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All sourcesNASA NTRSDOE OSTI
NASA NTRS2021

Real-Time Culture-Independent Microbial Profiling Onboard the International Space Station using Nanopore Sequencing

For the past two decades, microbial monitoring of the International Space Station (ISS) has relied on culture-dependent methods that require return to Earth for analysis. This has a number of limitations, with the most significant being bias towards the detection of culturable organisms and the inherent delay between sample collection and ground-based analysis. In recent years, portable and easy-to-use molecular-based tools, such as Oxford Nanopore Technologies’ MinION™ sequencer and miniPCR bio’s miniPCR™ thermal cycler, have been validated onboard the ISS. Here, we report on the development, validation, and implementation of a swab-to-sequencer method that provides a culture-independent solution to real-time microbial profiling onboard the ISS. Method development focused on analysis of swabs collected in a low-biomass environment with limited facility resources and stringent controls on allowed processes and reagents. ISS-optimized procedures included enzymatic DNA extraction from a swab tip, bead-based purifications, altered buffers, and the use of miniPCR and the MinION. Validation was conducted through extensive ground-based assessments comparing current standard culture-dependent and newly developed culture-independent methods. Similar microbial distributions were observed between the two methods; however, as expected, the culture-independent data revealed microbial profiles with greater diversity. Protocol optimization and verification was established during NASA Extreme Environment Mission Operations (NEEMO) analog missions 21 and 22, respectively. Unique microbial profiles obtained from analog testing validated the swab-to-sequencer method in an extreme environment. Finally, four independent swab-to-sequencer experiments were conducted onboard the ISS by two crewmembers. Microorganisms identified from ISS swabs were consistent with historical culture-based data, and primarily consisted of commonly observed human-associated microbes. This simplified method has been streamlined for high ease-of-use for a non-trained crew to complete in an extreme environment, thereby enabling environmental and human health diagnostics in real-time as future missions take us beyond low-Earth orbit.

microbiology↗
NASA NTRS1985

Potential applications of multipolarization SAR for pine plantation biomass estimation

This study was conducted as a part of the research tasks under the Radar Land Cover Analysis Program. The Radar Land Cover Analysis objective is, through utilization of multisensor data, to gain a basic understanding of the measurements and data characteristics in the visible-IR-microwave regions of the electromagnetic spectrum associated with specific surface features and cover types. Since the results of analysis of data acquired by Shuttle Imaging Radar (SIR-A) and LANDSAT Thematic Mapper (TM) over the study area were reported (NSTL/ERL Report No. 228, December 1984), this study focused on the analysis and evaluation of the L-band multipolarization airborne SAR data acquired over a southeastern pine forest scene. The data acquisition mission was flown on September 8 and 9, 1983. The HH, HV polarizations and the VV, VH polarizations were used on the first and the second day, respectively. Due to instrumentation difficulties, the digital recorder recorded only the second day's data. Because of this, only the VV and VH polarization data were used in this analysis. However, the HH and HV polarization images were available for visual comparison. It appears that SAR digital numbers correlate with the index of green biomass.

Wu, S. T.↗
NASA NTRS2020

Mapping tall shrub biomass in Alaska at landscape scale using structure-from-motion photogrammetry and lidar

Warming in arctic and boreal regions is increasing shrub cover and biomass. In southcentral Alaska, willow (Salix spp.) and alder (Alnus spp.) shrubs grow taller than many tree species and account for a substantial proportion of aboveground biomass, yet they are not individually measured as part of the operational Forest Inventory and Analysis (FIA) Program. The goal of this research was to test methods for landscape-scale mapping of tall shrub biomass in upper montane and subalpine environments using FIA-type plot measurements (n = 51) and predictor variables from imagery-based structure-from-motion (SfM) and airborne lidar. Specifically, we compared biomass models constructed from imagery acquired by unmanned aerial vehicle (UAV; ~1.7 cm pixels), imagery from the NASA Goddard's Lidar, Hyperspectral, and Thermal Airborne Imager (G-LiHT; ~3.1 cm pixels), and concomitant G-LiHT small-footprint lidar. Tall shrub biomass was most accurately predicted at 5 m resolution (R^2 = 0.81, RMSE = 1.09 kg/sq. m) using G-LiHT SfM color and structure variables. Lidar-only models had lower precision (R^2 = 0.74, RMSE = 1.26 kg/sq. m), possibly due to reduced model information content from variable multicollinearity or lower data density. Separate models for upper montane zones with trees and shrubs and subalpine zones with only shrubs were always chosen over single models based on minimization of Akaike's Information Criterion, indicating the need for variable sets robust to overhanging tree canopy. Decreasing point density from UAV (5000–8000 pts./sq. m) to the G-LiHT SfM point cloud (500–2000 pts./sq. m) had little impact on model fit, suggesting that high-resolution airborne imagery can extend SfM approaches well beyond line-of-sight restrictions for UAV platforms. Overall, our results confirmed that SfM from high-resolution imagery is a viable approach to estimate shrub biomass in the boreal region, especially when an existing lidar terrain model and local field calibration data are available to quantify uncertainty in the SfM point cloud and landscape-scale estimates of shrub biomass.

Michael Alonzo↗
NASA NTRS2011

Quantitative Evaluation of MODIS Fire Radiative Power Measurement for Global Smoke Emissions Assessment

Satellite remote sensing is providing us tremendous opportunities to measure the fire radiative energy (FRE) release rate or power (FRP) from open biomass burning, which affects many vegetated regions of the world on a seasonal basis. Knowledge of the biomass burning characteristics and emission source strengths of different (particulate and gaseous) smoke constituents is one of the principal ingredients upon which the assessment, modeling, and forecasting of their distribution and impacts depend. This knowledge can be gained through accurate measurement of FRP, which has been shown to have a direct relationship with the rates of biomass consumption and emissions of major smoke constituents. Over the last decade or so, FRP has been routinely measured from space by both the MODIS sensors aboard the polar orbiting Terra and Aqua satellites, and the SEVIRI sensor aboard the Meteosat Second Generation (MSG) geostationary satellite. During the last few years, FRP has steadily gained increasing recognition as an important parameter for facilitating the development of various scientific studies and applications relating to the quantitative characterization of biomass burning and their emissions. To establish the scientific integrity of the FRP as a stable quantity that can be measured consistently across a variety of sensors and platforms, with the potential of being utilized to develop a unified long-term climate data record of fire activity and impacts, it needs to be thoroughly evaluated, calibrated, and validated. Therefore, we are conducting a detailed analysis of the FRP products from MODIS to evaluate the uncertainties associated with them, such as those due to the effects of satellite variable observation geometry and other factors, in order to establish their error budget for use in diverse scientific research and applications. In this presentation, we will show recent results of the MODIS FRP uncertainty analysis and error mitigation solutions, and demonstrate their implications for biomass burning emissions assessment.

Ichoku, Charles↗
NASA NTRS2021

Analysis of Aeronet Extended Wavelength Retrievals of Aerosol Absorption Parameters Including 380 NM and 500 NM for Detection of Brown Carbon in Biomass Burning and Iron Oxides in Desert Dust

To investigate near UV aerosol absorbers, such as iron in mineral dust and brown carbon from biomass burning, AERONET spectral imaginary refractive index and size distributions retrievals were performed with the input of additional wavelength data. This includes adding both measured spectral AOD and sky radiances at 380 nm and 500 nm to the four channels (440, 675, 870 and 1020 nm) that are used in the standard retrieval data product. The vector radiative transfer code in the AERONET Version 3 retrievals enabled more accurate computations in the ultraviolet region (380 nm). Calibration of the 380 nm channel radiances was done by the vicarious method since the integrating sphere radiance source that is used for all other wavelengths does not produce sufficient energy at 380 nm. Spectral single scattering albedo, imaginary refractive indices and aerosol size distributions from these six wavelength retrievals are compared to the standard four wavelength retrieval values.

Aerosol↗
NASA NTRS1998

Satellite Estimates of Single Scattering Albedo and Optical Depth of Biomass Burning Carbonaceous Aerosols

Satellite based estimates of aerosol single scattering albedo (ssa), over both land and water surfaces, have been obtained for the first time using measurements of backscattered radiation in the near ultraviolet by the Total Ozone Mapping Spectrometer (TOMS). The retrieval of ssa and aerosol optical depth is based on the strong spectral contrast in the near-UV resulting from the interaction between the particle absorption and scattering (both Rayleigh and Mie) processes. We use the multi-year data set on backscattered radiances by the TOMS family of instruments to analyze the time and space variability of biomass burning generated carbonaceous aerosols. Results of a comparative analysis of satellite derived optical depth and available sunphotometer measurements will also be presented.

Torres, O.↗
NASA NTRS1999

Satellite Remote Sensing of Aerosol Forcing

The role of aerosol forcing remains one of the largest uncertainties in estimating man's impact on the global climate system. One school of thought suggests that remote sensing by satellite sensors will provide the data necessary to narrow these uncertainties. While satellite measurements of direct aerosol forcing appear to be straightforward, satellite measurements of aerosol indirect forcing will be more complicated. Pioneering studies identified indirect aerosol forcing using AVHRR data in the biomass burning regions of Brazil. We have expanded this analysis with AVHRR to include an additional year of data and assimilated water vapor fields. The results show similar latitudinal dependence as reported by Kaufman and Fraser, but by using water vapor observations we conclude that latitude is not a proxy for water vapor and the strength of the indirect effect is not correlated to water vapor amounts. In addition to the AVHRR study we have identified indirect aerosol forcing in Brazil at much smaller spatial scales using the MODIS Airborne Simulator. The strength of the indirect effect appears to be related to cloud type and cloud dynamics. There is a suggestion that some of the cloud dynamics may be influenced by smoke destabilization of the atmospheric column. Finally, this study attempts to quantify remote sensing limitations due to the accuracy limits of the retrieval algorithms. We use a combination of numerical aerosol transport models, ground-based AERONET data and ISCCP cloud climatology to determine how much of the forcing occurs in regions too clean to determine from satellite retrievals.

Remer, Lorraine↗
NASA NTRS2007

Characterization of Forested Landscapes From Remotely Sensed Data Using Fractals and Spatial Autocorrelation

The characterization of forested areas is frequently required in resource management practice. Passive remotely sensed data, which are much more accessible and cost effective than are active data, have rarely, if ever, been used to characterize forest structure directly, but rather they usually focus on the estimation of indirect measurement of biomass or canopy coverage. In this study, some spatial analysis techniques are presented that might be employed with Landsat TM data to analyze forest structure characteristics. A case study is presented wherein fractal dimensions, along with a simple spatial autocorrelation technique (Moran s I), were related to stand density parameters of the Oakmulgee National Forest located in the southeastern United States (Alabama). The results of the case study presented herein have shown that as the percentage of smaller diameter trees becomes greater, and particularly if it exceeds 50%, then the canopy image obtained from Landsat TM data becomes sufficiently homogeneous so that the spatial indices reach their lower limits and thus are no longer determinative. It also appears, at least for the Oakmulgee forest, that the relationships between the spatial indices and forest class percentages within the boundaries can reasonably be considered linear. The linear relationship is much more pronounced in the sawtimber and saplings cases than in samples dominated by medium sized trees (poletimber). In addition, it also appears that, at least for the Oakmulgee forest, the relationships between the spatial indices and forest species groups (Hardwood and Softwood) percentages can reasonably be considered linear. The linear relationship is more pronounced in the forest species groups cases than in the forest classes cases. These results appear to indicate that both fractal dimensions and spatial autocorrelation indices hold promise as means of estimating forest stand characteristics from remotely sensed images. However, additional work is needed to confirm that the boundaries identified for Oakmulgee forest and the linear nature of the relationship between image complexity indices and forest characteristics are generally evident in other forests. In addition, the effects of other parameters such ,as topographic relief and image distortion due to sun angle and cloud cover, for example, need to be examined.

Al-Hamdan, Mohammad Z.↗
NASA NTRS2005

An Improved Analysis of Forest Carbon Dynamics using Data Assimilation

There are two broad approaches to quantifying landscape C dynamics - by measuring changes in C stocks over time, or by measuring fluxes of C directly. However, these data may be patchy, and have gaps or biases. An alternative approach to generating C budgets has been to use process-based models, constructed to simulate the key processes involved in C exchange. However, the process of model building is arguably subjective, and parameters may be poorly defined. This paper demonstrates why data assimilation (DA) techniques - which combine stock and flux observations with a dynamic model - improve estimates of, and provide insights into, ecosystem carbon (C) exchanges. We use an ensemble Kalman filter (EnKF) to link a series of measurements with a simple box model of C transformations. Measurements were collected at a young ponderosa pine stand in central Oregon over a 3-year period, and include eddy flux and soil C02 efflux data, litterfall collections, stem surveys, root and soil cores, and leaf area index data. The simple C model is a mass balance model with nine unknown parameters, tracking changes in C storage among five pools; foliar, wood and fine root pools in vegetation, and also fresh litter and soil organic matter (SOM) plus coarse woody debris pools. We nested the EnKF within an optimization routine to generate estimates from the data of the unknown parameters and the five initial conditions for the pools. The efficacy of the DA process can be judged by comparing the probability distributions of estimates produced with the EnKF analysis vs. those produced with reduced data or model alone. Using the model alone, estimated net ecosystem exchange of C (NEE)= -251 f 197g Cm-2 over the 3 years, compared with an estimate of -419 f 29gCm-2 when all observations were assimilated into the model. The uncertainty on daily measurements of NEE via eddy fluxes was estimated at 0.5gCm-2 day-1, but the uncertainty on assimilated estimates averaged 0.47 g Cm-2 day-1, and only exceeded 0.5gC m-2 day-1 on days where neither eddy flux nor soil efflux data were available. In generating C budgets, the assimilation process reduced the uncertainties associated with using data or model alone and the forecasts of NEE were statistically unbiased estimates. The results of the analysis emphasize the importance of time series as constraints. Occasional, rare measurements of stocks have limited use in constraining the estimates of other components of the C cycle. Long time series are particularly crucial for improving the analysis of pools with long time constants, such as SOM, woody biomass, and woody debris. Long-running forest stem surveys, and tree ring data, offer a rich resource that could be assimilated to provide an important constraint on C cycling of slow pools. For extending estimates of NEE across regions, DA can play a further important role, by assimilating remote-sensing data into the analysis of C cycles. We show, via sensitivity analysis, how assimilating an estimate of photosynthesis - which might be provided indirectly by remotely sensed data - improves the analysis of NEE.

Williams, Mathew↗
NASA NTRS1982

Simple radiative transfer model for relationships between canopy biomass and reflectance

A modified Kubelka-Munk model has been utilized to derive useful equations for the analysis of apparent canopy reflectance. Based on the solution to the model simple working equations were formulated by employing reflectance characteristic parameters. The relationships derived show the asymptotic nature of reflectance data that is typically observed in remote sensing studies of plant biomass. They also establish the range of expected apparent canopy reflectance values for specific plant canopy types. The usefulness of the simplified equations was demonstrated by the exceptionally close fit of the theoretical curves to two separately acquired data sets for alfalfa and shortgrass prairie canopies.

Park, J. K.↗
NASA NTRS2000

Response of soybean rhizosphere communities to human hygiene water addition as determined by community level physiological profiling (CLPP) and terminal restriction fragment length polymorphism (TRFLP) analysis

In this report, we describe an experiment conducted at Kennedy Space Center in the biomass production chamber (BPC) using soybean plants for purification and processing of human hygiene water. Specifically, we tested whether it was possible to detect changes in the root-associated bacterial assemblage of the plants and ultimately to identify the specific microorganism(s) which differed when plants were exposed to hygiene water and other hydroponic media. Plants were grown in hydroponics media corresponding to four different treatments: control (Hoagland's solution), artificial gray water (Hoagland's+surfactant), filtered gray water collected from human subjects on site, and unfiltered gray water. Differences in rhizosphere microbial populations in all experimental treatments were observed when compared to the control treatment using both community level physiological profiles (BIOLOG) and molecular fingerprinting of 16S rRNA genes by terminal restriction fragment length polymorphism analysis (TRFLP). Furthermore, screening of a clonal library of 16S rRNA genes by TRFLP yielded nearly full length SSU genes associated with the various treatments. Most 16S rRNA genes were affiliated with the Klebsiella, Pseudomonas, Variovorax, Burkholderia, Bordetella and Isosphaera groups. This molecular approach demonstrated the ability to rapidly detect and identify microorganisms unique to experimental treatments and provides a means to fingerprint microbial communities in the biosystems being developed at NASA for optimizing advanced life support operations.

NASA Discipline Life Support Systems↗
NASA NTRS1977

Estimation of old field ecosystem biomass using low altitude imagery

Color-infrared photography was used to evaluate the biomass of experimental plots in an old-field ecosystem that was treated with different levels of waste water from a sewage treatment facility. Cibachrome prints at a scale of approximately 1:1,600 produced from 35 mm color infrared slides were used to analyze density patterns using prepared tonal density scales and multicell grids registered to ground panels shown on the photograph. Correlations between mean tonal density and harvest biomass data gave consistently high coefficients ranging from 0.530 to 0.896 at the 0.001 significance level. Corresponding multiple regression analysis resulted in higher correlation coefficients. The results indicate that aerial infrared photography can be used to estimate standing crop biomass on waste water irrigated old field ecosystems. Combined with minimal ground truth data, this technique could enable managers of waste water irrigation projects to precisely time harvest of such systems for maximal removal of nutrients in harvested biomass.

Nor, S. M.↗
NASA NTRS1982

Technical and economic assessment of processes for the production of butanol and acetone

This report represents a preliminary technical and economic evaluation of a process which produces mixed solvents (butaol/acetone/ethanol) via fermentation of sugars derived from renewable biomass resources. The objective is to assess the technology of producing butanol/acetone from biomass, and select a viable process capable of serving as a base case model for technical and economic analysis. It is anticipated that the base case process developed herein can then be used as the basis for subsequent studies concerning biomass conversion processes capable of producing a wide range of chemicals. The general criteria utilized in determining the design basis for the process are profit potential and non-renewable energy displacement potential. The feedstock chosen, aspen wood, was selected from a number of potential renewable biomass resources as the most readily available in the United States and for its relatively large potential for producing reducing sugars.

Source record↗
NASA NTRSDate not supplied

Entwine Point Tiles for 3D Visualization and Querying of ICESat-2

Point Cloud data from non-optical sensors present challenges in scientific computing in both volume of data and files, even for cloud services environments. As part of the Multi-Mission Algorithm and Analysis Platform (MAAP), a joint open science platform for global biomass modelling, we’ve developed a cloud optimized workflow for using ATL08 (ICESat-2) data as a point cloud. For MAAP, the ATL08 data product is published as Entwine Point Tiles (EPT), allowing users to visualize and query the full extent of this collection interactively without pre-downloading, or preprocessing. The EPT format is a cloud-optimized point cloud data format which re-organizes points into a cloud friendly spatially indexed data structure. MAAP uses AWS S3 to store these point clouds and serves them over OGC specified APIs, 3DTiles for visualization, and WFS for querying. This workflow allows for interactive 3D visualizations in a web browser, including notebook environments and facilitates on the fly subsetting for interactive data exploration, all of which can be applied to other similar sensors.

Alex Mandel↗
NASA NTRS2023

Southern Idaho Ecological Conservation: Investigating the Impact of Targeted Grazing to Improve Wetland Habitat in the Sterling Wildlife Management Area

Wetland ecosystems are vital for biodiversity conservation and ecosystem services. The Sterling Wildlife Management Area in Bingham County, Idaho, has management concerns about decadent and accumulated vegetation growth encroaching on wetland habitat, which presents challenges for wildlife, decreases biodiversity, and limits public access. Targeted grazing has been proposed as a sustainable alternative to chemical herbicides or burning. Land managers introduced targeted cattle grazing in January 2021 to reduce biomass. NASA DEVELOP partnered with the Idaho Department of Fish and Game to determine the impact of grazing using NASA Earth observations from Landsat 8 Operational Land Imager (OLI) in Google Earth Engine (GEE). Images were processed with TerrSet’s Land Change Modeler and ArcGIS Pro’s Change Detection Wizard to understand land changes following grazing. A Normalized Difference Vegetation Index (NDVI) analysis was performed to assess impacts on vegetation productivity and compare variance in biomass before and after grazing. A Normalized Difference Water Index (NDWI) was used to compare changes in the wetland and its vegetation content to evaluate the suitability of the area for migratory birds post-grazing. Results showed a decrease in the vegetation index and an increase in the water index postgrazing. The DEVELOP team’s analysis suggests that grazing helps break down thick, senesced vegetation and increase soil moisture. Providing a workflow model will aid partners in continuing to monitor this management area and other management areas across the state.

change detection↗
NASA NTRS1977

Estimation of old field ecosystem biomass using low altitude imagery

Color-infrared photography was used to evaluate the biomass of experimental plots in an old-field ecosystem that was treated with different levels of waste water from a sewage treatment facility. Cibachrome prints at a scale of approximately 1:1,600 produced from 35 mm color infrared slides were used to analyze density patterns using prepared tonal density scales and multicell grids registered to ground panels shown on the photograph. Correlation analyses between tonal density and vegetation biomass obtained from ground samples and harvests were carried out. Correlations between mean tonal density and harvest biomass data gave consistently high coefficients ranging from 0.530 to 0.896 at the 0.001 significance level. Corresponding multiple regression analysis resulted in higher correlation coefficients. The results of this study indicate that aerial infrared photography can be used to estimate standing crop biomass on waste water irrigated old field ecosystems. Combined with minimal ground truth data, this technique could enable managers of wastewater irrigation projects to precisely time harvest of such systems for maximal removal of nutrients in harvested biomass.

Nor, S. M.↗
NASA NTRSDate not supplied

Observations of Southeast Asian Biomass Burning and Urban Trace Gas Enhancement Ratios: Insights into Regional Air Quality and Aerosol Composition

Southeast Asian biomass burning is a major pollutant source that contributes to poor air quality throughout the region. Thus, understanding these emissions is critical for predicting and mitigating their health impacts. While many studies have reported ground-based and satellite measurements, airborne measurements at a regional scale capable of tying the two together have not been common. The 2019 Cloud, Aerosol and Monsoon Processes Philippines Experiment (CAMP2Ex) field project examined Southeast Asian regional sources and their effects on aerosol/cloud interactions using a combination of airborne, shipboard, and ground-based measurements. These flights sampled a variety of airmass sources over the Philippine, South China, and Sulu seas during both the southwest monsoon and monsoon transition periods. Measurements during CAMP2Ex provide a unique opportunity to investigate how these transported and local emissions affected air quality trends and airmass chemical composition. We present correlated airborne in situ enhancement ratios of CH4 to CO, using them to identify source regimes of either high urban or biomass burning influence as well as urban regimes with different emission factors. Combined with backtrajectory analysis using HYSPLIT, source regimes were examined for differences in ozone, reactive nitrogen, and aerosol chemical composition. While observed O3/CO enhancement ratios remain constant for differing urban source regimes, NOy/CO ratios varied across these regimes. For biomass burning sources, O3/CO enhancement ratios are observed to be lower than previously reported by measurements in the region.

Joshua P Digangi↗