Search NASA⌕ Search

SEARCH · Search NASA

Results for “sequencing experiments”

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.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 433 records · Page 24
All sourcesNASA NTRSDOE OSTI
NASA NTRS1992

Vision-based range estimation using helicopter flight data

Pilot aiding during low-altitude flight depends on the ability to detect and locate obstacles near the helicopter's intended flightpath. Computer-vision-based methods provide one general approach for obstacle detection and range estimation. Several algorithms have been developed for this purpose, but have not been tested with actual flight data. This paper presents results obtained using helicopter flight data with a feature-based range estimation algorithm. A method for recursively estimating range using a Kalman filter with a monocular sequence of images and knowledge of the camera's motion is described. The helicopter flight experiment and four resulting datasets are discussed. Finally the performance of the range estimation algorithm is explored in detail based on comparison of the range estimates with true range measurements collected during the flight experiment.

Smith, Philip N.↗
NASA NTRS1992

Vision-based range estimation using helicopter flight data

Pilot aiding during low-altitude flight depends on the ability to detect and locate obstacles near the helicopter's intended flightpath. Computer-vision-based methods provide one general approach for obstacle detection and range estimation. Several algorithms have been developed for this purpose, but have not been tested with actual flight data. This paper presents results obtained using helicopter flight data with a feature-based range estimation algorithm. A method for recursively estimating range using a Kalman filter with a monocular sequence of images and knowledge of the camera's motion is described. The helicopter flight experiment and one of four resulting datasets is briefly discussed. Finally the performance of the range estimation algorithm is explored based on comparison of the range estimates with true range measurements collected during the flight experiment.

Smith, Phillip N.↗
NASA NTRS1992

Vision-based range estimation using helicopter flight data

Pilot aiding during low-altitude flight depends on the ability to detect and locate obstacles near the helicopter's intended flightpath. Computer-vision-based methods provide one general approach for obstacle detection and range estimation. Several algorithms have been developed for this purpose, but have not been tested with actual flight data. This paper presents results obtained using helicopter flight data with a feature-based range estimation algorithm. A method for recursively estimating range using a Kalman filter with a monocular sequence of images and knowledge of the camera's motion is described. The helicopter flight experiment and four resulting datasets are discussed. Finally the performance of the range estimation algorithm is explored in detail based on comparison of the range estimates with true range measurements collected during the flight experiment.

Smith, Phillip N.↗
NASA NTRS2017

Stratosphere Conditions Inactivate Bacterial Endospores from a Mars Spacecraft Assembly Facility

Every spacecraft sent to Mars is allowed to land viable microbial bioburden, including hardy endospore-forming bacteria resistant to environmental extremes. Earth’s stratosphere is severely cold, dry, irradiated and oligotrophic; it can be used as a stand-in location for predicting how stowaway microbes might respond to the Martian surface. We launched E-MIST, a high altitude NASA balloon payload on 10 Oct 2015 carrying known quantities of viable Bacillus pumilus SAFR-032 (4.07 x107 spores per sample), a radiation-tolerant strain collected from a spacecraft assembly facility. The payload spent 8 hours at ~32 km above sea level exposing bacterial spores to the stratosphere. We found that within 120 and 240 min, spore viability was significantly reduced by 2 and 4 orders of magnitude, respectively. By 480 min, < 0.001% of spores carried to the stratosphere remained viable. Our balloon flight results predict that most terrestrial bacteria would be inactivated within the first Sol on Mars if contaminated spacecraft surfaces receive direct sunlight. Unfortunately, an instrument malfunction prevented the acquisition of ultraviolet (UV) light measurements during our balloon mission. To make up for the absence of radiometer data, we calculated a stratosphere UV model and also conducted ground tests with a 271.1 nm UVC light source (0.5 W/m2), observing a similarly rapid inactivation rate when using a lower number of contaminants (640 spores per sample). The starting concentration of spores and micro-configuration on hardware surfaces appeared to influence survivability outcomes in both experiments. With the relatively few spores that survived the stratosphere, we performed a re-sequencing analysis and identified 3 single nucleotide polymorphisms compared to unexposed controls. It is therefore plausible that bacteria enduring radiation-rich environments (e.g., Earth’s upper atmosphere, interplanetary space, or the surface of Mars) may be pushed in evolutionarily consequential directions.

Mars↗
DOE OSTI2026

Structure and sequence evolution in the pennycress ( Thlaspi arvense ) pangenome

Eukaryotic genomes harbor many forms of variation, including nucleotide diversity and structural polymorphisms, which experience natural selection and contribute to genome evolution and biodiversity. Harnessing this variation for agriculture hinges on our ability to detect, quantify, catalog, and deploy genetic diversity. Here, we explore seven complete genomes of the emerging biofuel crop pennycress ( Thlaspi arvense ) drawn from across the species' current genetic diversity to catalog variation in genome structure and content. Across this new pangenome resource, we find contrasting evolutionary modes in different genomic zones. Gene-poor, repeat-rich pericentromeric regions experience frequent rearrangements, including repeated centromere repositioning. By contrast, conserved gene-dense chromosome arms maintain large-scale synteny across accessions even in fast-evolving NOD-like receptor immune genes, where microsynteny breaks down across species, but gene cluster positioning macrosynteny is maintained. Our findings highlight that multiple elements of the genome experience dynamic evolution that conserves functional content on the chromosome scale but allows repositioning and presence–absence variation on a local scale. This diversity is invisible to classical reference-based strategies and highlights the strength and utility of pangenomic resources. These results provide a valuable case study of rapid genomic structural evolution within a species and powerful resources for crop development in an emerging biofuel crop.

Thlaspi arvense↗
NASA NTRS1973

GRAN experiment

A global system for search and rescue was studied to reduce the time lost between a mishap and rescue efforts. The sequence of the GRAN concept proceeds as follows: (1) A distress call is initiated by a survivor and consists of the retransmission of Omega tones and a unique identifying code. (2) Signals are frequency translated through the satellite from UHF to SHF. (3) The received signals are processed in real-time using improved skywave correction and lane ambiguity techniques. The results are processed in geographical coordinates, time of day, and unique ID. This information is then relayed to the closest rescue agent. The Omega system is described, and the satellite/GRAN compatibility is discussed. The program plan and schedule are included.

Morakis, J. C.↗
NASA NTRS1974

The imaging experiment on Pioneer 10

In the period plus or minus 4 days from Jovian pericenter, Pioneer 10 returned data from 153 imaging sequences. Data were obtained with the imaging photopolarimeter, a 2.54-cm-diam and 8.6-cm-focal-length steerable telescope configured as a narrow beam (0.5-mrad) photometer in a spin scan mode of operation. Images were obtained in two spectral bands (390 to 500 nm and 595 to 720 nm), and seven of the most interesting pictures are shown and discussed.

Swindell, W.↗
NASA NTRS1984

A SEASAT SASS simulation experiment to quantify the errors related to a + or - 3 hour intermittent assimilation technique

A series of SEASAT repeat orbits over a sequence of best Low center positions is simulated by using the Seatrak satellite calculator. These Low centers are, upon appropriate interpolation to hourly positions, Located at various times during the + or - 3 hour assimilation cycle. Error analysis for a sample of best cyclone center positions taken from the Atlantic and Pacific oceans reveals a minimum average error of 1.1 deg of Longitude and a standard deviation of 0.9 deg of Longitude. The magnitude of the average error seems to suggest that by utilizing the + or - 3 hour window in the assimilation cycle, the quality of the SASS data is degraded to the Level of the background. A further consequence of this assimilation scheme is the effect which is manifested as a result of the blending of two or more more juxtaposed vector winds, generally possessing different properties (vector quantity and time). The outcome of this is to reduce gradients in the wind field and to deform isobaric and frontal patterns of the intial field.

Sylvester, W. B.↗
DOE OSTI2024

Profiling expression strategies for a type III polyketide synthase in a lysate-based, cell-free system

Abstract Some of the most metabolically diverse species of bacteria (e.g., Actinobacteria) have higher GC content in their DNA, differ substantially in codon usage, and have distinct protein folding environments compared to tractable expression hosts like Escherichia coli . Consequentially, expressing biosynthetic gene clusters (BGCs) from these bacteria in E. coli often results in a myriad of unpredictable issues with regard to protein expression and folding, delaying the biochemical characterization of new natural products. Current strategies to achieve soluble, active expression of these enzymes in tractable hosts can be a lengthy trial-and-error process. Cell-free expression (CFE) has emerged as a valuable expression platform as a testbed for rapid prototyping expression parameters. Here, we use a type III polyketide synthase from Streptomyces griseus , RppA, which catalyzes the formation of the red pigment flaviolin, as a reporter to investigate BGC refactoring techniques. We applied a library of constructs with different combinations of promoters and rppA coding sequences to investigate the synergies between promoter and codon usage. Subsequently, we assess the utility of cell-free systems for prototyping these refactoring tactics prior to their implementation in cells. Overall, codon harmonization improves natural product synthesis more than traditional codon optimization across cell-free and cellular environments. More importantly, the choice of coding sequences and promoters impact protein expression synergistically, which should be considered for future efforts to use CFE for high-yield protein expression. The promoter strategy when applied to RppA was not completely correlated with that observed with GFP, indicating that different promoter strategies should be applied for different proteins. In vivo experiments suggest that there is correlation, but not complete alignment between expressing in cell free and in vivo. Refactoring promoters and/or coding sequences via CFE can be a valuable strategy to rapidly screen for catalytically functional production of enzymes from BCGs, which advances CFE as a tool for natural product research.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Evolutionary Analyses of Gene Expression Divergence in Panicum hallii : Exploring Constitutive and Plastic Responses Using Reciprocal Transplants

Abstract The evolution of gene expression is thought to be an important mechanism of local adaptation and ecological speciation. Gene expression divergence occurs through the evolution of cis- polymorphisms and through more widespread effects driven by trans-regulatory factors. Here, we explore expression and sequence divergence in a large sample of Panicum hallii accessions encompassing the species range using a reciprocal transplantation experiment. We observed widespread genotype and transplant site drivers of expression divergence, with a limited number of genes exhibiting genotype-by-site interactions. We used a modified FST–QST outlier approach (QPC analysis) to detect local adaptation. We identified 514 genes with constitutive expression divergence above and beyond the levels expected under neutral processes. However, no plastic expression responses met our multiple testing correction as QPC outliers. Constitutive QPC outlier genes were involved in a number of developmental processes and responses to abiotic environments. Leveraging earlier expression quantitative trait loci results, we found a strong enrichment of expression divergence, including for QPC outliers, in genes previously identified with cis and cis–environment interactions but found no patterns related to trans-factors. Population genetic analyses detected elevated sequence divergence of promoters and coding sequence of constitutive expression outliers but little evidence for positive selection on these proteins. Our results are consistent with a hypothesis of cis-regulatory divergence as a primary driver of expression divergence in P. hallii.

3′ TagSeq↗
DOE OSTI2024

Root-associated bacterial communities and root metabolite composition are linked to nitrogen use efficiency in sorghum

ABSTRACT The development of cereal crops with high nitrogen use efficiency (NUE) is a priority for worldwide agriculture. In addition to conventional plant breeding and genetic engineering, the use of the plant microbiome offers another approach to improving crop NUE. To gain insight into the bacterial communities associated with sorghum lines that differ in NUE, a field experiment was designed comparing 24 diverse Sorghum bicolor lines under sufficient and deficient nitrogen (N). Amplicon sequencing and untargeted gas chromatography–mass spectrometry were used to characterize the bacterial communities and the root metabolome associated with sorghum genotypes varying in sensitivity to low N. We demonstrated that N stress and sorghum type (energy, sweet, and grain sorghum) significantly impacted the root-associated bacterial communities and root metabolite composition of sorghum. We found a positive correlation between sorghum NUE and bacterial richness and diversity in the rhizosphere. The greater alpha diversity in high NUE lines was associated with the decreased abundance of a dominant bacterial taxon, Pseudomonas . Multiple strong correlations were detected between root metabolites and rhizosphere bacterial communities in response to low N stress. This indicates that the shift in the sorghum microbiome due to low N is associated with the root metabolites of the host plant. Taken together, our findings suggest that host genetic regulation of root metabolites plays a role in defining the root-associated microbiome of sorghum genotypes differing in NUE and tolerance to low N stress. IMPORTANCE The development of crops that are more nitrogen use-efficient (NUE) is critical for the future of the enhanced sustainability of agriculture worldwide. This objective has been pursued mainly through plant breeding and plant molecular engineering, but these approaches have had only limited success. Therefore, a different strategy that leverages soil microbes needs to be fully explored because it is known that soil microbes improve plant growth through multiple mechanisms. To design approaches that use the soil microbiome to increase NUE, it will first be essential to understand the relationship among soil microbes, root metabolites, and crop productivity. Using this approach, we demonstrated that certain key metabolites and specific microbes are associated with high and low sorghum NUE in a field study. This important information provides a new path forward for developing crop genotypes that have increased NUE through the positive contribution of soil microbes.

59 BASIC BIOLOGICAL SCIENCES↗
NASA NTRS1979

SAGE to examine Earth's stratosphere

The SAGE mission is discussed along with the role of the Nimbus 7 experiment. Other topics discussed include: ground truth measurements, data collection and processing, SAGE instrumentation, and launch sequence.

Source record↗
NASA NTRS1986

Planetary Fabry-Perot spectroscopy

Uranus and Jupiter HD/H2 spectra determine bulk D/H ratios which are significantly different from theoretical expectations, with the Uranus D/H about half the Jovian value. Feasibility of Mars photochemistry study with a PEPSIOS spectrometer was demonstrated with visible band O2, H2O, and CO2 spectra; and near infrared (1.57 micron) spectra of CO and CO2; and NASA/IRTF observations have been proposed in support of the Mars Observer mission objectives. Analysis of monochromatic images clearly resolve the azimuthal and radial structure in the Jovian nebula (ion partitioning, temperature structure, ion/neutral interactions), adding a unique and important post-Voyager perspective and providing a baseline for forthcoming Galileo experiments. Simultaneous ground based and IUE observations of Jovian nebula are under analysis. Doppler resolved image sequences (data cubes) of Io sodium neutrals clearly isolate the high velocity charge exchange jet, a sensitive ground-based probe of the tenuous neutral atmosphere of Io.

Trauger, J. T.↗
NASA NTRS1986

Unstructured multigrid methods for the compressible Euler equations

A two-step explicit finite element based solution procedure for the compressible Euler equations is described. Convergence to steady state can be accelerated by using a multigrid technique. The geometric flexibility of the finite element method is retained by using a sequence of unnested grids. The viability of this approach is demonstrated for elliptic problems and initial experiences with the technique applied to the Euler equations are reported.

Loehner, R.↗
NASA NTRS1988

Infrared observations of planetary atmospheres

The goal of this research in to obtain infrared data on planetary atmospheres which provide information on several aspects of structure and composition. Observations include direct mission real-time support as well as baseline monitoring preceding mission encounters. Besides providing a broader information context for spacecraft experiment data analysis, observations will provide the quantitative data base required for designing optimum remote sensing sequences and evaluating competing science priorities. In the past year, thermal images of Jupiter and Saturn were made near their oppositions in order to monitor long-term changes in their atmospheres. Infrared images of the Jovian polar stratospheric hot spots were made with IUE observations of auroral emissions. An exploratory 5-micrometer spectrum of Uranus was reduced and accepted for publication. An analysis of time-variability of temperature and cloud properties of the Jovian atomsphere was made. Development of geometric reduction programs for imaging data was initiated for the sun workstation. Near-infrared imaging observations of Jupiter were reduced and a preliminary analysis of cloud properties made. The first images of the full disk of Jupiter with a near-infrared array camera were acquired. Narrow-band (10/cm) images of Jupiter and Saturn were obtained with acousto-optical filters.

Orton, Glenn S.↗
NASA NTRS1990

Space Station Freedom Data Assessment Study

The SSF Data Assessment Study was initiated to identify payload and operations data requirements to be supported in the Space Station era. To initiate the study payload requirements from the projected SSF user community were obtained utilizing an electronic questionnaire. The results of the questionnaire were incorporated in a personal computer compatible database used for mission scheduling and end-to-end communications analyses. This paper discusses data flow paths and associated latencies, communications bottlenecks, resource needs versus availability, payload scheduling 'warning flags' and payload data loading requirements for each major milestone in the Space Station buildup sequence. This paper also presents the statistical and analytical assessments produced using the data base, an experiment scheduling program, and a Space Station unique end-to-end simulation model. The modeling concepts and simulation methodologies presented in this paper provide a foundation for forecasting communication requirements and identifying modeling tools to be used in the SSF Tactical Operations Planning (TOP) process.

Johnson, Anngienetta R.↗
NASA NTRS1996

Apparatus Measures Thicknesses Of Ice On Bars

Semiautomated apparatus measures diameters, at selected lengthwise positions, of nine vertical ice-coated bars in icing-research wind tunnel. Includes measuring head that travels on rails parallel to bar, driven by ball screw actuated by stepping motor. Position of measuring head along bar measured by string potentiometer, providing position feedback for closed-loop control circuit. Circuit provides for smooth motion of measuring head, and used to select various programmed sequences of motions and measurements. Measurements needed to determine degree of uniformity of icing conditions for experiments on aircraft models.

Gibson, Theresa L.↗