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NASA NTRS1982

The effect of brokenness on cloud-climate sensitivity

A study has been made of the effect of brokenness on the infrared and albedo feedback of clouds in climate models using a simplified treatment of broken cloudiness. It is shown that the individual feedback terms computed using the plane-parallel assumption differ markedly from the computations performed for a regular array of cuboidal clouds. If the cloudiness changes such that clear areas become cloudy but the nature of the broken cloud field remains unchanged, then both the feedbacks are magnified, the infrared more so than the albedo. However, if individual elements in the cloud field are increased horizontally in a constrained area, the feedbacks can be enhanced or diminished depending on the cloud fraction and aspect ratio of the elements. It is also shown that, in the global average, the ratio of the change in outgoing infrared flux to global albedo, as deduced from satellite measurements, will be larger than model simulations using planiform clouds.

Harshvardhan, MR.↗

DOE OSTI2017

Volume changes upon heating of aerosol particles from biomass burning using transmission electron microscopy

The responses of aerosol particles to heating are important for measurements of their chemical, physical, and optical properties, classification, and determination of origin. However, the thermal behavior of organic aerosol particles is largely unknown. We provide a method to analyze such thermal behavior through heating from room temperature to >600°C by using a heating holder within a transmission electron microscope (TEM). Here we describe in-situ shape and size changes and variations in the compositions of individual particles before and after heating. We use ambient samples from wildland and agricultural biomass fires in North America collected during the 2013 Biomass Burn Observation Project (BBOP). The results indicate that individual tar balls (TB; spherical organic material) from biomass burning retained, on average, up to 30% of their volume when heated to 600°C. Chemical analysis reveals that K and Na remain in the residues, whereas S and O were lost. In contrast to bulk sample measurements of carbonaceous particles using thermal/optical carbon analyzers, our single-particle results imply that many individual organic particles consist of multiple types of organic matter having different thermal stabilities. Beyond TBs, our results suggest that because of their thermal stability some organic particles may not be detectable by using aerosol mass spectrometry or thermal/optical carbon analyzers. This result can lead to an underestimate of the abundance of TBs and other organic particles, and therefore biomass burning may have more influence than currently recognized in regional and global climate models.

Adachi, Kouji↗

NASA NTRS1993

Comparison of ozone profiles obtained with NIES DIAL and SAGE II measurements

Ozone profiles obtained with the Differential Absorption Lidar (DIAL) system at the National Institute for Environmental Studies (NIES) (Tsukuba, Japan) were compared with data provided by the satellite sensor SAGE II. The SAGE II data were selected based on criteria of spatial and temporal differences between the DIAL and the SAGE II measurements: five degrees in latitude and 15 degrees in longitude, within a latitudinal band from 31 deg to 41 deg N, and within one, three and five days after or before the DIAL measurements. Results show very good agreement for the individual and the zonal-mean profiles. The average mean difference between the DIAL and the SAGE II measurements over the altitudes 15-50 km was about 10 percent.

Nakane, Hideaki↗

DOE OSTI2020

Amylases in the Human Vagina

ABSTRACT Dominance of Lactobacillus species in vaginal communities is a hallmark of healthy conditions in the female genital tract. Key nutrients for lactobacilli include sugars produced when glycogen is degraded by α-amylase in the vagina. While α-amylase activity has been demonstrated in vaginal fluids, it is unclear whether α-amylases are produced solely by the host, bacteria in the vagina, or both. We screened cervicovaginal mucus from 23 reproductive-age women, characterized the species composition of vaginal communities, measured vaginal pH, and determined levels of amylase activity, glycogen, and lactic acid. Based on differences in these measured variables, one sample from each of four individual donors was selected for metagenomic and proteomic analyses. Of eight putative bacterial amylases identified in the assembled bacterial metagenomes, we detected four in vaginal fluids. These amylases were produced by various bacteria in different vaginal communities. Moreover, no two communities were the same in terms of which bacteria were producing amylases. Although we detected bacterial amylases in vaginal fluids, there was no clear association between the bacterial species that was dominant in a community and the level of amylase activity. This association was likely masked by the presence of human α-amylase, which was also detected in vaginal fluids. Finally, the levels of amylase activity and glycogen were only weakly associated. Our findings show, for the first time, that multiple amylases from both bacterial and human origins can be present simultaneously in the vagina. This work also suggests that the link between glycogen, amylase, and Lactobacillus in the vagina is complex. IMPORTANCE In this study, we show that multiple bacteria in the vaginal community produce amylases that hydrolyze glycogen into simpler sugars (i.e., maltose and maltotriose). These sugars serve as “common goods” that sustain bacterial populations in vaginal communities. Given the temporal changes that are observed in the human vaginal microbiome, we expect the kinds of bacterial amylases produced will also vary over time. These differences influence the pool of resources that are broadly shared and shape the species composition of the vaginal bacterial community.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2018

Active site residue identity regulates cleavage preference of LAGLIDADG homing endonucleases

LAGLIDADG homing endonucleases (meganucleases) are site-specific mobile endonucleases that can be adapted for genome-editing applications. However, one problem when reprogramming meganucleases on non-native substrates is indirect readout of DNA shape and flexibility at the central 4 bases where cleavage occurs. To understand how the meganuclease active site regulates DNA cleavage, we used functional selections and deep sequencing to profile the fitness landscape of 1600 I-LtrI and I-OnuI active site variants individually challenged with 67 substrates with central 4 base substitutions. The wild-type active site was not optimal for cleavage on many substrates, including the native I-LtrI and I-OnuI targets. Novel combinations of active site residues not observed in known meganucleases supported activity on substrates poorly cleaved by the wild-type enzymes. Strikingly, combinations of E or D substitutions in the two metal-binding residues greatly influenced cleavage activity, and E184D variants had a broadened cleavage profile. Analyses of I-LtrI E184D and the wild-type proteins co-crystallized with the non-cognate AACC central 4 sequence revealed structural differences that correlated with kinetic constants for cleavage of individual DNA strands. Optimizing meganuclease active sites to enhance cleavage of non-native central 4 target sites is a straightforward addition to engineering workflows that will expand genome-editing applications.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2019

Incubation temperature and social context affect the nest exodus of precocial ducklings

The environments that animals experience during development have important fitness consequences. In birds, parents influence the developmental environment of their offspring through incubation. Subtle changes in incubation temperature affect offspring morphology and physiology, such as growth, immune function, and thermoregulation, yet little is known about how it may affect critical early-life behaviors. Because expression of behavior can be influenced by the social environment, the effect of incubation temperature on behavior may be context-dependent. We investigated whether incubation temperature and social context influence a critical early-life task in wood ducks (Aix sponsa). Wood ducks nest in tree cavities and, shortly after hatching, ducklings must jump and climb out of the cavity. Failure to exit the nest is fatal. In 2 experiments, we incubated eggs at different mean temperatures and examined the nest exodus of ducklings individually and in mixed-incubation temperature pairs. When tested individually, ducklings incubated at 35.8 °C and 37.0 °C were ~2.5 times more successful at exiting the nest, and jumped and climbed more often, than those incubated at 35.0 °C. However, in an experiment conducted the following year, we found that social interactions mitigated these effects and there was no difference in nest exodus success when ducklings incubated at 35.0 °C and 36.0 °C were tested together in pairs. This may be because, when in pairs, ducklings incubated at the low-temperature experience social enhancement whereas those incubated at the high temperature maintain similar behaviors. Here, these results advance our understanding of how parental effects influence offspring behaviors and performance within different social contexts.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2022

Modulation of ENSO teleconnections over North America by the Pacific decadal oscillation

In this study, we investigate whether the Pacific decadal oscillation (PDO) can enhance or diminish El Niño Southern Oscillation (ENSO) temperature and precipitation teleconnections over North America using five single model initial-condition large ensembles (SMILEs). The use of SMILEs facilitates a statistically robust comparison of ENSO events that occur during different phases of the PDO. We find that a positive PDO enhances winter and spring El Niño temperature and precipitation teleconnections and diminishes La Niña teleconnections. A negative PDO has the opposite effect. The modulation of ENSO by the PDO is mediated by differences in the location and strength of the Aleutian Low and Pacific Jet during ENSO events under different phases of the PDO. This modulation is a simple combination of the individual effects of the PDO and ENSO over North America. Finally, we show that ENSO and the PDO can be used to evaluate the likelihood of the occurrence of temperature and precipitation anomalies in different regions, but cannot be used as a deterministic predictor of these anomalies due to the large variability between individual events.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2017

Cumulative effects of fire and drought in Mediterranean ecosystems

Here, the occurrence of multiple disturbances can jointly affect the recovery capacity of ecosystems, potentially leading to changes in vegetation dynamics or loss of resilience. The effects of interacting disturbances on ecosystems are, however, not well understood. We use a model system based on Mediterraneantype ecosystems (MTEs) to examine how the interplay between vegetation regeneration traits and compound, stochastic disturbances modulate ecosystem dynamics. We developed a state-and-transition simulation model including two tree species with contrasting regeneration strategies (seeder vs. resprouter) and a shrubland formation. We aim to assess potential compositional switches under contrasted scenarios of compound fire-drought regimes, and to characterize the cumulative effects of fire-drought (synergism vs. antagonism) relative to the effects of individual disturbance regimes. Our simulation results indicate that interaction between moderate fire and sporadic drought recurrence-as opposed to chronic dryness-can act as a strong mechanism generating highly heterogeneous landscapes in which different regeneration types coexist, as observed in MTEs. Resprouters dominated under individual, moderate disturbance regimes of fire or drought, whereas the interaction of the two disturbances promoted the longterm coexistence of both tree regeneration strategies. However, shrubland expansion and persistence at the expanse of forests was favored by increases in drought recurrence and associated fire-drought interactions, highlighting the potential for important vegetation changes in MTEs under climate change. Overall, the cumulative effects of fire and drought can lead to distinct landscape configurations under moderate disturbance regimes that are otherwise only attained under high frequency of individual disturbances. At the ecosystem level, however, we suggest that disturbance-induced vegetation dynamics can modify vegetation sensitivity and resilience to further disturbances precluding the prevalence of synergistic effects of the two disturbances.

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS1990

Scattering properties of woven fibrous insulations - Effects of interference for normal incidence

This paper examines the scattering properties of woven fibrous materials in order to model the interactions between the scattered radiation from individual fibers. A normally incident plane electromagnetic wave is considered and different representative geometries are analyzed theoretically. Experimental results are presented for specific woven thermal insulation fabrics. Previous studies in the literature have mostly ignored the effect of constructive or destructive addition of scattered waves from individual fibers with the exception of the case of parallel fibers. Whereas the light-scattering characteristics of a single long fiber depend only on the size parameter and on the material optical constants, the additional mechanism of interference between the scattered waves from fibers of parallel or perpendicular orientation introduces an additional dependence on fiber locations. In this study, analytical models are developed for obtaining the radiative scattering characteristics of woven fibrous media taking into account the mechanism of interference. Experimental measurements of forward- and backward-scattered light from a woven silica cloth over a broad range of wavelengths in the infrared are obtained and compared with the predicted results for a system of two orthogonal families of infinite parallel fibers.

Kumar, Sunil↗

DOE OSTI2020

Determinants of rural-urban differences in health care provider visits among women of reproductive age in the United States

Background Rural health disparities and access gaps may contribute to higher maternal and infant morbidity and mortality. Understanding and addressing access barriers for specialty women’s health services is important in mitigating risks for adverse childbirth events. The objective of this study was to investigate rural-urban differences in health care access for women of reproductive age by examining differences in past-year provider visit rates by provider type, and quantifying the contributing factors to these findings. Methods and findings Using a nationally-representative sample of reproductive age women (n = 37,026) from the Medical Expenditure Panel Survey (2010–2015) linked to the Area Health Resource File, rural-urban differences in past-year office visit rates with health care providers were examined. Blinder-Oaxaca decomposition analysis quantified the portion of disparities explained by individual- and county-level sociodemographic and provider supply characteristics. Overall, there were no rural-urban differences in past-year visits with women’s health providers collectively (65.0% vs 62.4%), however differences were observed by provider type. Rural women had lower past-year obstetrician-gynecologist (OB-GYN) visit rates than urban women (23.3% vs. 26.6%), and higher visit rates with family medicine physicians (24.3% vs. 20.9%) and nurse practitioners/physician assistants (NPs/PAs) (24.6% vs. 16.1%). Lower OB-GYN availability in rural versus urban counties (6.1 vs. 13.7 providers/100,000 population) explained most of the rural disadvantage in OB-GYN visit rates (83.8%), and much of the higher family physician (80.9%) and NP/PA (50.1%) visit rates. Other individual- and county-level characteristics had smaller effects on rural-urban differences. Conclusion Although there were no overall rural-urban differences in past-year visit rates, the lower OB-GYN availability in rural areas appears to affect the types of health care providers seen by women. Whether rural women are receiving adequate specialized women’s health care services, while seeing a different cadre of providers, warrants further investigation and has particular relevance for women experiencing high-risk pregnancies and deliveries.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2022

Haploidy and aneuploidy in switchgrass mediated by misexpression of CENH3

Cross bred species such as switchgrass may benefit from advantageous breeding strategies requiring inbred lines. Doubled haploid production methods offer several ways that these lines can be produced that often involve uniparental genome elimination as the rate limiting step. We have used a centromere-mediated genome elimination strategy in which modified CENH3 is expressed to induce the process. Transgenic tetraploid switchgrass lines coexpressed Cas9, a poly-cistronic tRNA-gRNA tandem array containing eight guide RNAs that target two CENH3 genes, and different chimeric versions of CENH3 with alterations to the N-terminal tail region. Genotyping of CENH3 genes in transgenics identified edits including frameshift mutations and deletions in one or both copies of the two CENH3 genes. Flow cytometry of T 1 seedlings identified two T 0 lines that produced five haploid individuals representing an induction rate of 0.5% and 1.4%. Eight different T0 lines produced aneuploids at rates ranging from 2.1 to 14.6%. A sample of aneuploid lines were sequenced at low coverage and aligned to the reference genome, revealing missing chromosomes and chromosome arms.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2020

Lagrangian and Eulerian drag models that are consistent between Euler-Lagrange and Euler-Euler (two-fluid) approaches for homogeneous systems

The undisturbed flow of a particle is of fundamental importance since it controls both the undisturbed flow force and the perturbation force (which includes quasisteady, added-mass, and history forces). Here we use the pairwise interaction extended point particle framework to evaluate the undisturbed flow of each particle through superposition of the perturbation flow induced by all its neighbors. This approach allows calculation of various statistics related to undisturbed fluid velocity under conditions of both stationary and nonstationary particles. In a random distribution of stationary particles, while the macroscale undisturbed flow is slowly varying, the microscale undisturbed flow that arises due to the perturbation flow of neighbors varies substantially from one particle to another and this in turn leads to large variation in the hydrodynamic force exerted on the particles. The effect of particle motion is generally to increase the particle-to-particle variation in the undisturbed fluid velocity of the particles. We observe that this increase is greater for the transverse component than for the streamwise component. As a result, with increasing random particle motion, the distribution of undisturbed fluid-velocity fluctuation becomes isotropic. Three different normalized forces are defined: $Φ^L$ is the Lagrangian normalized force on an individual particle suitable for application in a microscale-informed Euler-Lagrange simulation, $Φ^E$ is the Eulerian normalized average force suitable for application in an Euler-Euler simulation, and $Φ^{LE}$ is the Lagrangian normalized force on an individual particle suitable for application in the standard Euler-Lagrange simulation. In this work, we establish precise relations between these different definitions. The drag laws developed based on particle-resolved direct numerical simulation results and experiments are appropriate for application only as the Eulerian normalized average force. We introduce the force consistency relation and use it to obtain an expression for $Φ^L$, which when applied to each particle and averaged over all the particles equals $Φ^E$. The results are first obtained in the limit of stationary particles and then extended to the general case of nonstationary particles.

42 ENGINEERING↗

NASA NTRS2016

Fast and Slow Precipitation Responses to Individual Climate Forcers: A PDRMIP Multimodel Study

Precipitation is expected to respond differently to various drivers of anthropogenic climate change. We present the first results from the Precipitation Driver and Response Model Intercomparison Project (PDRMIP), where nine global climate models have perturbed CO2, CH4, black carbon, sulfate, and solar insolation. We divide the resulting changes to global mean and regional precipitation into fast responses that scale with changes in atmospheric absorption and slow responses scaling with surface temperature change. While the overall features are broadly similar between models, we find significant regional intermodel variability, especially over land. Black carbon stands out as a component that may cause significant model diversity in predicted precipitation change. Processes linked to atmospheric absorption are less consistently modeled than those linked to top-of-atmosphere radiative forcing. We identify a number of land regions where the model ensemble consistently predicts that fast precipitation responses to climate perturbations dominate over the slow, temperature-driven responses.

environment effects↗

NASA NTRS2012

Comparing Physics Scheme Performance for a Lake Effect Snowfall Event in Northern Lower Michigan

High resolution forecast models, such as those used to predict severe convective storms, can also be applied to predictions of lake effect snowfall. A high resolution WRF model forecast model is provided to support operations at NWS WFO Gaylord, Michigan, using a 12 ]km and 4 ]km nested configuration. This is comparable to the simulations performed by other NWS WFOs adjacent to the Great Lakes, including offices in the NWS Eastern Region who participate in regional ensemble efforts. Ensemble efforts require diversity in initial conditions and physics configurations to emulate the plausible range of events in order to ascertain the likelihood of different forecast scenarios. In addition to providing probabilistic guidance, individual members can be evaluated to determine whether they appear to be biased in some way, or to better understand how certain physics configurations may impact the resulting forecast. On January 20 ]21, 2011, a lake effect snow event occurred in Northern Lower Michigan, with cooperative observing and CoCoRaHS stations reporting new snow accumulations between 2 and 8 inches and liquid equivalents of 0.1 ]0.25 h. The event of January 21, 2011 was particularly well observed, with numerous surface reports available. It was also well represented by the WRF configuration operated at NWS Gaylord. Given that the default configuration produced a reasonable prediction, it is used here to evaluate the impacts of other physics configurations on the resulting prediction of the primary lake effect band and resulting QPF. Emphasis here is on differences in planetary boundary layer and cloud microphysics parameterizations, given their likely role in determining the evolution of shallow convection and precipitation processes. Results from an ensemble of seven microphysics schemes and three planetary boundary layer schemes are presented to demonstrate variability in forecast evolution, with results used in an attempt to improve the forecasts in the 2011 ]2012 lake effect season.

Molthan, Andrew↗

DOE OSTI2016

Pan- and core- network analysis of co-expression genes in a model plant

Genome-wide gene expression experiments have been performed using the model plant Arabidopsis during the last decade. Some studies involved construction of coexpression networks, a popular technique used to identify groups of co-regulated genes, to infer unknown gene functions. One approach is to construct a single coexpression network by combining multiple expression datasets generated in different labs. We advocate a complementary approach in which we construct a large collection of 134 coexpression networks based on expression datasets reported in individual publications. To this end we reanalyzed public expression data. To describe this collection of networks we introduced concepts of ‘pan-network’ and ‘core-network’ representing union and intersection between a sizeable fractions of individual networks, respectively. Here, we showed that these two types of networks are different both in terms of their topology and biological function of interacting genes. For example, the modules of the pan-network are enriched in regulatory and signaling functions, while the modules of the core-network tend to include components of large macromolecular complexes such as ribosomes and photosynthetic machinery. Our analysis is aimed to help the plant research community to better explore the information contained within the existing vast collection of gene expression data in Arabidopsis.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2016

CAN LARGE TIME DELAYS OBSERVED IN LIGHT CURVES OF CORONAL LOOPS BE EXPLAINED IN IMPULSIVE HEATING?

The light curves of solar coronal loops often peak first in channels associated with higher temperatures and then in those associated with lower temperatures. The delay times between the different narrowband EUV channels have been measured for many individual loops and recently for every pixel of an active region observation. The time delays between channels for an active region exhibit a wide range of values. The maximum time delay in each channel pair can be quite large, i.e., >5000 s. These large time delays make-up 3%–26% (depending on the channel pair) of the pixels where a trustworthy, positive time delay is measured. It has been suggested that these time delays can be explained by simple impulsive heating, i.e., a short burst of energy that heats the plasma to a high temperature, after which the plasma is allowed to cool through radiation and conduction back to its original state. In this paper, we investigate whether the largest observed time delays can be explained by this hypothesis by simulating a series of coronal loops with different heating rates, loop lengths, abundances, and geometries to determine the range of expected time delays between a set of four EUV channels. We find that impulsive heating cannot address the largest time delays observed in two of the channel pairs and that the majority of the large time delays can only be explained by long, expanding loops with photospheric abundances. Additional observations may rule out these simulations as an explanation for the long time delays. We suggest that either the time delays found in this manner may not be representative of real loop evolution, or that the impulsive heating and cooling scenario may be too simple to explain the observations, and other potential heating scenarios must be explored.

79 ASTRONOMY AND ASTROPHYSICS↗

NASA NTRS1989

Chemical consequences of the initial diffusional growth of cloud droplets - A clean marine case

A simple microphysical cloud parcel model and a simple representation of the background marine aerosol are used to predict the concentrations and compositions of droplets of various sizes near cloud base. The aerosol consists of an externally-mixed ammonium bisulfate accumulation mode and a sea-salt coarse particle mode. The difference in diffusional growth rates between the small and large droplets as well as the differences in composition between the two aerosol modes result in substantial differences in solute concentration and composition with size of droplets in the parcel. The chemistry of individual droplets is not, in general, representative of the bulk (volume-weighted mean) cloud water sample. These differences, calculated to occur early in the parcel's lifetime, should have important consequences for chemical reactions such as aqueous phase sulfate production.

Twohy, C. H.↗

DOE OSTI2016

The clustering of galaxies in the completed SDSS-III Baryon Oscillation Spectroscopic Survey: combining correlated Gaussian posterior distributions

The cosmological information contained in anisotropic galaxy clustering measurements can often be compressed into a small number of parameters whose posterior distribution is well described by a Gaussian. Here, we present a general methodology to combine these estimates into a single set of consensus constraints that encode the total information of the individual measurements, taking into account the full covariance between the different methods. We also illustrate this technique by applying it to combine the results obtained from different clustering analyses, including measurements of the signature of baryon acoustic oscillations and redshift-space distortions, based on a set of mock catalogues of the final SDSS-III Baryon Oscillation Spectroscopic Survey (BOSS). Our results show that the region of the parameter space allowed by the consensus constraints is smaller than that of the individual methods, highlighting the importance of performing multiple analyses on galaxy surveys even when the measurements are highly correlated. Our paper is part of a set that analyses the final galaxy clustering data set from BOSS. The methodology presented here is used in Alam et al. to produce the final cosmological constraints from BOSS.

79 ASTRONOMY AND ASTROPHYSICS↗