The world of inner space
Electron microscope application to research in biological evolution and molecular structure
Fernandez-Moran, H.↗
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Results for “Structural biology”
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.
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Fluorescent probes of biological membranes
Fluorescent probes inserted into biological membranes for molecular structural and dynamic facets
Stryer, L.↗
The use of remote sensors to relate biological and physical indicators to environmental and public health problems
Relationships between biological, ecological and botanical structures, and disease organisms and their vectors which might be detected and measured by remote sensing are determined. In addition to the use of trees as indicators of disease or potential disease, an attempt is made to identify environmental factors such as soil moisture and soil and water temperatures as they relate to disease or health problems and may be detected by remote sensing. The following three diseases and one major health problem are examined: Malaria, Rocky Mountain spotted fever, Encephalitis and Red Tide. It is shown that no single species of vascular plant nor any one environmental factor can be used as the indicator of disease or health problems. Entire vegetation types, successional stages and combinations of factors must be used.
Source record↗
Macromolecular assemblies in reduced gravity environments
The assembly of protein macro molecules into structures commonly produced within biological systems was achieved using in vitro techniques carried out in nominal as well as reduced gravity environments. Appropriate hardware was designed and fabricated to support such studies. Experimental protocols were matched to the available reduced gravity test opportunities. In evaluations of tubulin, fibrin and collagen assembly products the influence of differing gravity test conditions are apparent. Product homogeneity and organization were characteristic enhancements documented in reduced gravity samples. These differences can be related to the fluid flow conditions that exist during in vitro product formation. Reduced gravity environments may provide a robust opportunity for directing the products formed in a variety of bioprocessing applications.
Moos, Philip J.↗
Nested Neural Networks
Report presents analysis of nested neural networks, consisting of interconnected subnetworks. Analysis based on simplified mathematical models more appropriate for artificial electronic neural networks, partly applicable to biological neural networks. Nested structure allows for retrieval of individual subpatterns. Requires fewer wires and connection devices than fully connected networks, and allows for local reconstruction of damaged subnetworks without rewiring entire network.
Baram, Yoram↗
Better, Cheaper, Faster Molecular Dynamics
Recent, revolutionary progress in genomics and structural, molecular and cellular biology has created new opportunities for molecular-level computer simulations of biological systems by providing vast amounts of data that require interpretation. These opportunities are further enhanced by the increasing availability of massively parallel computers. For many problems, the method of choice is classical molecular dynamics (iterative solving of Newton's equations of motion). It focuses on two main objectives. One is to calculate the relative stability of different states of the system. A typical problem that has' such an objective is computer-aided drug design. Another common objective is to describe evolution of the system towards a low energy (possibly the global minimum energy), "native" state. Perhaps the best example of such a problem is protein folding. Both types of problems share the same difficulty. Often, different states of the system are separated by high energy barriers, which implies that transitions between these states are rare events. This, in turn, can greatly impede exploration of phase space. In some instances this can lead to "quasi non-ergodicity", whereby a part of phase space is inaccessible on time scales of the simulation. To overcome this difficulty and to extend molecular dynamics to "biological" time scales (millisecond or longer) new physical formulations and new algorithmic developments are required. To be efficient they should account for natural limitations of multi-processor computer architecture. I will present work along these lines done in my group. In particular, I will focus on a new approach to calculating the free energies (stability) of different states and to overcoming "the curse of rare events". I will also discuss algorithmic improvements to multiple time step methods and to the treatment of slowly decaying, log-ranged, electrostatic effects.
Pohorille, Andrew↗
Method and apparatus for subsurface exploration
A subsurface explorer (SSX) for exploring beneath the terrestrial surface of planetary bodies such as the Earth, Mars, or comets. This exploration activity utilizes appropriate sensors and instrument to evaluate the composition, structure, mineralogy and possibly biology of the subsurface medium, as well as perhaps the ability to return samples of that medium back to the surface. The vehicle comprises an elongated skin or body having a front end and a rear end, with a nose piece at the front end for imparting force to composition material of the planetary body. Force is provided by a hammer mechanism to the back side of a nose piece from within the body of the vehicle. In the preferred embodiment, a motor spins an intermediate shaft having two non-uniform threads along with a hammer which engages these threads with two conical rollers. A brake assembly halts the rotation of the intermediate shaft, causing the conical roller to spin down the non-uniform thread to rapidly and efficiently convert the rotational kinetic energy of the hammer into translational energy.
Wilcox, Brian↗
Space Biophysics: Accomplishments, Trends, Challenges
Physics and biology are inextricably linked. All the chemical and biological processes of life are dutifully bound to follow the rules and laws of physics. In space, these physical laws seem to turn on their head and biological systems, from microbes to humans, adapt and evolve in myriad ways to cope with the changed physical influences of the space environment. Gravity is the most prominent change in space that influences biology. In microgravity, the physical processes of sedimentation, density-driven convective flow, influence of surface tension and fluid pressure profoundly influence biology at the molecular and cellular level as well as at the whole-body level. Gravity sensing mechanisms are altered, structural and functional components of biology (such as bone and muscle) are reduced and changes in the way fluids and gasses behave also drive the way microbial systems and biofilms grow as well as the way plants and animals adapt. The radiation environment also effects life in space. Solar particle events and high energy cosmic radiation can cause serious damage to DNA and other biomolecules. The results can cause mutation, cellular damage or death, leading to health consequences of acute radiation damage or long-term health consequences such as increased cancer risk. Space Biophysics is the study and utilization of physical changes in space that cause changes in biological systems. The unique physical environment in space has been used successfully to grow high-quality protein crystals and 3D tissue cultures that could not be grown in the presence of unidirectional gravitational acceleration here on Earth. All biological processes that change in space have their root in a biophysical alteration due to microgravity and/or the radiation environment of space. In order to fully-understand the risks to human health in space and to fully-understand how humans, plants, animals and microbes can safely and effectively travel and eventually live for long periods beyond the protective environment of Earth, the biophysical properties underlying these changes must be studied, characterized and understood. This lecture reviews the current state of NASA biophysics research accomplishments and identifies future trends and challenges for biophysics research on the International Space Station and beyond.
Space Biophysics: Accomplishments↗
Structural Basis for Flip-Flop Action of Thiamin-Dependent Enzymes Revealed by Crystal Structure of Human Pyruvate Dehydrogenase
The biologically active derivative of vitamin B1; thiamin pyrophosphate; is used as cofactor by many enzymes that perform a wide range of catalytic functions in the pathways of energy production. In alpha2beta2-heterotetrameric human pyruvate dehydrogenase, the first catalytic component enzyme of human pyruvate dehydrogenase complex, this cofactor is used to cleave the C(sup alpha)-C(=0) bond of pyruvate followed by reductive acetyl transfer to lipoyl-dihydrolipoamide acetyltransferase, the second catalytic component of the complex. The dynamic nonequivalence of two, otherwise chemically equivalent, catalytic sites have puzzled researchers from earlier functional studies of this enzyme. In order to gain insight into the mechanism of action of this enzyme, we determined the crystal structure of the holoform of human pyruvate dehydrogenase at 1.958, resolution. We propose a kinetic model for the flip-flop action of this enzyme through the concerted approx. 2A, shuttle-like motion of the heterodimers. The similarity of thiamin pyrophosphate binding in human pyruvate dehydrogenase and other functionally related enzymes suggests this newly defined mechanism of shuttle-like motion of domains to be common for the family of thiamin pyrophosphate-dependent enzymes.
Ciszak, Ewa↗
Design and Testing of the BionicWingSat in a Zero-g Flight Campaign - A 2U-CubeSat with Deployable, Biologically-Inspired Wings
In this paper, recent developments in the design, manufacturing, and testing of a novel deployable structure with several potential applications in space will be described. Through a cooperative effort of the German Aerospace Center (DLR) and the National Aeronautics and Space Administration (NASA), a biologically inspired structurally integrated membrane featuring distributed functional elements has been developed and tested in a 2U CubeSat called BionicWingSat. Such a membrane structure could be useful for several applications in which a relatively flat area is desirable such as solar sails, drag sails, or solar shades. For SmallSats and CubeSats, the design proposed also has the desirable property of being self-deploying without the need for powered deployment mechanisms. Building on previous work inspired by the wings of earwigs, the research presented in this paper includes structural design of self-deploying hinges, a survey of various advanced additive layer manufacturing (ALM) methods for making hinges, mechanical characterization of the hinges, and finite element analysis (FEA) of the hinges. In this work, the conflicting goals of maximizing deployed structural stiffness, maximizing deployed area, maximizing stowed packaging efficiency, and maximizing resistance to creep when stowed must be considered. The resulting design concept is a gossamer structure that cannot support its own weight in gravity. For this reason, a focus in this paper is on a parabolic flight test campaign in which 24 fully integrated wings on two BionicWingSats were tested in a microgravity environment. From this test campaign, several lessons were learned regarding the wing design and procedures for carrying out microgravity tests of this manner.
CubeSat↗
Design and Testing of the BionicWingSat in a Zero-g Flight Campaign - A 2U-CubeSat with Deployable, Biologically-Inspired Wings
In this paper, recent developments in the design, manufacturing, and testing of a novel deployable structure with several potential applications in space will be described. Through a cooperative effort of the German Aerospace Center (DLR) and the National Aeronautics and Space Administration (NASA), a biologically inspired structurally integrated membrane featuring distributed functional elements has been developed and tested in a 2U CubeSat called BionicWingSat. Such a membrane structure could be useful for several applications in which a relatively flat area is desirable such as solar sails, drag sails, or solar shades. For SmallSats and CubeSats, the design proposed also has the desirable property of being self-deploying without the need for powered deployment mechanisms. Building on previous work inspired by the wings of earwigs, the research presented in this paper includes structural design of self-deploying hinges, a survey of various advanced additive layer manufacturing (ALM) methods for making hinges, mechanical characterization of the hinges, and finite element analysis (FEA) of the hinges. In this work, the conflicting goals of maximizing deployed structural stiffness, maximizing deployed area, maximizing stowed packaging efficiency, and maximizing resistance to creep when stowed must be considered. The resulting design concept is a gossamer structure that cannot support its own weight in gravity. For this reason, a focus in this paper is on a parabolic flight test campaign in which 24 fully integrated wings on two BionicWingSats were tested in a microgravity environment. From this test campaign, several lessons were learned regarding the wing design and procedures for carrying out microgravity tests of this manner.
CubeSat↗
Microbeam studies of the sensitivity of structures within living cells
Determining the biological effects of low doses of radiation with high linear energy transfer (LET) is complicated by the stochastic nature of charged-particle interactions. Populations of cells exposed to very low radiation doses contain a few cells which have been hit by a charged particle, while the majority of the cells receive no radiation damage. At somewhat higher doses, a few cells receive two or more events. Because the effects of damage produced by separate events can interact in the cell, we have had to make assumptions about the nature of these interactions in order to interpret the results of the experiments. Many of those assumptions can be tested if we can be sure of the number of charged-particle events which occur in individual cells, and correlate this number with the biological effect. We have developed a special irradiation facility at Pacific Northwest Laboratory (PNL) to control the actual number of charged particle tracks that pass through cell nuclei. The beam from a 2 MeV tandem accelerator is collimated to approximately 5 microns. Cells, grown in special dishes with 1.5 microns thick plastic bottoms, are positioned so that the desired portion of the cell aligns with the collimator. A shutter in the beam line is opened and closed after the desired number of particle tracks has been counted. This approach can be used to investigate the effects of the interaction between irradiated and unirradiated cells in an organized system, as well as to study the effects of spatial and temporal distribution of radiation damage within single cells.(ABSTRACT TRUNCATED AT 250 WORDS).
Non-NASA Center↗
Sedimentary Parameters Controlling Occurrence and Preservation of Microbial Mats in Siliciclastic Depositional Systems
Shallow-marine, siliciclastic depositional systems are governed by physical sedimentary processes. Mineral precipitation or penecontemporaneous cementation play minor roles. Today, coastal siliciclastic environments may be colonized by a variety of epibenthic, mat-forming cyanobacteria. Studies on microbial mats showed that they are not randomly distributed in modern tidal environments. Distribution and abundancy is mainly function of a particular sedimentary facies. Fine-grained sands composed of "clear" (translucent) quartz particles constitute preferred substrates for cyanobacteria. Mat-builders also favor sites characterized by moderate hydrodynamic flow regimes, which permit biomass enrichment and construction of mat fabrics without lethal burial of mat populations by fine sediments. A comparable facies relationship can be observed in ancient siliciclastic shelf successions from the terminal Neoproterozoic Nama Group, Namibia. Wrinkle structures that record microbial mats are present but sparsely distributed in mid- to inner shelf sandstones of the Nudaus Formation. The sporadic distribution of these structures reflects both the narrow ecological window that governs mat development and the distinctive taphonomic conditions needed to preserve the structures. These observations caution that statements about changing mat abundance across the Proterozoic-Cambrian boundary must be firmly rooted in paleoenvironmental and taphonomic analysis. Understanding the factors that influence the formation and preservation of microbial structures in siliciclastic regimes can facilitate exploration for biological signatures in Earth's oldest rocks. Moreover, insofar as these structures can be preserved on bedding surfaces and are not easily mimicked by physical processes, they constitute a set of biological markers that can be searched for on Mars by remotely controlled rovers.
Noffke, Nora↗
Concept-Development of a Structure Supported Membrane for Deployable Space Applications - From Nature to Manufacture and Testing
Current space applications of membrane structures include large area solar power arrays, solar sails, antennas, and numerous other large aperture devices like the solar shades of the new James Webb Space Telescope. These expandable structural systems, deployed in-orbit to achieve the desired geometry, are used to collect, reflect and/or transmit electromagnetic radiation. This work, a feasibility study supporting a diploma thesis, describes the systematic process for developing a biologically inspired concept for a structure supported (integrated) membrane, that features a rip stop principle, makes self-deployment possible and is part of an ultra-light weight space application. Novel manufacturing of membrane prototypes and test results are presented for the rip-stop concepts. Test data showed that the new membrane concept has a higher tear resistance than neat film of equivalent mass.
Zander, Martin↗
Zero-G Experiments of the BionicWingsat - A 2U-Cubesat with Deployable, Biologically-Inspired Wings
In this paper, recent testing of a novel deployable structure with several potential applications in space will be described, with the focus on performed deployment experiments in a DLR Zero-g flight campaign and in ground tests. Through a cooperative effort of the German Aerospace Center (DLR) and the National Aeronautics and Space Administration (NASA), a biologically-inspired structurally-integrated membrane featuring distributed functional elements has been developed and integrated into the 2U CubeSat called BionicWingSat. Such a membrane structure could be useful for all sorts of applications in which a relatively flat area is desirable such as solar sails, drag sails, or solar shades. For SmallSats and CubeSats, the design proposed also has the desirable property of being self-deploying without the need for powered deployment mechanisms. Building on previous work inspired by the wings of earwigs, the research presented in this paper focuses on testing of developed design concepts for such structural systems. To do so 24 fully integrated wings on two BionicWingSats in 2U Cubesat format were experimentally deployed in a microgravity environment during a dedicated DLR Zero-g flight campaign in 2021. The results of these experiments, the built hardware and test articles, the test arrangement, as well as a comparison to ground tests are discussed in this paper.
Spacecraft structures↗
The 'Biologically-Inspired Computing' Column
The field of Biology changed dramatically in 1953, with the determination by Francis Crick and James Dewey Watson of the double helix structure of DNA. This discovery changed Biology for ever, allowing the sequencing of the human genome, and the emergence of a "new Biology" focused on DNA, genes, proteins, data, and search. Computational Biology and Bioinformatics heavily rely on computing to facilitate research into life and development. Simultaneously, an understanding of the biology of living organisms indicates a parallel with computing systems: molecules in living cells interact, grow, and transform according to the "program" dictated by DNA. Moreover, paradigms of Computing are emerging based on modelling and developing computer-based systems exploiting ideas that are observed in nature. This includes building into computer systems self-management and self-governance mechanisms that are inspired by the human body's autonomic nervous system, modelling evolutionary systems analogous to colonies of ants or other insects, and developing highly-efficient and highly-complex distributed systems from large numbers of (often quite simple) largely homogeneous components to reflect the behaviour of flocks of birds, swarms of bees, herds of animals, or schools of fish. This new field of "Biologically-Inspired Computing", often known in other incarnations by other names, such as: Autonomic Computing, Pervasive Computing, Organic Computing, Biomimetics, and Artificial Life, amongst others, is poised at the intersection of Computer Science, Engineering, Mathematics, and the Life Sciences. Successes have been reported in the fields of drug discovery, data communications, computer animation, control and command, exploration systems for space, undersea, and harsh environments, to name but a few, and augur much promise for future progress.
Hinchey, Mike↗
Perceptual organization in computer vision - A review and a proposal for a classificatory structure
The evolution of perceptual organization in biological vision, and its necessity in advanced computer vision systems, arises from the characteristic that perception, the extraction of meaning from sensory input, is an intelligent process. This is particularly so for high order organisms and, analogically, for more sophisticated computational models. The role of perceptual organization in computer vision systems is explored. This is done from four vantage points. First, a brief history of perceptual organization research in both humans and computer vision is offered. Next, a classificatory structure in which to cast perceptual organization research to clarify both the nomenclature and the relationships among the many contributions is proposed. Thirdly, the perceptual organization work in computer vision in the context of this classificatory structure is reviewed. Finally, the array of computational techniques applied to perceptual organization problems in computer vision is surveyed.
Sarkar, Sudeep↗
Criteria for distinguishing biogenic and abiogenic amino acids - Preliminary considerations.
Criteria to determine the mode of origin of amino acids can be established by consideration of their structure, enantiometric distribution, composition, and relative abundance. A population of dominantly protein amino acids with one enantiomeric configuration most likely had a biological origin. Biological amino acids do racemize, however, so the absence of optical activity would not rule out the possibility that the amino acids in a racemic mixture were originally synthesized biologically. For racemic amino acids, therefore, structure, composition and relative abundance become important in ascertaining the origin of these compounds. Abiotically synthesized amino acids have a population composed of both protein and nonprotein structures present as racemic mixtures.
Kvenvolden, K. A.↗