Convergent Microbial Community Formation in Replicate Anaerobic Reactors Inoculated from Different Sources and Treating Ersatz Crew Waste
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Lisa M. Steinberg↗
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Snakes on a Spaceship - An Overview of Python in Heliophysics
Computational analysis has become ubiquitous within the heliophysics community. However, community standards for peer review of codes and analysis have lagged behind these developments. This absence has contributed to the reproducibility crisis, where inadequate analysis descriptions and loss of scientific data have made scientific studies difficult or impossible to replicate. The heliophysics community has responded to this challenge by expressing a desire for a more open, collaborative set of analysis tools. This article summarizes the current state of these efforts and presents an overview of many of the existing Python heliophysics tools. It also outlines the challenges facing community members who are working toward the goal of an open, collaborative, Python heliophysics toolkit and presents guidelines that can ease the transition from individualistic data analysis practices to an accountable, communalistic environment.
Burrell, A.G.↗
Using Experiments to Build a Body of Knowledge
Experimentation in software engineering is important but difficult. One reason it is so difficult is that there are a large number of context variables, and so creating a cohesive understanding of experimental results requires a mechanism for motivating studies and integrating results. This paper argues for the necessity of a framework for organizing sets of related studies. With such a framework, experiments can be viewed as part of common families of studies, rather than being isolated events. Common families of studies can contribute to important and relevant hypotheses that may not be suggested by individual experiments. A framework also facilitates building knowledge in an incremental manner through the replication of experiments within families of studies. Building knowledge in this way requires a community of researchers that can replicate studies, vary context variables, and build abstract models that represent the common observations about the discipline. This paper also presents guidelines for lab packages, meant to encourage and support replications, that encapsulate materials, methods, and experiences concerning software engineering experiments.
Basili, Victor↗
Perspectives on Data Reproducibility and Replicability in Paleoclimate and Climate Science
This paper summarizes the current state of reproducibility and replicability in the fields of climate and paleoclimate science, including brief histories of their development and applications in climate science, new and recent approaches towards improvement of reproducibility and replicability, and challenges. Recommendations for addressing those challenges include: development of searchable, auto-updated, interlinked, multi-archive public paleoclimate repositories for raw and processed digital datasets; cross-center standardized code base cases, improved data storage techniques, and a focus on replicability for climate simulation storage and access; and support of the development and community awareness of findable, accessible, interoperable and reusable (FAIR) principles by funding agencies and publishers. This paper is largely based on the May 2018 presentations of a panel of researchers to the Committee on Reproducibility and Replicability in Science, part of the National Academies of Science, Engineering, and Medicine. The commentary and recommendations made here are in alignment with those of its Consensus Study Report on Reproducibility and Replicability in Science (2019).
data repositories↗
Surface Biology & Geology Pathfinder Data Analysis Pipeline
NASA's future global orbital mission, currently in development as the Surface Biology and Geology (SBG) Designated Observable study, will acquire relatively high resolution solar-reflected spectroscopy and thermal infrared observations. Innovative processes must be utilized for handling the high volume of data anticipated to be collected, which is anticipated to exceed 100 terabytes/day, greater than NASA's total extant airborne hyperspectral data collection. Collecting, processing/re-processing, disseminating, and exploiting this volume of data presents new challenges. To begin addressing them, NASA is drawing upon the expertise developed from its astrophysics programs to address Earth science and applications. Specifically, NASA is adapting the science processing operations technology developed for the Kepler and TESS planet-hunting missions for imaging spectroscopy data processing. This technology development has been the foundation for the remarkable scientific successes of Kepler and TESS. The Kepler/TESS data processing technology provides a scalable architecture for robust, repeatable, and replicable science and application products while enabling the Earth science community to develop, test, and implement new algorithms. Our effort to leverage this existing capability has begun by ingesting data and applying workflows from the EO-1/Hyperion 17-year mission archive that provides globally sampled visible through shortwave infrared spectra that are representative of SBG data types and volumes. This pathfinding data processing system will help define the solutions to processing SBG data volumes and will enable the scientific community to interact with the data and processing pipeline to create new science products.
Jenkins, Jon↗
Open Science Approach to Analyze Climate-Crop Relationships in the US Leveraging GES DISC and Galaxy Workflows
Understanding the intricate relationship between climate variability and agricultural production is crucial for ensuring food security. This study investigates the impact of climate parameters, such as temperature, precipitation, and soil moisture, on major US crop yields. Adopting an open science approach, the study analyzes the impact of climate on agricultural production in the United States. The Galaxy workflow engine serves as the primary tool for integrating climate data from the Goddard Earth Sciences Data and Information Services Center (GES DISC), retrieved via the Giovanni system, with yield statistics from the United States Department of Agriculture’s National Agricultural Statistics Service (USDA NASS). Extensions for reading, preprocessing, and analyzing external data have been developed, enabling the creation of workflows within the Galaxy platform. The development of a reproducible workflow allows for the calculation of seasonal climate averages, which are then assessed for their correlation with crop yields. This methodology ensures the replicability of the research, promoting transparency and collaboration in the scientific community. Correlational and regression analyses have been applied to different sub-zones and crops. The findings from this research offer valuable insights into the relationship between climate parameters and crop yields. These insights contribute to a deeper understanding of climate-crop relationships, providing a solid foundation for informed decision-making in the agricultural sector. The high correlation values indicate a significant relationship between climate parameters and crop yields, underscoring the importance of considering climate factors in agricultural planning and policymaking. This research also exemplifies the power of open science in advancing our understanding of complex environmental and agricultural phenomena. By leveraging open data and services, it provides a robust and replicable framework for future studies in this critical field.
Open science↗
Transitory Microbial Habitat in the Hyperarid Atacama Desert
Traces of life are nearly ubiquitous on Earth. However, a central unresolved question is whether these traces always indicate an active microbial community or whether, in extreme environments, such as hyperarid deserts, they instead reflect just dormant or dead cells. Although microbial biomass and diversity decrease with increasing aridity in the Atacama Desert, we provide multiple lines of evidence for the presence of an at times metabolically active, microbial community in one of the driest places on Earth. We base this observation on four major lines of evidence: (i) a physico-chemical characterization of the soil habitability after an exceptional rain event, (ii) identified biomolecules indicative of potentially active cells [e.g., presence of ATP, phospholipid fatty acids (PLFAs), metabolites, and enzymatic activity], (iii) measurements of in situ replication rates of genomes of uncultivated bacteria reconstructed from selected samples, and (iv) microbial community patterns specific to soil parameters and depths. We infer that the microbial populations have undergone selection and adaptation in response to their specific soil microenvironment and in particular to the degree of aridity. Collectively, our results highlight that even the hyperarid Atacama Desert can provide a habitable environment for microorganisms that allows them to become metabolically active following an episodic increase in moisture and that once it decreases, so does the activity of the microbiota. These results have implications for the prospect of life on other planets such as Mars, which has transitioned from an earlier wetter environment to today’s extreme hyperaridity.
Schulze-Makuch, Dirk↗
The crop growth research chamber
The Crop Growth Research Chamber (CGRC) has been defined by CELSS principle investigators and science advisory panels as a necessary ground-based tool in the development of a regenerative life support system. The focus of CGRC research will be on the biomass production component of the CELSS system. The ground-based Crop Growth Research Chamber is for the study of plant growth and development under stringently controlled environments isolated from the external environment. The chamber has importance in three areas of CELSS activities: (1) crop research; (2) system control and integration, and (3) flight hardware design and experimentation. The laboratory size of the CGRC will be small enough to allow duplication of the unit, the conducting of controlled experiments, and replication of experiments, but large enough to provide information representative of larger plant communities. Experiments will focus on plant growth in a wide variety of environments and the effects of those environments on plant production of food, water, oxygen, toxins, and microbes. To study these effects in a closed system, tight control of the environment is necessary.
Wagenbach, Kimberly↗
Developing Rationale for Experimental Designs Employed During Forthcoming NASA Quesst Mission Community Noise Campaigns
Since the publication of R.A. Fisher’s “The Arrangement of Field Experiments” in 1926, the enumerated principles that contributed to the improvement of agricultural field experiments in the early 20th century (randomization, replication, blocking, and appropriate variation of factors) remain hallmarks of all well-designed clinical trials and scientific endeavors in the 21st century. Beginning in 2026, NASA will conduct community noise campaigns with the first-of-kind X-59 experimental aircraft to 1) demonstrate the possibility of quiet supersonic flight over land and 2) to collect live data about annoyance (a categorical response) in relation to estimated noise levels (an experimental factor) produced by the new noise phenomenon, a low-noise “sonic thump”. The resulting predicted relationship between perceptual response and estimated noise level, e.g., mixed logistic regression or related models in the class of generalized linear (mixed) models, is believed to be a useful policy tool that domestic and international regulators can use when deciding whether existing prohibitions of supersonic flight over land can be replaced with a noise-based limit. The X-59 is engineered with the expectation that annoyance in the tested ranges should be a rare outcome, and, consequently, NASA convened an interdisciplinary team to examine and refine the rationale underlying the experimental design for future community campaigns. In this presentation, we review relevant literature on experiments with rare binary outcomes, relate the deliberations of the NASA team to tenets of good experimental design, and highlight several challenges and operational realities of this ambitious campaign.
Design of Experiments; blocking; randomization; co↗
Searching for Biogeochemical Cycles on Mars
The search for life on Mars clearly benefits from a rigorous, yet broad, definition of life that compels us to consider all possible lines of evidence for a martian biosphere. Recent studies in microbial ecology illustrate that the classic definition of life should be expanded beyond the traditional definition of a living cell. The traditional defining characteristics of life are threefold. First, life is capable of metabolism, that is, it performs chemical reactions that utilize energy and also synthesize its cellular constituents. Second, life is capable of self-replication. Third, life can evolve in order to adapt to environmental changes. An expanded, ecological definition of life also recognizes that life is a community of organisms that must interact with their nonliving environment through processes called biogeochemical cycles. This regenerative processing maintains, in an aqueous conditions, a dependable supply of nutrients and energy for growth. In turn, life can significantly affect those processes that control the exchange of materials between the atmosphere, ocean, and upper crust. Because metabolic processes interact directly with the environment, they can alter their surroundings and thus leave behind evidence of life. For example, organic matter is produced from single-carbon-atom precursors for the biosynthesis of cellular constituents. This leads to a reservoir of reduced carbon in sediments that, in turn, can affect the oxidation state of the atmosphere. The harvesting of chemical energy for metabolism often employs oxidation-reduction reactions that can alter the chemistry and oxidation state of the redox-sensitive elements carbon, sulfur, nitrogen, iron, and manganese. Have there ever been biogeochemical cycles on Mars? Certain key planetary processes can offer clues. Active volcanism provides reduced chemical species that biota can use for organic synthesis. Volcanic carbon dioxide and methane can serve as greenhouse gases. Thus the persistence of volcanism on Mars may well have influenced the persistence of a martian biosphere. The geologic processing of the crust can affect the availability of nutrients and also control the deposition of minerals that could have served as a medium for the preservation of fossil information. Finally, the activity of liquid water is crucial to life. Was there ever an Earth-like hydrologic cycle with rainfall? Has aqueous activity instead been restricted principally to hydrothermal activity below the surface? To what extent did the inorganic chemistry driven by sunlight and hydrothermal activity influence organic chemistry (prebiotic chemical evolution)? This paper addresses these and other key questions.
DesMarais, David J.↗
Northern Great Plains Disasters: Using Earth Observations to Enhance Flood Monitoring on Tribal Lands in the Northern Great Plains
In 2019, the Great Plains experienced unprecedented catastrophic flooding. Large flood events are predicted to increase in frequency and severity, posing risks to communities in this region, particularly Tribal Nations. We used data from Sentinel-1 C-band Synthetic Aperture Radar (C-SAR), imagery from the Sentinel-2 MultiSpectral Instrument (MSI), and digital elevation models (DEMs) from the Shuttle Radar Topography Mission (SRTM) within Google Earth Engine to map historical floods in the region beginning in 2014 with particular attention to the Rosebud Sioux Reservation and the tribal lands of other Great Plains Tribal Water Alliance members. This historical mapping used C-SAR for a combined method approach with a Z-score algorithm in addition to an index for flooded short vegetation. We also developed a flood risk map by weighting different flood predictor variables according to flood risk literature. These variables included soil drainage from the Soil Survey Geographic Database (SSURGO); elevation, slope, and Topographic Wetness Index (TWI) derived from digital elevation models; precipitation from Climate Hazards Group InfraRed Precipitation with Station data (CHIRPS); land cover from the National Land Cover Database (NLDC); and Normalized Difference Vegetation Index (NDVI) derived from Landsat 8 Operational Land Imager (OLI). From the flood extent and risk maps, we identified widespread flooding in short vegetation (including cropland) and noted flood susceptibility in regions exhibiting high social vulnerability and low community resilience (FEMA indices). We created an ArcGIS Online StoryMap to share project background, results, and data. Additionally, we provided a written tutorial so partners may replicate the flood mapping for future flood events.
Anna Ballasiotes↗
Designing a Better Spacecraft: Assessing Flight Operability of Human Rated Spacecraft
The design of a human rated spacecraft is a complex and costly process requiring the integrated assessment of many individual criteria. Historically, it has been difficult to include in that integrated assessment the design s full impact on the flight operations community and its costs. The unique "operability requirements" have not been well understood, nor has there been a well-defined set of criteria for assessing operability. As a result, flight operations organizations and program managers are often faced with difficult and costly operations phase implementations. In response, the Mission Operations Directorate at NASA s Lyndon B. Johnson Space Center has established a formal technique to evaluate and communicate the operational characteristics of spacecraft system designs for the Constellation Program. This process is not intended to replace or replicate other critical assessments such as risk, reliability and safety assessments. Instead, this new technique adds to the assessment toolset a means to address the concerns and potential cost drivers that are unique to the operational phase of a program and the flight operations community. This paper describes the implementation and application of this "Spacecraft Flight Operability Assessment Scale" in supporting vehicle design efforts. The six key factors of flight operability are defined, with guiding principles and goals stated for each factor. A standardized rating technique provides feedback that is useful to both the operations and program management communities. Sample assessments of legacy spacecraft, including the Space Shuttle and International Space Station systems, are provided to provide real world examples of this technique s application.
Crocker, Alan R.↗
Stability, reliability and cross-mode correlations of tests in a recommended 8-minute performance assessment battery
A need exists for an automated performance test system to study drugs, agents, treatments, and stresses of interest to the aviation, space, and environmental medical community. The purpose of this present study is to evaluate tests for inclusion in the NASA-sponsored Automated Performance Test System (APTS). Twenty-one subjects were tested over 10 replications with tests previously identified as good candidates for repeated-measure research. The tests were concurrently administered in paper-and-pencil and microcomputer modes. Performance scores for the two modes were compared. Data from trials 1 to 10 were examined for indications of test stability and reliability. Nine of the ten APT system tests achieved stability. Reliabilities were generally high. Cross-correlation of microbased tests with traditional paper-and-pencil versions revealed similarity of content within tests in the different modes, and implied at least three cognition and two motor factors. This protable, inexpensive, rugged, computerized battery of tests is recommended for use in repeated-measures studies of environmental and drug effects on performance. Identification of other tests compatible with microcomputer testing and potentially capable of tapping previously unidentified factors is recommended. Documentation of APTS sensitivity to environmental agents is available for more than a dozen facilities and is reported briefly. Continuation of such validation remains critical in establishing the efficacy of APTS tests.
Wilkes, R. L.↗
Annoyance by aircraft noise and fear of overflying aircraft in relation to attitudes toward the environment and community
It has been suggested that expressions of annoyance attributable to aircraft noise may reflect in part fear of aircraft overflights and possible crashes. If this is true, then residents of areas where crashes have occurred should express more annoyance. To test this hypothesis, 50 residents of an Albany, New York area where an aircraft crash producing fatalities recently occurred and 50 residents of a comparable nearby area without such a history, were asked to respond to a 'Quality of Life Questionnaire.' Among the items were some designed to test annoyance by noise and fear of aircraft overflights. It was predicted that those in the crash area would express more fear and would more often identify aircraft as a noise source. These hypotheses were sustained. A near-replication was carried out in Louisville, Kentucky; results were much the same. Analyses indicated that for the crash-area groups, there was associating of aircraft fear and noise annoyance responses; this was true to an apparently lesser extent for non-crash groups. The greater annoyance of crash groups by aircraft community noise apparently does not carry over to situations in which aircraft noise is assessed in the laboratory.
Loeb, M.↗
Intermountain West Wildland Fires: Mapping Tree Mortality and Burn Patches using NASA Earth Observations to Determine Fire Risk and Inform Fire Management Practices
Within the intermountain west, monitoring fuel loads is a major concern for wildland fire management efforts. To address this concern, we partnered with the U.S. Forest Service to inform the agency which forested areas should be prioritized for prescribed burning and fuel reduction near human communities in the Bridger-Teton National Forest, Wyoming. We created burn maps, fuel load maps, and a tutorial document to identify forest impact trends and provide the partner with the tools to replicate project methods for expansion to other wildfire crisis strategy sites. These end products were made using two NASA Earth observations: Landsat 8 Operational Land Imager and Shuttle Radar Topography Mission. Based on our random forest analysis, our maps identified 998 acres within the Wildland Urban Interface that are predicted to have high fuel loading and high burn severity within the Bridger-Teton National Forest. Forested areas closer to heavily populated areas such as Jackson, Kelly, Moran, New Forks Lake, and Star Valley Ranch should be prioritized for fuel reduction. However, our random forest model analysis was limited to using vegetation and topographical indices with no field data for model validation. Therefore, future studies should use field data for model validation to improve model accuracy and additionally incorporate Global Ecosystem Dynamics Investigation data into models to create better predictions of forested areas with high fuel load and high burn severity.
Remote Sensing↗
The HEROIX Broadband X-Ray Space Telescope Mission Concept
The High EneRgy Observatory for Imaging X-rays (HEROIX) Medium-Class Mission concept envisions a next-generation broadband X-ray observatory designed to meet the astrophysics community’s need for high-angular-resolution studies of the Cosmic X-ray Background. Building on the science legacy of NASA’s NuSTAR mission and more than 30 years of advances in replicated NiCo shell technology at NASA Marshall, HEROIX proposes a space observatory comprising four co-aligned telescopes achieving 5 arcsecond half-power diameter (HPD) angular resolution. This capability, approached by the resolution demonstrated in the FOXSI-4 sounding rocket mission and under development through the SuperHERO balloon mission, will be extended to energies up to 80 keV through multilayer coatings. Marshall’s inhouse precision optics manufacturing enables an integrated effective area of 380 cm² at 30 keV, which, combined with high-resolution optics, opens new windows into extreme astrophysical non-thermal processes.
Nick Thomas↗
Effects of warming and drying of soils on the ectomycorrhizal community of a mixed Pinus contorta/Picea engelmannii stand in Yellowstone Park
Restriction Fragment Length Polymorphisms (RFLPs) analyses were used to determine patterns of change in ectomycorrhizal community structure response to seasonal warming and drying of soils. Soil cores (42 total, 21 from cold and wet soil in early June, and 21 from dry, warm soil in late August) were collected from replicate blocks in a mixed-conifer forest stand in Yellowstone. Results indicated no significant differences in species richness (2.62 species/core, SE 0.2 in June; 3.25, SE 0.2 in August), however there was a significant effect on ectomycorrhizal infection (P<0.05), mean number of EM tips/core was significantly lower in June (185.8, SE 34) than in August (337 SE 78). Data indicated no difference in overall EM fungal species composition, however among system dominants, two species (Cortinarius 9 and Cortinarius 10) were more abundant in August than in June (P<0.02). The remaining dominant fungal species exhibited no differences in relative abundance. Results are discussed in relation to soil fertility and composition.
Cullings, Kenneth↗
The Use of Returned Martian Samples to Evaluate the Possibility of Extant Life on Mars
The formal life-related objective of the M-2020 sample-collecting rover is to seek the signs of ancient life. The rover will not enter ''special regions'' on Mars where Earth life may replicate or extant Martian life forms are likely to exist. Therefore, returned samples will not specifically be chosen for the purpose of discovering extant life unless something unexpected is encountered in the field. Regardless, the astrobiological community is highly interested investigating whether or not there is extant life in/on these samples.
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