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At least 397 records · Page 22
All sourcesNASA NTRSDOE OSTI
DOE OSTI2022

Photoelectron spectroscopy in molecular physical chemistry

Photoelectron spectroscopy has long been a powerful method in the toolbox of experimental physical chemistry and molecular physics. Recent improvements in coincidence methods, charged-particle imaging, and electron energy resolution have greatly expanded the variety of environments in which photoelectron spectroscopy can be applied, as well as the range of questions that can now be addressed. In this Perspectives Article, we focus on selected recent studies that highlight these advances and research areas. Furthermore, the topics include reactive intermediates and new thermochemical data, high-resolution comparisons of experiment and theory using methods based on pulsed-field ionisation (PFI), and the application of photoelectron spectroscopy as an analytical tool to monitor chemical reactions in complex environments, like model flames, catalytic or high-temperature reactors.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2022

Direct evidence of the dominant role of multiphoton permanent-dipole transitions in strong-field dissociation of NO 2 +

We study laser-induced dissociation of a metastable NO 2+ ion-beam target into N + +O + , focusing on the prominent contribution by molecules breaking parallel to the polarization at high peak laser intensity (~10 15 W/cm 2 ). Our experimental results and time-dependent Schrödinger equation calculations show that, contrary to commonly held intuition that electronic transitions always prevail, the dominant process underlying this highly aligned dissociation is a multiphoton permanent-dipole transition involving only the electronic ground state and leading to its vibrational continuum. Strong-field permanent-dipole transitions should thus be considered generally, as they may play a significant role in other heteronuclear molecules. Moreover, their role should only grow in importance for longer wavelengths, a trending direction in ultrafast laser studies.

74 ATOMIC AND MOLECULAR PHYSICS↗
DOE OSTI2020

Chiral plasmonic metasurface absorbers in the mid-infrared wavelength range

Chiral metamaterials in the mid-infrared wavelength range have tremendous potential for studying thermal emission manipulation and molecular vibration sensing. In this work, we present one type of chiral plasmonic metasurface absorber with high circular dichroism (CD) in absorption of more than 0.56 across the mid-infrared wavelength range of 5-5.5 mu m. The demonstrated chiral metasurface absorbers exhibit a maximum chiral absorption of 0.87 and a maximum CD in absorption of around 0.60. By adjusting the geometric parameters of the unit cell structure of the metasurface, the chiral absorption peak can be shifted to different wavelengths. Due to the strong chiroptical response, the thermal analysis of the designed chiral metasurface absorber further shows the large temperature difference between the left-handed and right-handed circularly polarized light. The demonstrated results can be utilized in various applications such as molecular detection, mid-infrared filter, thermal emission, and chiral imaging.

42 ENGINEERING↗
DOE OSTI2023

Many but not all deep neural network audio models capture brain responses and exhibit correspondence between model stages and brain regions

Models that predict brain responses to stimuli provide one measure of understanding of a sensory system and have many potential applications in science and engineering. Deep artificial neural networks have emerged as the leading such predictive models of the visual system but are less explored in audition. Prior work provided examples of audio-trained neural networks that produced good predictions of auditory cortical fMRI responses and exhibited correspondence between model stages and brain regions, but left it unclear whether these results generalize to other neural network models and, thus, how to further improve models in this domain. We evaluated model-brain correspondence for publicly available audio neural network models along with in-house models trained on 4 different tasks. Most tested models outpredicted standard spectromporal filter-bank models of auditory cortex and exhibited systematic model-brain correspondence: Middle stages best predicted primary auditory cortex, while deep stages best predicted non-primary cortex. However, some state-of-the-art models produced substantially worse brain predictions. Models trained to recognize speech in background noise produced better brain predictions than models trained to recognize speech in quiet, potentially because hearing in noise imposes constraints on biological auditory representations. The training task influenced the prediction quality for specific cortical tuning properties, with best overall predictions resulting from models trained on multiple tasks. The results generally support the promise of deep neural networks as models of audition, though they also indicate that current models do not explain auditory cortical responses in their entirety.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

Herbig–Haro Outflows in Circinus W

We report the discovery of new Herbig–Haro (HH) outflows in the Western Circinus molecular cloud. They were found using a color-composite imaging method that reveals faint Hα emission in complex environments. Follow-up observations in [S ii] confirmed their classification as HH objects. Nearly half of the newly discovered objects are part of the HH 76 outflow and are associated with a likely young stellar object (YSO) candidate. We also identify the source of a second outflow. Three newly discovered objects are part of a third outflow whose origin is unknown. Four more HH objects are also discovered, each of which has a location and morphology that does not suggest an origin. In total there must be at least five YSOs in the field currently producing outflows. The discovery of new HH objects and associated driving sources in this cloud complex provides more evidence for active star formation and a relatively young age in this seldom-studied region.

79 ASTRONOMY AND ASTROPHYSICS↗
NASA NTRS1990

Star formation in small globules - Bart Bok was correct

A large sample of optically selected, small molecular clouds (Bok globules) has been probed using IRAS coadded images to search for associated young stellar objects. The IRAS images were examined for point sources located within the boundaries of the optical and infrared extents of 248 clouds. A total of 57 of the globules (23 percent of the sample) show evidence for associated point sources. From a comparison of the 12- and 25-micron fluxes of these objects, a distribution of spectral indices consistent with the presence of circumstellar dust is found. Similar analysis of other point sources within the IRAS images, but far from the globule boundaries, shows only normal stellar spectral indices. All young stars more massive than 0.7 solar masses were likely found. However, extrapolation of a Miller-Scalo (1979) initial mass function to the hydrogen-burning limit indicates that only about 20 percent of the total number of stars were found. It is therefore likely that almost every Bok globule harbors a young star. The inferred star formation efficiency is about 6 percent, again based on the Miller-Scalo initial mass function. Interestingly, this is the best test in 43 years of the conjecture made by Bok, that dust globules could represent the earliest stage of star formation. His conjecture was correct.

Yun, Joao Lin↗
NASA NTRS1998

The Anatomy of the Perseus Spiral Arm: 12 CO and IRAS Imaging Observations of the W3-W4-W5 Cloud Complex

Panoramic images of 12CO J = 1-0 and thermal dust emissions from the W3-W4-W5 region of the outer Galaxy are presented. These data and recently published H I 21 cm line emission images provide an approximate 1' resolution perspective to the dynamics and thermal energy content of the interstellar gas and dust components contained within a 9 deg. arc of the Perseus spiral arm. We tabulate the molecular properties of 1560 clouds identified as closed surfaces within the l-b-v CO data cube at a threshold of 0.9 K T* (sub R). Relative surface densities of the molecular (28:1) and atomic (2.5:1) gas components determined within the arm and interarm velocity intervals demonstrate that the gas component that enters the spiral arm is predominantly atomic. Molecular clouds must necessarily condense from the compressed atomic material that enters the spiral arm and are likely short lived within the interarm regions. From the distribution of centroid velocities of clouds, we determine a random cloud-to-cloud velocity dispersion of 4 km s (exp. -1) over the width of the spiral arm but find no clear evidence within the molecular gas for streaming motions induced by the spiral potential. The far-infrared images are analyzed with the CO J = 1-0 and H I 21 cm line emission. The enhanced UV (Ultraviolet) radiation field from members of the Cas OB6 association and embedded newborn stars provide a significant source of heating to the extended dust component within the Perseus arm relative to the quiescent cirrus regions. Much of the measured far-infrared flux (69% at 60 micrometers and 47% at 100 micrometers) originates from regions associated with star formation rather than the extended, infrared cirrus component.

Heyer, Mark H.↗
NASA NTRS1998

The Anatomy of the Perseus Spiral ARM: (sup 12)CO and IRAS Imaging Observations of the W3-W4-W5 Cloud Complex

Panoramic images of (sup l2)CO J = 1-0 and thermal dust emissions from the W3-W4-W5 region of the outer Galaxy are presented. These data and recently published H (sub I) 21 cm line emission images provide an approx. 1 min resolution perspective to the dynamics and thermal energy content of the interstellar gas and dust components contained within a 9 deg arc of the Perseus spiral arm. We tabulate the molecular properties of 1560 clouds identified as closed surfaces within the l-b-v CO data cube at a threshold of 0.9 K T(sup *)(sub R). Relative surface densities of the molecular (28:1) and atomic (2.5: 1) gas components determined within the arm and interarm velocity intervals demonstrate that the gas component that enters the spiral arm is predominantly atomic. Molecular clouds must necessarily condense from the compressed atomic material that enters the spiral arm and are likely short lived within the interarm regions. From the distribution of centroid velocities of clouds, we determine a random cloud-to-cloud velocity dispersion of 4 km/s over the width of the spiral arm but find no clear evidence within the molecular gas for streaming motions induced by the spiral potential. The far-infrared images are analyzed with the CO J = 1-0 and H (sub I) 21 cm line emission. The enhanced UV radiation field from members of the Cas OB6 association and embedded newborn stars provide a significant source of heating to the extended dust component within the Perseus arm relative to the quiescent cirrus regions. Much of the measured far-infrared flux (69% at 60 microns and 47% at 100 microns) originates from regions associated with star formation rather than the extended, infrared cirrus component.

Heyer, Mark H.↗
DOE OSTI2021

High-Resolution Imaging of Unstained Polymer Materials

Electron microscopy has played an important role in polymer characterization. Traditionally, electron diffraction is used to study crystalline polymers while transmission electron microscopy is used to study microphase separation in stained block copolymers and other multiphase systems. We describe developments that eliminate the barrier between these two approaches - it is now possible to image polymer crystals with atomic resolution. The focus of this Review is on high-resolution imaging (30 Å and smaller) of unstained polymers. Recent advances in hardware allow for capturing numerous (as many as 105) low-dose images from an unperturbed specimen; beam damage is a significant barrier to high-resolution electron microscopy of polymers. Machine-learning-based software is then used to sort and average the images to retrieve pristine structural information from a collection of noisy images. Acknowledging the heterogeneity in polymer samples prior to averaging is essential. Molecular conformations in a wide range of amphiphilic block copolymers, polymerized ionic liquids, and conjugated polymers can be gleaned from two-dimensional projections (2D), three-dimensional (3D) tomograms, and four-dimensional (4D) scanning transmission electron microscopy (STEM) data sets where 2D diffraction patterns are taken as a function of position. Some methods such as phase contrast STEM have been used to image closely related materials such as metal-organic frameworks but not polymers. With improvements in hardware and software, such methods may soon be applied to polymers. Our goal is to provide a comprehensive understanding of the strategies toward the high-resolution imaging of radiation sensitive polymer materials at different length scales.

36 MATERIALS SCIENCE↗
NASA NTRS2003

Phase Sensitive X-Ray Diffraction Imaging Study of Protein Crystals

The study of defects and growth of protein crystals is of importance in providing a fundamental understanding of this important category of systems and the rationale for crystallization of better ordered crystals for structural determination and drug design. Yet, as a result of the extremely weak scattering power of x-rays in protein and other biological macromolecular crystals, the extinction lengths for those crystals are extremely large and, roughly speaking, of the order of millimeters on average compared to the scale of micrometers for most small molecular crystals. This has significant implication for x-ray diffraction and imaging study of protein crystals, and presents an interesting challenge to currently available x-ray analytical techniques. We proposed that coherence-based phase sensitive x-ray diffraction imaging could provide a way to augment defect contrast in x-ray diffraction images of weakly diffracting biological macromolecular crystals. I shall examine the principles and ideas behind this approach and compare it to other available x-ray topography and diffraction methods. I shall then present some recent experimental results in two model protein systems-cubic apofemtin and tetragonal lysozyme crystals to demonstrate the capability of the coherence-based imaging method in mapping point defects, dislocations, and the degree of perfection of biological macromolecular crystals with extreme sensitivity. While further work is under way, it is intended to show that the observed new features have yielded important information on protein crystal perfection and nucleation and growth mechanism otherwise unobtainable.

Hu, Z. W.↗
NASA NTRS1987

Detection of CO(1-0) emission and optical imaging of the Seyfert galaxy/QSO Markarian 231

The detection of CO(J = 1-0) emission and optical imaging of the luminous infrared galaxy Markarian 231 are reported. The galaxy is extremely rich in molecular gas with MT(H2) approximately equal to 1.4 x 10 to the 10th solar masses, approximately 5 times the molecular gas content of the Galaxy. Markarian 231 is the most luminous object in the local universe (z approximately equal to or less than 0.1), with a far-infrared luminosity (lambda = 40-400 microns) of 2.1 x 10 to the 12th solar luminosities. THe CO detection yields a L(FIR)/M(H2) ratio of 150. A deep optical CCD image shows two striking tidal tails with total extent of about 75 kpc. The CCD image strongly suggests that Markarian 231 is an advanced merger system. If the molecular gas is highly concentrated in the nuclear region it may fuel an intense starburst and possibly feed the accretion onto an embedded QSO. The trigger for the intense activity observed in Markarian 231 appears to be the collision of two gas-rich spiral galaxies.

Sanders, D. B.↗
DOE OSTI2020

Multicolor polymeric carbon dots: synthesis, separation and polyamide-supported molecular fluorescence

Multicolor carbon dots (CDs) have been developed recently and demonstrate great potential in bio-imaging, sensing, and LEDs. However, the fluorescence mechanism of their tunable colors is still under debate, and efficient separation methods are still challenging. Herein, we synthesized multicolor polymeric CDs through solvothermal treatment of citric acid and urea in formamide. Automated reversed-phase column separation was used to achieve fractions with distinct colors, including blue, cyan, green, yellow, orange and red. This work explores the physicochemical properties and fluorescence origins of the red, green, and blue fractions in depth with combined experimental and computational methods. Three dominant fluorescence mechanism hypotheses were evaluated by comparing time-dependent density functional theory and molecular dynamics calculation results to measured characteristics. We find that blue fluorescence likely comes from embedded small molecules trapped in carbonaceous cages, while pyrene analogs are the most likely origin for emission at other wavelengths, especially in the red. Also important, upon interaction with live cells, different CD color fractions are trafficked to different sub-cellular locations. Super-resolution imaging shows that the blue CDs were found in a variety of organelles, such as mitochondria and lysosomes, while the red CDs were primarily localized in lysosomes. These findings significantly advance our understanding of the photoluminescence mechanism of multicolor CDs and help to guide future design and applications of these promising nanomaterials.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2022

Understanding interactions between biomolecules and two-dimensional nanomaterials using in silico microscopes

We report two-dimensional (2D) nanomaterials such as graphene are increasingly used in research and industry for various biomedical applications. Extensive experimental and theoretical studies have revealed that 2D nanomaterials are promising drug delivery vehicles, yet certain materials exhibit toxicity under biological conditions. So far, it is known that 2D nanomaterials possess strong adsorption propensities for biomolecules. To mitigate potential toxicity and retain favorable physical and chemical properties of 2D nanomaterials, it is necessary to explore the underlying mechanisms of interactions between biomolecules and nanomaterials for the subsequent design of biocompatible 2D nanomaterials for nanomedicine. The purpose of this review is to integrate experimental findings with theoretical observations and facilitate the study of 2D nanomaterial interaction with biomolecules at the molecular level. We discuss the current understanding and progress of 2D nanomaterial interaction with proteins, lipid membranes, and DNA based on molecular dynamics (MD) simulation. In this review, we focus on the 2D graphene nanosheet and briefly discuss other 2D nanomaterials. With the ever-growing computing power, we can image nanoscale processes using MD simulation that are otherwise not observable in experiment. We expect that molecular characterization of the complex behavior between 2D nanomaterials and biomolecules will help fulfill the goal of designing effective 2D nanomaterials as drug delivery platforms.

2D nanomaterials↗
NASA NTRS2016

Gemini Near Infrared Field Spectrograph Observations of the Seyfert 2 Galaxy MRK 573: In Situ Acceleration of Ionized and Molecular Gas Off Fueling Flows

We present near-infrared and optical emission-line and stellar kinematics of the Seyfert 2 galaxy Mrk 573 using the Near-Infrared Field Spectrograph (NIFS) at Gemini North and Dual Imaging Spectrograph at Apache Point Observatory, respectively. By obtaining full kinematic maps of the infrared ionized and molecular gas and stellar kinematics in approximately 700 x 2100 pc(exp 2) circumnuclear region of Mrk 573, we find that kinematics within the Narrow-Line Region are largely due to a combination of both rotation and in situ acceleration of material originating in the host disk. Combining these observations with large-scale, optical long-slit spectroscopy that traces ionized gas emission out to several kpcs, we find that rotation kinematics dominate the majority of the gas. We find that outflowing gas extends to distances less than 1 kpc, suggesting that outflows in Seyfert galaxies may not be powerful enough to evacuate their entire bulges.

galaxies: active – galaxies: individual (Mrk 573↗
NASA NTRS1999

KWIC: A Widefield Mid-Infrared Array Camera/Spectrometer for the KAO

This grant covered a one year data analysis period for the data we obtained with the Kuiper Widefield Infrared Camera (KWIC) on the KAO during CY94 and CY95. A fairly complete list of scientific papers produced, or soon to be produced under this award is contained at the end of this report. Below we summarize some of the highlights of the work we did under this grant. KWIC Imaging of the Orion Nebula. KWIC was successfully developed under the KAO grants program (NASA grant NAG2-800). First funding arrived in November of 1992, and we flew our first two flights in February of 1994 -just 15 months later. These flights were very successful. We imaged the Orion Nebula in the 37.7 micron continuum and [SiII] 35 micron line and imaged M82 and Arp299 in the 37.7 micron continuum. Our Orion image demonstrates that the 37.7 micron continuum arises in the warm dust associated with the photodissociated surfaces (photodissociation regions, or PDRs) of molecular clouds. We use the brightness and color temperature distribution to ascertain the morphology of the Orion PDR. The [SiII] image of Orion encompassed the entire Orion A HII region and its enveloping PDR. Most of the emission in the PDR regions of the map appears to coincide very well with our 37.7 micron continuum map indicating a PDR origin for the [SiII] in agreement with theoretical predictions. The [SiII] line emission is very clumpy in the PDR directly imaging the clump spectrum indirectly ascertained by examining the distribution and flux ratios of [CII] and [0I] far-IR fine structure line, and high J CO emission. We also detected very strong [SiII] line emission from the embedded BN-KL star formation region tracing the morphology and physical conditions of the high velocity shock from these very young stars.

Stacey, Gordon J.↗
DOE OSTI2021

Evolution of standardization and dissemination of cryo-EM structures and data jointly by the community, PDB, and EMDB

Cryogenic electron microscopy (cryo-EM) methods began to be used in the mid-1970s to study thin and periodic arrays of proteins. Following a half-century of development in cryo-specimen preparation, instrumentation, data collection, data processing and modeling software, cryo-EM has become a routine method for solving structures from large biological assemblies to small biomolecules at near to true atomic resolution. This review explores the critical roles played by the Protein Data Bank (PDB) and Electron Microscopy Data Bank (EMDB) in partnership with the community to develop the necessary infrastructure to archive cryo-EM maps and associated models. Public access to cryo-EM structure data has in turn facilitated better understanding of structure-function relationships and advancement of image processing and modeling tool development. The partnership between the global cryo-EM community and PDB and EMDB leadership has synergistically shaped the standards for metadata, one-stop deposition of maps and models, and validation metrics to assess the quality of cryo-EM structures. The advent of cryo-electron tomography (cryo-ET) for in situ molecular cell structures at a broad resolution range and their correlations with other imaging data introduces new data archival challenges in terms of data size and complexity in the years to come.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2020

Cryogenic single-molecule fluorescence annotations for electron tomography reveal in situ organization of key proteins in Caulobacter

Superresolution fluorescence microscopy and cryogenic electron tomography (CET) are powerful imaging methods for exploring the subcellular organization of biomolecules. Superresolution fluorescence microscopy based on covalent labeling highlights specific proteins and has sufficient sensitivity to observe single fluorescent molecules, but the reconstructions lack detailed cellular context. CET has molecular-scale resolution but lacks specific and nonperturbative intracellular labeling techniques. Here, we describe an imaging scheme that correlates cryogenic single-molecule fluorescence localizations with CET reconstructions. Our approach achieves single-molecule localizations with an average lateral precision of 9 nm, and a relative registration error between the set of localizations and CET reconstruction of ∼30 nm. We illustrate the workflow by annotating the positions of three proteins in the bacterium Caulobacter crescentus : McpA, PopZ, and SpmX. McpA, which forms a part of the chemoreceptor array, acts as a validation structure by being visible under both imaging modalities. In contrast, PopZ and SpmX cannot be directly identified in CET. While not directly discernable, PopZ fills a region at the cell poles that is devoid of electron-dense ribosomes. We annotate the position of PopZ with single-molecule localizations and confirm its position within the ribosome excluded region. We further use the locations of PopZ to provide context for localizations of SpmX, a low-copy integral membrane protein sequestered by PopZ as part of a signaling pathway that leads to an asymmetric cell division. Our correlative approach reveals that SpmX localizes along one side of the cell pole and its extent closely matches that of the PopZ region.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
NASA NTRS1991

Low-pressure clathrate-hydrate formation in amorphous astrophysical ice analogs

In modeling cometary ice, the properties of clathrate hydrates were used to explain anomalous gas release at large radial distances from the Sun, and the retention of particular gas inventories at elevated temperatures. Clathrates may also have been important early in solar system history. However, there has never been a reasonable mechanism proposed for clathrate formation under the low pressures typical of these environments. For the first time, it was shown that clathrate hydrates can be formed by warming and annealing amorphous mixed molecular ices at low pressures. The complex microstructures which occur as a result of clathrate formation from the solid state may provide an explanation for a variety of unexplained phenomena. The vacuum and imaging systems of an Hitachi H-500H Analytical Electron Microscope was modified to study mixed molecular ices at temperatures between 12 and 373 K. The resulting ices are characterized by low-electron dose Transmission Electron Microscopy (TEM) and Selected Area Electron Diffraction (SAED). The implications of these results for the mechanical and gas release properties of comets are discussed. Laboratory IR data from similar ices are presented which suggest the possibility of remotely observing and identifying clathrates in astrophysical objects.

Blake, D. F.↗