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At least 937 records · Page 52
All sourcesNASA NTRSDOE OSTI
DOE OSTI2016

The INFODEM Information Centre at CEA Marcoule: A Unique Information Tool in Europe About Nuclear Decommissioning - 16217

In September 2014, the French Alternative Energies and Atomic Energy Commission (CEA) inaugurated a unique information center focused on decommissioning of its nuclear facilities. This facility, named INFODEM information center, is inside the main building of the G1 nuclear reactor at Marcoule, a nuclear site in the south of France with world-recognized expertise in decommissioning. Constructed in the 1950's, the G1 reactor was the first industrial-scale reactor for plutonium production in France; it was also used to produce electricity. Operations ceased in 1968, and it was progressively dismantled (through removal of fuel and main components) and placed in monitoring status. In the 1980s, mockups of fuel cycle process equipment were built under a temporary mission to support development activities for the La Hague reprocessing plant. When that ended, further dismantling occurred, and during 1996 through 2010, the site established itself as a reference example for worldwide nuclear dismantling activities. In 2012, the project to establish an information center at the reactor began, targeting three main audiences: the public, agency personnel and politicians, and technical professionals. Considerable thought went into the facility design, to address the interests and information needs of these three audiences. The INFODEM concept extended over 800 square meters (about 960 square yards), to host an informative tour addressing several major themes: CEA's D and D strategy, programs, skills, tools and methodologies and 'everyday life' on decommissioning projects. Illustrating its unique value and considerable success, INFODEM received the Public Information Prize from the French Nuclear Energy Society (SFEN) in June 2015. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
NASA NTRS2007

Applications and Results of MODIS Lunar Observations

Both Terra and Aqua MODIS have been making periodic lunar observations since their launch in December 1999 and May 2002, respectively. The primary objective of the MODIS lunar observations is to monitor on-orbit response changes for the reflective solar bands (RSB) and to track long-term radiometric calibration stability. The Moon is an extremely stable surface reflectance reference and, together with the lunar radiometric model developed recently by the US Geological Survey (USGS), the applications of lunar observations for Earth remote sensing missions have been greatly enhanced and expanded. In particular, calibration inter-comparisons among sensors on different platforms and operated in different time frames have been enabled in the VIS/NIR/SWIR spectral regions. In this paper, we discuss various applications of MODIS lunar observations, such as monitoring the RSB radiometric stability and calibration consistency between the two sensors, evaluating the calibration differences among detectors within the same spectral band, and tracking the on-orbit changes of band-to-band registration (BBR). Other applications designed for the thermal emissive bands (TEB) and special sensor characterization purposes are also illustrated. Results from multi-year Terra and Aqua MODIS lunar observations demonstrate clearly that the two sensors have been calibrated consistently to within 1% for most RSB compared to the 2% radiometric calibration requirement. In addition the spatial characterization results derived from lunar observations are in good agreement with those derived from the instrument's on-board calibrator. The applications and results of MODIS lunar observations presented in this paper provide useful references for other sensors that also make use of lunar surface observations.

Xiong, X.↗
NASA NTRS1982

The photometric performance of the IUE

The scientific objectives and performance characteristics of a new astronomy mission referred to as the far ultraviolet spectroscopic explorer, or FUSE are being defined by team involving people experienced in instrumentation, observations, and theory in order to develop. mission and instrumental requirements that best meet the scientific needs. The team is intended to have a lifetime of about one year, ending with the submission of a report to NASA which could be used as the basis for an engineering design study. The principal objective of FUSE is to obtain astronomical spectra at wavelengths shorter than is possible with the Space Telescope.

Holm, A. V.↗
NASA NTRS1998

Reference Interferometer Using a Semiconductor Laser/LED Reference Source in a Cryogenic Fourier-Transform Spectrometer

A combination of a single mode AlGaAs laser diode and broadband LED was used in a Michelson interferometer to provide reference signals in a Fourier transform spectrometer, the Composite Infrared Spectrometer, on the Cassini mission to Saturn. The narrowband light from the laser produced continuous fringes throughout the travel of the interferometer, which were used to control the velocity of the scan mechanism and to trigger data sampling. The broadband light from the LED produced a burst of fringes at zero path difference, which was used as a fixed position reference. The system, including the sources, the interferometer, and the detectors, was designed to work both at room temperature and instrument operating temperature of 170 Kelvin. One major challenge that was overcome was preservation, from room temperature to 170 K, of alignment sufficient for high modulation of fringes from the broadband source. Another was the shift of the source spectra about 30 nm toward shorter wavelengths upon cooldown.

Martino, Anthony J.↗
NASA NTRSDate not supplied

Moderator Considerations for Space Nuclear Power and Propulsion Systems

Nuclear reactors have the potential to provide high energy density to enable sustainable surface power and advanced propulsion methods needed for human exploration activities at the moon and mars. Current mission planning is surveying different reactor types for space power and propulsion application. Of these reactor types, the use of a moderator within the reactor can enable reduced enrichment, reduce overall fuel loadings, and minimize the critical size of the reactor compared to unmoderated reference systems. This proceeding summarizes some moderator materials identified for space reactor applications: zirconium hydride, yttrium hydride, beryllium, and beryllium oxide, and the unique design considerations inherent to surface power and nuclear thermal propulsion reactor designs. It was found that there are four key considerations during the moderator selection and design process: nuclear properties, thermophysical & mechanical properties, manufacture & readiness, and environmental compatibility. Surface power reactors can benefit from moderators which minimize overall system mass and are capable of surviving high temperature irradiation environments for years with little degradation. Nuclear thermal propulsion reactors can benefit from moderators which are capable of retaining structural integrity under multiple burns while being exposed to a wide temperature range (40 < T < 500+ K). Moderator materials which exhibit good stability under irradiation and high temperature operation, minimize fuel pitch, and are high readiness are desirable for near term implementation.

nuclear thermal propulsion↗
NASA NTRS2023

Propulsion-Airframe Integration for Conceptual Redesign of a Low-Boom Supersonic Transport

A low-boom supersonic transport was generated in a previous low-boom multidisciplinary optimization (MDO) study that used computational fluid dynamics (CFD) off-body pressure to compute the undertrack sonic boom ground signature and calibrated low-fidelity aerodynamics analyses to compute the mission performance metrics. This low-boom aircraft, referred to as the Mach 1.7 40-PAX concept, can carry 40 passengers for a low-boom overland mission with cruise Mach 1.7 for the airport pairs over the continental US and has the potential to achieve an undertrack sonic boom ground noise level below 70 perceived level of decibels at the start of overland cruise (SOC). The engine for the Mach 1.7 40-PAX concept was designed using the Numerical Propulsion System Simulation (NPSS) for the mission analysis and modeled as a flow-through nacelle for CFD-based sonic boom analysis. To understand how the engine plume affects the undertrack ground signature, the Mach 1.7 40-PAX concept is redesigned in this paper after replacing the flow-through nacelles by CFD engines for sonic boom analysis using aeropropulsive CFD simulation. A process is developed for approximation of the NPSS engine at SOC by a CFD engine for aeropropulsive CFD simulation. The generated CFD engine has the identical nozzle boundary conditions and approximately the same mass flow and thrust as those of the NPSS engine at SOC. Then, the outer mold line of the configuration with the CFD engines is redesigned to approximately restore the low-boom characteristics of the Mach 1.7 40-PAX concept at SOC. Finally, the CFD simulation data for the redesigned concept with the CFD engines is used to calibrate the low-fidelity aerodynamic analyses for mission analysis of this concept. The cyclic dependency of the involved disciplinary analyses is resolved using an iteration method for a consistent coupling of the mission analysis, NPSS engine analysis, and low-boom redesign using the aeropropulsive CFD simulation. This low-boom redesign study is used as an example to demonstrate how the propulsion-airframe integration could be implemented for conceptual design of supersonic transports that satisfy both the low-boom and mission performance requirements.

Low-boom supersonic transport↗
NASA NTRSDate not supplied

Guidance for Designing Safety into Urban Air Mobility: Hazard Analysis Techniques

The national airspace system is exceptionally safe, specifically in terms of commercial air traffic operations. The introduction of innovative aircraft (such as electric vertical takeoff and landing vehicles) undergoing novel operations (such as for an urban air passenger carrying mission) is a potential disruptor to the current means of regulating and ensuring the safety of air travel. The aviation industry and associated regulatory bodies are adapting their approaches to assuring system safety to enable these new paradigms. However, any system safety analysis requires that a hazard assessment be performed. In this work, we consider the Functional Hazard Assessment (FHA) and Systems Theoretic Process Analysis (STPA) techniques for hazard assessment and evaluate whether they can be used in a complementary fashion for regulatory approval purposes. We perform an FHA and an STPA on an electric vertical takeoff and landing (eVTOL) vehicle undergoing an urban air mobility (UAM) passenger carrying reference scenario and present excerpts of this analysis. We then draw parallels between the techniques and highlight elements where they naturally reinforce to each other’s results, specifically in the consideration of hazard severity with respect to flight phases, the design of hazard mitigations, and the applicability of the results to all types of regulatory approvals (e.g., type certification, operational approval, and crew training).

Mallory S Graydon↗
NASA NTRS1992

Experimenter's data package for the descending layers rocket

In response to a proposal from Science Applications International Corporation (SAIC), NASA Headquarters has approved a sounding rocket mission designed to study the physics of intermediate layers in the Earth's ionosphere at middle latitudes. The experiment will be carried out by a team of scientists and engineers from the NASA Wallops Flight Facility, SAIC, the NASA Goddard Space Flight Center, and the Millstone Hill radar observatory. The mission will involve the launch of an instrumented sounding rocket from the Wallops Island rocket range in the summer of 1994, with the objective of penetrating a descending ionized layer in the E-region between altitudes of 115 and 140 km. Instrumentation aboard the rocket will measure the ion and neutral composition of the layer, its plasma density, driving wind and electric field forces, the thermal ion distribution function, and electron temperature. Depending on payload weight constraints and subject to availability, a particle detector to measure energetic ion and/or electron fluxes near the layer may also be included. This document was prepared as a reference for the NASA payload development and experiment teams, for distribution at the Project Initiation Conference (PIC). The design specifications discussed herein are therefore of a preliminary nature; the intent is to promote open discussions between experimenters and NASA engineers that will lead to a final design capable of achieving the experiment objectives.

Earle, Greg↗
NASA NTRS1981

Coalignment of spacecraft experiments

On February 14, 1980, the solar maximum mission (SMM) satellite was launched into orbit with experiments to monitor solar activity. In order to obtain common object observations, experiments must be coaligned within 90 arc-seconds of the spacecraft pointing vector. Hardware designed to minimize structural and thermal distortions of the experiment support plate is described. Coalignment was provided through control of interface which combined flexible blades to limit load transfer and spherical seats for alignment reference.

Federline, R. E.↗
NASA NTRS1985

Payload transportation at KSC

Cargo ground processing at John F. Kennedy Space Center (KSC) involves either a horizointal or vertical mode of assembly and processing of the STS payloads. Consequently, cargos are commonly referred to as horizontal or vertical payloads. The process flow for each mode requires different facilities and transportation requirements. Occasionally, a mixed mission cargo containing both horizontal and vertical payload elements will require a combination of horizontal and vertical transportation between facilities. Some of the engineering challenges and innovative solutions to satisy the unique on-site payload transportation requirements at KSC. In particular, some of the more demanding design requirements of the multiuse mission support equipment are presented, and the resulting engineering designs and unique solutions are outlined.

Donahue, M. E.↗
NASA NTRS1995

Energy management and vehicle synthesis

The major drivers in the development of launch vehicles for the twenty-first century are reduction in cost of vehicles and operations, continuous reusability, mission abort capability with vehicle recovery, and readiness. One approach to the design of such vehicles is to emphasize energy management and propulsion as being the principal means of improvements given the available industrial capability and the required freedom in selecting configuration concept geometries. A methodology has been developed for the rational synthesis of vehicles based on the setting up and utilization of available data and projections, and a reference vehicle. The application of the methodology is illustrated for a single stage to orbit (SSTO) with various limits for the use of airbreathing propulsion.

Czysz, P.↗
NASA NTRS1999

Improving Reanalyses Using TRMM and SSM/I-Derived Precipitation and Total Precipitable Water Observations

Global reanalyses currently contain significant errors in the primary fields of the hydrological cycle such as precipitation, evaporation, moisture, and the related cloud fields, especially in the tropics. The Data Assimilation Office (DAO) at the NASA Goddard Space Flight Center has been exploring the use of rainfall and total precipitable water (TPW) observations from the Tropical Rainfall Measuring Mission (TRMM) Microwave Imager (TMI) and the Special Sensor Microwave/ Imager (SSM/I) instruments to improve these fields in reanalyses. The DAO has developed a "1+1"D procedure to assimilate 6-hr averaged rainfall and TPW into the Goddard Earth Observing System (GEOS) Data Assimilation System (DAS). The algorithm is based on a 6-hr time integration of a column version of the GEOS DAS. The "1+1" designation refers to one spatial dimension plus one temporal dimension. The scheme minimizes the least-square differences between the satellite-retrieved rain rates and those produced by the column model over the 6-hr analysis window. The control variables are analysis increments of moisture within the Incremental Analysis Update (IAU) framework of the GEOS DAS. This 1+1D scheme, in its generalization to four dimensions, is related to the standard 4D variational assimilation but differs in its choice of the control variable. Instead of estimating the initial condition at the beginning of the assimilation cycle, it estimates the constant IAU forcing applied over a 6-hr assimilation cycle. In doing so, it imposes the forecast model as a weak constraint in a manner similar to the variational continuous assimilation techniques. We present results from an experiment in which the observed rain rate and TPW are assumed to be "perfect". They show that assimilating the TMI and SSM/I-derived surface precipitation and TPW observations improves not only the precipitation and moisture fields but also key climate parameters directly linked to convective activities such as clouds, the outgoing longwave radiation, and the large-scale circulation in the tropics. In particular, assimilating these data types reduce the state-dependent systematic errors in the assimilated products. The improved analysis also leads to a better short-range forecast, but the impact is modest compared with improvements in the time-averaged fields. These results suggest that, in the presence of biases and other errors of the forecast model, it is possible to improve the time-averaged "climate content" in the assimilated data without comparable improvements in the short-range forecast skill. Results of this experiment provide a useful benchmark for evaluating error covariance models for optimal use of these data types.

Hou, Arthur Y.↗
DOE OSTI2016

Application of Modular Design in Abatement of Fuel Element Debris (FED) Liquid Waste Stream - 16635

This paper provides a description of the processes applied within the Aqueous Discharge Abatement Plant (ADAP) at Bradwell nuclear power plant in the UK. This incorporates the Fuel Element Debris (FED) abatement plant and the Modular Active Effluent Treatment Plant (MAETP). These plants are housed in adjacent, but separate, structures and are inter-linked and share common services and control systems. The FED abatement plant, which has a shorter mission than MAETP, can be removed for decommissioning or redeployment without any impact to MAETP operation. ADAP treats aqueous waste streams generated during the ongoing decontamination and decommissioning (D and D) operations for release from the Bradwell Power Station. The plant is designed to receive and treat two major classes of liquids: 1. Slightly contaminated water from various D and D sources and collected rainwater from the power station, referred to as Aqueous Effluent (AE). 2. Dissolved fuel element debris solution. This comprises of contaminated magnesium alloy (generated during the stripping of external structures from spent Magnox fuel elements prior to shipment for reprocessing) which has been dissolved in nitric acid. All received wastes are treated to remove heavy metals and radioactive constituents prior to isolation, sampling, verification, and ultimately release to the Blackwater Estuary. The treatment consists of multiple processes including precipitation, filtration, adsorption and ion exchange carefully designed to remove targeted radionuclides and heavy metals. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
NASA NTRS2009

An Overview of MODIS Calibration and Characterization and Lessons Learned

The Moderate Resolution Imaging Spectroradiometer (MODIS) is a key instrument for NASA's EOS missions. Two nearly identical copies have flown on the Terra and Aqua spacecraft for more than 9 years and 6 years since their launch in December 1999 and May 2002, respectively. MODIS observations and associated data products have been widely used by the science community and users worldwide for studies of Earth's system of land, oceans, and atmosphere. MODIS was developed based on the desire of the science community to extend and enhance heritage sensors' data records. It was designed with enhancements made over its heritage sensors in terms of its spectral, spatial, and radiometric characteristics. It is a cross-track scanning radiometer, that uses a two-sided scan mirror, collecting data in 36 spectral bands covering spectral regions of visible (VIS), near-infrared (NIR), short-wave infrared (SWIR), mid-wave infrared (MWIR), and long-wave infrared (LWIR). The VIS, NIR, and SWIR bands (bands 1-19 and 26), which make measurements of daytime surface reflected radiances, are referred to as the reflective solar bands (RSB). The MWIR and LWIR bands (20-25 and 27-36), which measure both the daytime and nighttime scene emissive radiances, are thus referred to as the thermal emissive bands (TEB). In this paper, we provide an overview of MODIS instrument calibration and characterization methodologies, activities, and results from pre-launch to post launch, with emphasis on the lessons learned from its design to on-orbit operation. Currently, both instruments are operated normally and all the on-orbit calibration activities are performed on a regular basis with some at slightly reduced frequencies. The TEB responses have been extremely stable with less than 0.3% change per year. For the RSB, the changes are wavelength and scan angle dependent with the largest changes in the VIS spectral bands. As both Terra and Aqua MODIS continue to operate beyond their prime missions, constant effort is still needed to maintain instrument and calibration and data product quality. This paper shows that the lessons from Terra MODIS design, test, and operation, have greatly benefitted Aqua MODIS. Because of this, Aqua MODIS overall performance is better than Terra MODIS. It is not surprising that lessons from MODIS calibration and characterization, from methodologies to on-orbit implementation, have also provided valuable information for the design and development of future earth observing missions/sensors, such as VHRS on the NPP and NPOESS, ABI on GOES-R, OLI on LDCM, and the reflective solar sensor on CLARREO.

Xiong, Xiaxiong↗
NASA NTRSDate not supplied

Primary Mission Threshold Crossing Events in the TESS SPOC Transit Search

We present an overview of the single- and multiple-sector results of the Science Processing Operations Center (SPOC) transit search in the primary Transiting Exoplanet Survey Satellite (TESS) mission. TESS was designed to survey bright stars in the greater Solar neighborhood in search of transiting exoplanets. Data were acquired at a 2-minute cadence for 16,000-20,000 pre-selected target stars in each 28-day observation sector and processed in the SPOC pipeline at NASA Ames Research Center. The photometry pipeline produced a systematic error corrected light curve for each target star. Light curves were searched for transiting planet signatures by sector for all target stars, and separately for target stars observed in multiple sectors. Potential transit signals for which the transiting planet detection threshold was exceeded and a series of transit consistency tests were passed are referred to as Threshold Crossing Events (TCEs). We highlight the full TCE population and the population of SPOC TCEs that were later identified as TESS Objects of Interest (TOIs). Characteristics of the TCE populations implied by limb-darkened transiting planet model fits are also presented. SPOC pipeline data products are delivered to the Mikulski Archive for Space Telescopes (MAST)(http://archive.stsci.edu/missions-and-data/tess) for access by the community. Funding for the TESS Mission has been provided by the NASA Science Mission Directorate.

TESS↗
NASA NTRS2018

Intra-EVA Space-to-Ground Interactions when Conducting Scientific Fieldwork Under Simulated Mars Mission Constraints

The Biologic Analog Science Associated with Lava Terrains (BASALT) project is a four-year program dedicated to iteratively designing, implementing, and evaluating concepts of operations (ConOps) and supporting capabilities to enable and enhance scientific exploration for future human Mars missions. The BASALT project has incorporated three field deployments during which real (non-simulated) biological and geochemical field science have been conducted at two high-fidelity Mars analog locations under simulated Mars mission conditions, including communication delays and data transmission limitations. BASALT's primary Science objective has been to extract basaltic samples for the purpose of investigating how microbial communities and habitability correlate with the physical and geochemical characteristics of chemically altered basalt environments. Field sites include the active East Rift Zone on the Big Island of Hawai'i, reminiscent of early Mars when basaltic volcanism and interaction with water were widespread, and the dormant eastern Snake River Plain in Idaho, similar to present-day Mars where basaltic volcanism is rare and most evidence for volcano-driven hydrothermal activity is relict. BASALT's primary Science Operations objective has been to investigate exploration ConOps and capabilities that facilitate scientific return during human-robotic exploration under Mars mission constraints. Each field deployment has consisted of ten extravehicular activities (EVAs) on the volcanic flows in which crews of two extravehicular and two intravehicular crewmembers conducted the field science while communicating across time delay and under bandwidth constraints with an Earth-based Mission Support Center (MSC) comprised of expert scientists and operators. Communication latencies of 5 and 15 min one-way light time and low (0.512 Mb/s uplink, 1.54 Mb/s downlink) and high (5.0 Mb/s uplink, 10.0 Mb/s downlink) bandwidth conditions were evaluated. EVA crewmembers communicated with the MSC via voice and text messaging. They also provided scientific instrument data, still imagery, video streams from chest-mounted cameras, GPS location tracking information. The MSC monitored and reviewed incoming data from the field across delay and provided recommendations for pre-sampling and sampling tasks based on their collective expertise. The scientists used dynamic priority ranking lists, referred to as dynamic leaderboards, to track and rank candidate samples relative to one another and against the science objectives for the current EVA and the overall mission. Updates to the dynamic leaderboards throughout the EVA were relayed regularly to the IV crewmembers. The use of these leaderboards enabled the crew to track the dynamic nature of the MSC recommendations and helped minimize crew idle time (defined as time spent waiting for input from Earth during which no other productive tasks are being performed). EVA timelines were strategically designed to enable continuous (delayed) feedback from an Earth-based Science Team while simultaneously minimizing crew idle time. Such timelines are operationally advantageous, reducing transport costs by eliminating the need for crews to return to the same locations on multiple EVAs while still providing opportunities for recommendations from science experts on Earth, and scientifically advantageous by minimizing the potential for cross-contamination across sites. This paper will highlight the space-to-ground interaction results from the three BASALT field deployments, including planned versus actual EVA timeline data, ground assimilation times (defined as the amount of time available to the MSC to provide input to the crew), and idle time. Furthermore, we describe how these results vary under the different communication latency and bandwidth conditions. Together, these data will provide a basis for guiding and prioritizing capability development for future human exploration missions.

Beaton, Kara H.↗
NASA NTRS2015

Anomalous Cases of Astronaut Helmet Detection

An astronaut's helmet is an invariant, rigid image element that is well suited for identification and tracking using current machine vision technology. Future space exploration will benefit from the development of astronaut detection software for search and rescue missions based on EVA helmet identification. However, helmets are solid white, except for metal brackets to attach accessories such as supplementary lights. We compared the performance of a widely used machine vision pipeline on a standard-issue NASA helmet with and without affixed experimental feature-rich patterns. Performance on the patterned helmet was far more robust. We found that four different feature-rich patterns are sufficient to identify a helmet and determine orientation as it is rotated about the yaw, pitch, and roll axes. During helmet rotation the field of view changes to frames containing parts of two or more feature-rich patterns. We took reference images in these locations to fill in detection gaps. These multiple feature-rich patterns references added substantial benefit to detection, however, they generated the majority of the anomalous cases. In these few instances, our algorithm keys in on one feature-rich pattern of the multiple feature-rich pattern reference and makes an incorrect prediction of the location of the other feature-rich patterns. We describe and make recommendations on ways to mitigate anomalous cases in which detection of one or more feature-rich patterns fails. While the number of cases is only a small percentage of the tested helmet orientations, they illustrate important design considerations for future spacesuits. In addition to our four successful feature-rich patterns, we present unsuccessful patterns and discuss the cause of their poor performance from a machine vision perspective. Future helmets designed with these considerations will enable automated astronaut detection and thereby enhance mission operations and extraterrestrial search and rescue.

Dolph, Chester↗
NASA NTRSDate not supplied

Benchmarking Computational Tools for Calling SNPs and Indels in Complex Microbial Populations

The NASA BioNutrients missions seek to understand the suitability of microorganisms for bioproduction during space flight. One topic of interest is the stability of microbial genomes during long-term ambient storage and subsequent rehydration and growth. To address these questions, samples from 8 species were flown to ISS for 5 years of desiccated storage at ambient temperature (Stasis Packs) and 2 species were packaged along with powdered media inside a bioreactor system to allow hydration and growth in microgravity (Production Packs). For both systems, Whole Genome Sequencing (WGS) of the DNA extracted from the returned samples and paired ground controls will be conducted to identify changes in genome stability due to time, storage conditions and growth in space. Across the technical replicates, ground controls, 10 timepoints, and multiple experimental conditions, ~300 samples have been selected for initial analysis with WGS sequencing to 100x coverage. A flexible and resource efficient mutation calling pipeline is needed to process this large dataset and allow for comparisons between species. Many bioinformatics tools for calling Indels and Single Nucleotide Variants (SNVs) are designed for use with pure isolates, where true variations from the reference genome are expected to dominate the reads aligning to the location of mutation. In contrast, DNA from the Stasis Pack (SP) samples was collected directly after recovery from desiccated storage and the Production Pack (PP) samples were collected after fermentation. In this context, reads with mutations are expected to be less frequent than reads that align with the reference genome, as each sample will include multiple lines of cells. Thus, BioNutrients samples are expected to be similar to samples from cancer cell or “pooled” sequencing approaches. In preparation for the analysis of the BioNutrients samples, we have tested three mutation calling tools (GATK for Microbes, BreSeq and DiscoSNP) designed for complex samples. A challenge of validating mutation identification pipelines is a lack of “Ground Truth” datasets, especially for complex samples. To compare these three tools, we sought to identify mutations in pre-existing WGS data collected from populations of Chlamydomonas reinhardtii that were exposed to UV mutagenesis and growth in LEO as part of the Space Algae-1 mission. Here we present a summary of these tools against the analysis originally conducted using the CRISP tool. Critical metrics are compared such as runtime, the number of SNPs, the number and size of Indels, and patterns of transversion and transitions identified by each tool are reported. By sharing these benchmarking results collected in support of the BioNutrients mission, we aim to guide others seeking to identify SNVs in similarly complex microbial samples.

Biology↗