Simulation of Automatically Annotated Visible and Multi-/Hyperspectral Images Using the Helios 3D Plant and Radiative Transfer Modeling Framework.

Deep learning and multimodal remote and proximal sensing are widely used for analyzing plant and crop traits, but many of these deep learning models are supervised and necessitate reference datasets with image annotations. Acquiring these datasets often demands experiments that are both labor-intensive and time-consuming. Furthermore, extracting traits from remote sensing data beyond simple geometric features remains a challenge. To address these challenges, we proposed a radiative transfer modeling framework based on the Helios 3-dimensional (3D) plant modeling software designed for plant remote and proximal sensing image simulation. The framework has the capability to simulate RGB, multi-/hyperspectral, thermal, and depth cameras, and produce associated plant images with fully resolved reference labels such as plant physical traits, leaf chemical concentrations, and leaf physiological traits. Helios offers a simulated environment that enables generation of 3D geometric models of plants and soil with random variation, and specification or simulation of their properties and function. This approach differs from traditional computer graphics rendering by explicitly modeling radiation transfer physics, which provides a critical link to underlying plant biophysical processes. Results indicate that the framework is capable of generating high-quality, labeled synthetic plant images under given lighting scenarios, which can lessen or remove the need for manually collected and annotated data. Two example applications are presented that demonstrate the feasibility of using the model to enable unsupervised learning by training deep learning models exclusively with simulated images and performing prediction tasks using real images.

Practical Considerations and Limitations of Using Leaf and Canopy Temperature Measurements as a Stomatal Conductance Proxy: Sensitivity across Environmental Conditions, Scale, and Sample Size.

Stomatal conductance (gs) is a crucial component of plant physiology, as it links plant productivity and water loss through transpiration. Estimating gs indirectly through leaf temperature (Tl) measurement is common for reducing the high labor cost associated with direct gs measurement. However, the relationship between observed Tl and gs can be notably affected by local environmental conditions, canopy structure, measurement scale, sample size, and gs itself. To better understand and quantify the variation in the relationship between Tl measurements to gs, this study analyzed the sensitivity of Tl to gs using a high-resolution three-dimensional model that resolves interactions between microclimate and canopy structure. The model was used to simulate the sensitivity of Tl to gs across different environmental conditions, aggregation scales (point measurement, infrared thermometer, and thermographic image), and sample sizes. Results showed that leaf-level sensitivity of Tl to gs was highest under conditions of high net radiation flux, high vapor pressure deficit, and low boundary layer conductance. The study findings also highlighted the trade-off between measurement scale and sample size to maximize sensitivity. Smaller scale measurements (e.g., thermocouple) provided maximal sensitivity because they allow for exclusion of shaded leaves and the ground, which have low sensitivity. However, large sample sizes (up to 50 to 75) may be needed to differentiate genotypes. Larger-scale measurements (e.g., thermal camera) reduced sample size requirements but include low-sensitivity elements in the measurement. This work provides a means of estimating leaf-level sensitivity and offers quantitative guidance for balancing scale and sample size issues.

Magnitude of bottle-feeding practice and associated factors among mothers of 0-24 months' children in Asella town, Oromia region, Ethiopia.

BACKGROUND: Since bottle feeding has an impact on the effectiveness of breastfeeding and appropriate supplemental feeding, the World health organization recommends being avoided for infant and early child feeding. Thus, this study aimed to assess the level of the bottle-feeding practice and its associated factors among mothers of 0-24 month's children in Asella town, Oromia region, Ethiopia. METHODS: Community-based cross-sectional study design was conducted from March 8-April 8, 2022, among a sample of 692 mothers of children aged 0-24 months. A multi-stage sampling technique was used to select the study subjects. Data were collected using a pretested and structured questionnaire by face-to-face interview technique questionnaire. The outcome variable bottle-feeding practice (BFP) was assessed using WHO and UNICEF UK healthy baby initiative BF assessment tools. Binary logistic regression analysis was used to identify the association between explanatory and outcome variables. Adjusted Odds ratio (AOR) with a 95% confidence interval was used to measure the strength of the association and a p-value < 0.05 was used to declare statistical significance. RESULTS: A total of 692 mothers with mean age and standard deviation (SD) of 31.86 (± 4.87) participated in the study. The prevalence of bottle-feeding practice was 246(35.5% with 95% CI: (31.8, 39.5). Mothers who were government-employed (AOR: 1.64, 95% CI: 1.02, 2.64), mothers who delivered at home (AOR: 3.74, 95% CI: 2.58-5.42), mothers who did not attend postnatal care (AOR: 3.76, 95% CI: 2.60,5.44) and mother who had negative attitude (AOR: 1.94, 95%CI: 1.34,2.8) were significantly associated with bottle feeding practices. CONCLUSION: The BFP were higher in the study area when compared with national reports of practices. The occupational status of the mothers, place of delivery, attending postnatal care, and attitude of the mothers were factors that increased bottle-feeding practice in the study area. Strengthening dietary behavioral modification for mothers who have children 0-24 months of the child to practice appropriate feeding is recommended.

Living on the edge: Daily, seasonal and annual body temperature patterns of Arabian oryx in Saudi Arabia.

Heterothermy, the ability to allow body temperature (Tb) to fluctuate, has been proposed as an adaptive mechanism that enables large ungulates to cope with the high environmental temperatures and lack of free water experienced in arid environments. By storing heat during the daytime and dissipating it during the night, arid-adapted ungulates may reduce evaporative water loss and conserve water. Adaptive heterothermy in large ungulates should be particularly pronounced in hot environments with severely limited access to free water. In the current study we investigated the effects of environmental temperature (ambient, Ta and soil, Ts) and water stress on the Tb of wild, free-ranging Arabian oryx (Oryx leucoryx) in two different sites in Saudi Arabia, Mahazat as-Sayd (MS) and Uruq Bani Ma'arid (UBM). Using implanted data loggers wet took continuous Tb readings every 10 minutes for an entire calendar year and determined the Tb amplitude as well as the heterothermy index (HI). Both differed significantly between sites but contrary to our expectations they were greater in MS despite its lower environmental temperatures and higher rainfall. This may be partially attributable to a higher activity in an unfamiliar environment for translocated animals in UBM. As expected Tb amplitude and HI were greatest during summer. Only minor sex differences were apparent that may be attributable to sex-specific investment into reproduction (e.g. male-male competition) during rut. Our results suggest that the degree of heterothermy is not only driven by extrinsic factors (e.g. environmental temperatures and water availability), but may also be affected by intrinsic factors (e.g. sex and/or behaviour).

Global atmospheric particle formation from CERN CLOUD measurements.

Fundamental questions remain about the origin of newly formed atmospheric aerosol particles because data from laboratory measurements have been insufficient to build global models. In contrast, gas-phase chemistry models have been based on laboratory kinetics measurements for decades. We built a global model of aerosol formation by using extensive laboratory measurements of rates of nucleation involving sulfuric acid, ammonia, ions, and organic compounds conducted in the CERN CLOUD (Cosmics Leaving Outdoor Droplets) chamber. The simulations and a comparison with atmospheric observations show that nearly all nucleation throughout the present-day atmosphere involves ammonia or biogenic organic compounds, in addition to sulfuric acid. A considerable fraction of nucleation involves ions, but the relatively weak dependence on ion concentrations indicates that for the processes studied, variations in cosmic ray intensity do not appreciably affect climate through nucleation in the present-day atmosphere.

Reduced anthropogenic aerosol radiative forcing caused by biogenic new particle formation.

The magnitude of aerosol radiative forcing caused by anthropogenic emissions depends on the baseline state of the atmosphere under pristine preindustrial conditions. Measurements show that particle formation in atmospheric conditions can occur solely from biogenic vapors. Here, we evaluate the potential effect of this source of particles on preindustrial cloud condensation nuclei (CCN) concentrations and aerosol-cloud radiative forcing over the industrial period. Model simulations show that the pure biogenic particle formation mechanism has a much larger relative effect on CCN concentrations in the preindustrial atmosphere than in the present atmosphere because of the lower aerosol concentrations. Consequently, preindustrial cloud albedo is increased more than under present day conditions, and therefore the cooling forcing of anthropogenic aerosols is reduced. The mechanism increases CCN concentrations by 20-100% over a large fraction of the preindustrial lower atmosphere, and the magnitude of annual global mean radiative forcing caused by changes of cloud albedo since 1750 is reduced by [Formula: see text] (27%) to [Formula: see text] Model uncertainties, relatively slow formation rates, and limited available ambient measurements make it difficult to establish the significance of a mechanism that has its dominant effect under preindustrial conditions. Our simulations predict more particle formation in the Amazon than is observed. However, the first observation of pure organic nucleation has now been reported for the free troposphere. Given the potentially significant effect on anthropogenic forcing, effort should be made to better understand such naturally driven aerosol processes.

The effect of acid-base clustering and ions on the growth of atmospheric nano-particles.

The growth of freshly formed aerosol particles can be the bottleneck in their survival to cloud condensation nuclei. It is therefore crucial to understand how particles grow in the atmosphere. Insufficient experimental data has impeded a profound understanding of nano-particle growth under atmospheric conditions. Here we study nano-particle growth in the CLOUD (Cosmics Leaving OUtdoors Droplets) chamber, starting from the formation of molecular clusters. We present measured growth rates at sub-3 nm sizes with different atmospherically relevant concentrations of sulphuric acid, water, ammonia and dimethylamine. We find that atmospheric ions and small acid-base clusters, which are not generally accounted for in the measurement of sulphuric acid vapour, can participate in the growth process, leading to enhanced growth rates. The availability of compounds capable of stabilizing sulphuric acid clusters governs the magnitude of these effects and thus the exact growth mechanism. We bring these observations into a coherent framework and discuss their significance in the atmosphere.

Ion-induced nucleation of pure biogenic particles.

Atmospheric aerosols and their effect on clouds are thought to be important for anthropogenic radiative forcing of the climate, yet remain poorly understood. Globally, around half of cloud condensation nuclei originate from nucleation of atmospheric vapours. It is thought that sulfuric acid is essential to initiate most particle formation in the atmosphere, and that ions have a relatively minor role. Some laboratory studies, however, have reported organic particle formation without the intentional addition of sulfuric acid, although contamination could not be excluded. Here we present evidence for the formation of aerosol particles from highly oxidized biogenic vapours in the absence of sulfuric acid in a large chamber under atmospheric conditions. The highly oxygenated molecules (HOMs) are produced by ozonolysis of α-pinene. We find that ions from Galactic cosmic rays increase the nucleation rate by one to two orders of magnitude compared with neutral nucleation. Our experimental findings are supported by quantum chemical calculations of the cluster binding energies of representative HOMs. Ion-induced nucleation of pure organic particles constitutes a potentially widespread source of aerosol particles in terrestrial environments with low sulfuric acid pollution.

Can Highly Oxidized Organics Contribute to Atmospheric New Particle Formation?

Highly oxidized organic molecules may play a critical role in new-particle formation within Earth's atmosphere along with sulfuric acid, which has long been considered as a key compound in this process. Here we explore the interactions of these two partners, using quantum chemistry to find the formation free energies of heterodimers and trimers as well as the fastest evaporation rates of (2,2) tetramers. We find that the heterodimers are more strongly bound than pure sulfuric acid dimers. Their stability correlates well with the oxygen to carbon ratio of the organics, their volatility, and the number of hydrogen bonds formed. Most of the stable trimers contain one sulfuric acid and two organics (1,2), whereas many (2,2) tetramers evaporate quickly, probably due to the stability of (1,2) clusters. This finding agrees with recent experimental studies that show how new-particle formation involving oxidized organics and sulfuric acid may be rate-limited by activation of (1,2) trimers, confirming the importance of this process in the atmosphere.

Insight into acid-base nucleation experiments by comparison of the chemical composition of positive, negative, and neutral clusters.

We investigated the nucleation of sulfuric acid together with two bases (ammonia and dimethylamine), at the CLOUD chamber at CERN. The chemical composition of positive, negative, and neutral clusters was studied using three Atmospheric Pressure interface-Time Of Flight (APi-TOF) mass spectrometers: two were operated in positive and negative mode to detect the chamber ions, while the third was equipped with a nitrate ion chemical ionization source allowing detection of neutral clusters. Taking into account the possible fragmentation that can happen during the charging of the ions or within the first stage of the mass spectrometer, the cluster formation proceeded via essentially one-to-one acid-base addition for all of the clusters, independent of the type of the base. For the positive clusters, the charge is carried by one excess protonated base, while for the negative clusters it is carried by a deprotonated acid; the same is true for the neutral clusters after these have been ionized. During the experiments involving sulfuric acid and dimethylamine, it was possible to study the appearance time for all the clusters (positive, negative, and neutral). It appeared that, after the formation of the clusters containing three molecules of sulfuric acid, the clusters grow at a similar speed, independent of their charge. The growth rate is then probably limited by the arrival rate of sulfuric acid or cluster-cluster collision.

Oxidation products of biogenic emissions contribute to nucleation of atmospheric particles.

Atmospheric new-particle formation affects climate and is one of the least understood atmospheric aerosol processes. The complexity and variability of the atmosphere has hindered elucidation of the fundamental mechanism of new-particle formation from gaseous precursors. We show, in experiments performed with the CLOUD (Cosmics Leaving Outdoor Droplets) chamber at CERN, that sulfuric acid and oxidized organic vapors at atmospheric concentrations reproduce particle nucleation rates observed in the lower atmosphere. The experiments reveal a nucleation mechanism involving the formation of clusters containing sulfuric acid and oxidized organic molecules from the very first step. Inclusion of this mechanism in a global aerosol model yields a photochemically and biologically driven seasonal cycle of particle concentrations in the continental boundary layer, in good agreement with observations.

Hydration of atmospherically relevant molecular clusters: computational chemistry and classical thermodynamics.

Formation of new particles through clustering of molecules from condensable vapors is a significant source for atmospheric aerosols. The smallest clusters formed in the very first steps of the condensation process are, however, not directly observable by experimental means. We present here a comprehensive series of electronic structure calculations on the hydrates of clusters formed by up to four molecules of sulfuric acid, and up to two molecules of ammonia or dimethylamine. Though clusters containing ammonia, and certainly dimethylamine, generally exhibit lower average hydration than the pure acid clusters, populations of individual hydrates vary widely. Furthermore, we explore the predictions obtained using a thermodynamic model for the description of these hydrates. The similar magnitude and trends of hydrate formation predicted by both methods illustrate the potential of combining them to obtain more comprehensive models. The stabilization of some clusters relative to others due to their hydration is highly likely to have significant effects on the overall processes that lead to formation of new particles in the atmosphere.

Molecular understanding of atmospheric particle formation from sulfuric acid and large oxidized organic molecules.

Atmospheric aerosols formed by nucleation of vapors affect radiative forcing and therefore climate. However, the underlying mechanisms of nucleation remain unclear, particularly the involvement of organic compounds. Here, we present high-resolution mass spectra of ion clusters observed during new particle formation experiments performed at the Cosmics Leaving Outdoor Droplets chamber at the European Organization for Nuclear Research. The experiments involved sulfuric acid vapor and different stabilizing species, including ammonia and dimethylamine, as well as oxidation products of pinanediol, a surrogate for organic vapors formed from monoterpenes. A striking resemblance is revealed between the mass spectra from the chamber experiments with oxidized organics and ambient data obtained during new particle formation events at the Hyytiälä boreal forest research station. We observe that large oxidized organic compounds, arising from the oxidation of monoterpenes, cluster directly with single sulfuric acid molecules and then form growing clusters of one to three sulfuric acid molecules plus one to four oxidized organics. Most of these organic compounds retain 10 carbon atoms, and some of them are remarkably highly oxidized (oxygen-to-carbon ratios up to 1.2). The average degree of oxygenation of the organic compounds decreases while the clusters are growing. Our measurements therefore connect oxidized organics directly, and in detail, with the very first steps of new particle formation and their growth between 1 and 2 nm in a controlled environment. Thus, they confirm that oxidized organics are involved in both the formation and growth of particles under ambient conditions.

Molecular understanding of sulphuric acid-amine particle nucleation in the atmosphere.

Nucleation of aerosol particles from trace atmospheric vapours is thought to provide up to half of global cloud condensation nuclei. Aerosols can cause a net cooling of climate by scattering sunlight and by leading to smaller but more numerous cloud droplets, which makes clouds brighter and extends their lifetimes. Atmospheric aerosols derived from human activities are thought to have compensated for a large fraction of the warming caused by greenhouse gases. However, despite its importance for climate, atmospheric nucleation is poorly understood. Recently, it has been shown that sulphuric acid and ammonia cannot explain particle formation rates observed in the lower atmosphere. It is thought that amines may enhance nucleation, but until now there has been no direct evidence for amine ternary nucleation under atmospheric conditions. Here we use the CLOUD (Cosmics Leaving OUtdoor Droplets) chamber at CERN and find that dimethylamine above three parts per trillion by volume can enhance particle formation rates more than 1,000-fold compared with ammonia, sufficient to account for the particle formation rates observed in the atmosphere. Molecular analysis of the clusters reveals that the faster nucleation is explained by a base-stabilization mechanism involving acid-amine pairs, which strongly decrease evaporation. The ion-induced contribution is generally small, reflecting the high stability of sulphuric acid-dimethylamine clusters and indicating that galactic cosmic rays exert only a small influence on their formation, except at low overall formation rates. Our experimental measurements are well reproduced by a dynamical model based on quantum chemical calculations of binding energies of molecular clusters, without any fitted parameters. These results show that, in regions of the atmosphere near amine sources, both amines and sulphur dioxide should be considered when assessing the impact of anthropogenic activities on particle formation.

Comparing simulated and experimental molecular cluster distributions.

Formation of secondary atmospheric aerosol particles starts with gas phase molecules forming small molecular clusters. High-resolution mass spectrometry enables the detection and chemical characterization of electrically charged clusters from the molecular scale upward, whereas the experimental detection of electrically neutral clusters, especially as a chemical composition measurement, down to 1 nm in diameter and beyond still remains challenging. In this work we simulated a set of both electrically neutral and charged small molecular clusters, consisting of sulfuric acid and ammonia molecules, with a dynamic collision and evaporation model. Collision frequencies between the clusters were calculated according to classical kinetics, and evaporation rates were derived from first principles quantum chemical calculations with no fitting parameters. We found a good agreement between the modeled steady-state concentrations of negative cluster ions and experimental results measured with the state-of-the-art Atmospheric Pressure interface Time-Of-Flight mass spectrometer (APi-TOF) in the CLOUD chamber experiments at CERN. The model can be used to interpret experimental results and give information on neutral clusters that cannot be directly measured.

How do organic vapors contribute to new-particle formation?

Highly oxidised organic vapors can effectively stabilize sulphuric acid in heteronuclear clusters and drive new-particle formation. We present quantum chemical calculations of cluster stability, showing that multifunctional species can stabilize sulphuric acid and also present additional polar functional groups for subsequent cluster growth. We also model the multi-generation oxidation of vapors associated with secondary organic aerosol formation using a two-dimensional volatility basis set. The steady-state saturation ratios and absolute concentrations of extremely low volatility products are sufficient to drive new-particle formation with sulphuric acid at atmospherically relevant rates.

Structural rearrangements and magic numbers in reactions between pyridine-containing water clusters and ammonia.

Molecular cluster ions H(+)(H(2)O)(n), H(+)(pyridine)(H(2)O)(n), H(+)(pyridine)(2)(H(2)O)(n), and H(+)(NH(3))(pyridine)(H(2)O)(n) (n = 16-27) and their reactions with ammonia have been studied experimentally using a quadrupole-time-of-flight mass spectrometer. Abundance spectra, evaporation spectra, and reaction branching ratios display magic numbers for H(+)(NH(3))(pyridine)(H(2)O)(n) and H(+)(NH(3))(pyridine)(2)(H(2)O)(n) at n = 18, 20, and 27. The reactions between H(+)(pyridine)(m)(H(2)O)(n) and ammonia all seem to involve intracluster proton transfer to ammonia, thus giving clusters of high stability as evident from the loss of several water molecules from the reacting cluster. The pattern of the observed magic numbers suggest that H(+)(NH(3))(pyridine)(H(2)O)(n) have structures consisting of a NH(4)(+)(H(2)O)(n) core with the pyridine molecule hydrogen-bonded to the surface of the core. This is consistent with the results of high-level ab initio calculations of small protonated pyridine/ammonia/water clusters.

Experimental observation of strongly bound dimers of sulfuric acid: application to nucleation in the atmosphere.

Sulfuric acid is a key compound in atmospheric nucleation. Here we report on the observation of a close-to-collision-limited sulfuric acid dimer formation in atmospherically relevant laboratory conditions in the absence of measurable quantities of ammonia or organics. The observed dimer formation rate was clearly higher than the measured new particle formation rate at ∼1.5 nm suggesting that the rate limiting step for the nucleation takes place after the dimerization step. The quantum chemical calculations suggested that even in the ultraclean conditions there exist (a) stabilizing compound(s) with (a) concentration(s) high enough to prevent the dimer evaporation. Such a stabilizing compound should be abundant enough in any natural environment and would therefore not limit the formation of sulfuric acid dimers in the atmosphere.

Metastable nitric acid hydrates--possible constituents of polar stratospheric clouds?

Crystallization kinetics of the metastable modifications of Nitric Acid Dihydrate (NAD) was investigated by time-dependent X-Ray Diffraction (XRD) measurements. Kinetic conversion curves were evaluated adopting the Avrami model. The growth and morphology of the respective crystallites and particles were monitored in situ on the cryo-stage of an Environmental Scanning Electron Microscope (ESEM) under a partial pressure of nitrogen gas (0.5 Torr, 67 Pa). The morphologies were used to adapt the InfraRed (IR) extinction spectra by T-matrix calculation using respective optical indices of NAD. The results show a significant dependence of the band shapes on different morphologies.

Orientation effects on nitric acid dihydrate films.

An investigation of orientation effects in films of nitric acid dihydrate (NAD) is presented, based on a systematic study of transmission and reflection-absorption infrared (RAIR) spectra of samples of varying thickness. The samples are prepared by vapor deposition on Ge (for transmission spectroscopy) and on Al substrates (for RAIR spectroscopy) at 175 K to produce crystalline alpha-NAD films. Transmission spectra were recorded at normal incidence, and RAIR spectra were recorded at a grazing angle of 75 degrees, with polarized radiation. The observed spectra are compared with predictions of a classical Fresnel model, to test the available optical indices of NAD, which are of great importance for the accurate interpretation of data from remote sensing measurements. Whereas the procedure yields satisfactory results for transmission and s-polarized RAIR spectra, it is found that the agreement is not acceptable for p-polarized RAIR spectra. An explanation is suggested in terms of a preferential alignment of the films, with the (10-1) crystallographic plane of the crystal situated parallel to the substrate. The infrared activity of a band at approximately 1170 cm(-1) is explained in terms of a preferential orientation of the crystal domains in the film.