum yield of photochemistry. The extent to which nutrient and effluent loading in this dynamic coastal area affect the photosynthetic performance of phytoplankton will be presented as a function of phytoplankton fluorescence lifetimes.
Hall, Callie↗
Southern Rockies Western Slope Agriculture: Identifying Drivers of Rangeland Production for Drought Planning on the Western Slope of the Southern Rockies
Over the last decade, the southern Rocky Mountains of the United States experienced severe and variable drought. Local ranchers and landowners have reported strain on their operations, citing decreasing forage for their cattle and a need to adjust their business models. This study identified Major Land Resource Area-48 (MLRA-48) and northwestern Colorado as the key region for analysis. NASA DEVELOP partnered with the BLM Colorado River Field Office, Colorado State University Extension, USDA Forest Service, and the National Drought Mitigation Center to address concerns regarding the efficacy of remotely sensed rangeland production platforms and identify early warning climatic indicators of drought. The study identified two key platforms, The Rangeland Productivity Monitoring Service (RPMS) and Rangeland Analysis Platform (RAP), which use NASA Landsat 5 TM, Landsat 7 ETM+, Landsat 8 OLI, and Landsat 9 OLI-2 to estimate rangeland biomass. We regressed these with in situ biomass data to validate their efficacy and found that RAP was more effective than RPMS in estimating rangeland biomass, though it presents a tendency to overestimate. Our study performed a random forest analysis, comparing monthly RAP biomass estimates to a variety of climate variables, including mean precipitation, temperature, Palmer Drought Severity Index, snow water equivalent, snow persistence from Terra MODIS, wind speed and direction, and vapor pressure deficit. We determined that vapor pressure deficit and precipitation are key indicators in predicting forage production in MLRA-48. Our climate analysis provided our partners with greater understanding of the influence of various climate variables in determining rangeland production and allows them to assist land managers in drought mitigation.
remote sensing↗