Multiscale biochemical mapping of the brain through deep-learning-enhanced high-throughput mass spectrometry.

Spatial omics technologies can reveal the molecular intricacy of the brain. While mass spectrometry imaging (MSI) provides spatial localization of compounds, comprehensive biochemical profiling at a brain-wide scale in three dimensions by MSI with single-cell resolution has not been achieved. We demonstrate complementary brain-wide and single-cell biochemical mapping using MEISTER, an integrative experimental and computational mass spectrometry (MS) framework. Our framework integrates a deep-learning-based reconstruction that accelerates high-mass-resolving MS by 15-fold, multimodal registration creating three-dimensional (3D) molecular distributions and a data integration method fitting cell-specific mass spectra to 3D datasets. We imaged detailed lipid profiles in tissues with millions of pixels and in large single-cell populations acquired from the rat brain. We identified region-specific lipid contents and cell-specific localizations of lipids depending on both cell subpopulations and anatomical origins of the cells. Our workflow establishes a blueprint for future development of multiscale technologies for biochemical characterization of the brain.

Image-guided MALDI mass spectrometry for high-throughput single-organelle characterization.

Peptidergic dense-core vesicles are involved in packaging and releasing neuropeptides and peptide hormones-critical processes underlying brain, endocrine and exocrine function. Yet, the heterogeneity within these organelles, even for morphologically defined vesicle types, is not well characterized because of their small volumes. We present image-guided, high-throughput mass spectrometry-based protocols to chemically profile large populations of both dense-core vesicles and lucent vesicles for their lipid and peptide contents, allowing observation of the chemical heterogeneity within and between these two vesicle populations. The proteolytic processing products of four prohormones are observed within the dense-core vesicles, and the mass spectral features corresponding to the specific peptide products suggest three distinct dense-core vesicle populations. Notable differences in the lipid mass range are observed between the dense-core and lucent vesicles. These single-organelle mass spectrometry approaches are adaptable to characterize a range of subcellular structures.

Performance of quantum-dash mode-locked lasers (QD-MLLDs) for high-capacity coherent optical communications.

We investigate the capabilities and limitations of quantum-dash mode-locked lasers (QD-MLLDs) as optical frequency comb sources in coherent optical communication systems. We demonstrate that QD-MLLDs are on par with conventional single-wavelength narrow linewidth laser sources and can support high symbol rates and modulation formats. We manage to transmit 64 quadrature amplitude modulation (QAM) signals up to 80 GBd over 80 km of standard single-mode fiber (SSMF), which highlights the distinctive phase noise performance of the QD-MLLD. Using a 38.5 GHz (6 dB bandwidth) silicon photonic (SiP) modulator, we achieve a maximum symbol rate of 104 GBd with 16QAM signaling and a maximum net rate of 416 Gb/s per carrier in a single polarization setup and after 80 km-SSMF transmission. We also compare QD-MLLD performance with commercial narrow-linewidth integrable tunable laser assemblies (ITLAs) and explore their potential for use as local oscillators (LOs) and signal carriers. The QD-MLLD has 45 comb lines usable for transmission at a frequency spacing of 25 GHz, and an RF linewidth of 35 kHz.

Instantaneous frequency measurement system based on quantum dash mode-locked laser.

We present the theory and experimental results of a microwave photonic (MWP) filter based instantaneous frequency measurement system. A quantum dash mode-locked laser is used as an optical frequency comb source. With up to 41 flat comb lines and a real-time feedback loop for comb shaping, a set of MWP filters with linear frequency responses for either linear unit or dB unit are experimentally demonstrated. The maximum measurement frequency can be up to 20 GHz limited by the available test-and-measurement instruments. By using one MWP filter, the root-mean-square error is 51∼66 MHz, which can be improved to 42.2 MHz for linear unit, and 30.7 MHz for dB unit by using two MWP filters together.

Floatable Cu2(OH)PO4/rGO Aerogel for Full Spectrum Driven Photocatalytic Degradation of Organic Pollutants.

Photocatalytic technology is an attractive option for environmental remediation because of its green and sustainable nature. However, the inefficient utilization of solar energy and powder morphology currently impede its practical application. Here, we designed a floatable photocatalyst by anchoring 0D Cu2(OH)PO4 (CHP) nanoparticles on 2D graphene to construct 0D/2D CHP/reduced graphene oxide (rGO) aerogels. The CHP/rGO aerogels have interconnected mesopores that provide a large surface area, promoting particle dispersion and increasing the number of active sites. Moreover, the optical response of the CHP/rGO aerogel has been significantly expanded to cover the full spectrum of the solar light. Notably, the 20%CHP/rGO aerogel displayed a high degradation rate (k = 0.178 min-1) taking methylene blue (MB) as a model pollutant under light irradiation (λ > 420 nm). The enhanced photocatalytic activity is ascribed to the rapid electron transfer in the CHP/rGO heterostructures, as supported by the DFT theoretical calculations. Our research highlights the utilization of full spectrum responsive photocatalysts for the elimination of organic pollutants from wastewater under solar light irradiation, as well as the potential for catalyst recovery using floatable aerogels to meet industrial requirements.

Data-Driven and Machine Learning-Based Framework for Image-Guided Single-Cell Mass Spectrometry.

Improved throughput of analysis and lowered limits of detection have allowed single-cell chemical analysis to go beyond the detection of a few molecules in such volume-limited samples, enabling researchers to characterize different functional states of individual cells. Image-guided single-cell mass spectrometry leverages optical and fluorescence microscopy in the high-throughput analysis of cellular and subcellular targets. In this work, we propose DATSIGMA (DAta-driven Tools for Single-cell analysis using Image-Guided MAss spectrometry), a workflow based on data-driven and machine learning approaches for feature extraction and enhanced interpretability of complex single-cell mass spectrometry data. Here, we implemented our toolset with user-friendly programs and tested it on multiple experimental data sets that cover a wide range of biological applications, including classifying various brain cell types. Because it is open-source, it offers a high level of customization and can be easily adapted to other types of single-cell mass spectrometry data.

Mechanism Study of Organic Sulfur Hydrogenation over Pt- and Pd-Loaded Alumina-Based Catalysts.

The hydrogenation of organic sulfur (CS2) present in industrial off-gases to produce sulfur-free hydrocarbons and H2S can be achieved by using noble-metal catalysts. However, there has been a lack of comprehensive investigation into the underlying reaction mechanisms associated with this process. In this study, we have conducted an in-depth examination of the activity and selectivity of Pt- and Pd-loaded alumina-based catalysts, revealing significant disparities between them. Notably, Pd/Al2O3 catalysts exhibit an enhanced performance at low temperatures. Furthermore, we have observed that CS2 displays a higher propensity for conversion to methane when employing Pt/Al2O3 catalysts, while Pd/Al2O3 catalysts demonstrate a greater tendency for coke deposition. By combining experimental observations with theoretical calculations, we revealed that the capability of H2 spillover along with the adsorption capacity of CS2, play pivotal roles in determining the observed differences. Moreover, the key intermediate species involved in the methanation and coke pathways were identified. The intermediate CH2S* is found to be crucial in the methanation pathway, while the intermediate CSH* is identified as significant in the coke pathway.

Design, synthesis, antiviral and fungicidal activities of novel polycarpine simplified analogues.

Fungal and viral diseases account for 70-80% of agricultural production losses caused by microbial diseases. Synthetic fungicides and antiviral agents have been used to treat plant diseases caused by plant pathogenic fungi and viruses, but their use has been criticized due to their adverse side effects. As alternative strategies, natural fungicides and antiviral agents have attracted many researchers' interest in recent years. Herein, we designed and synthesized a series of novel polycarpine simplified analogues. Antiviral activity research against tobacco mosaic virus (TMV) revealed that most of the designed compounds have good antiviral activities. The virucidal activities of 4, 6d, 6f, 6h, and 8c are higher than that of polycarpine and similar to that of ningnanmycin. The structure simplified compound 8c was selected for further antiviral mechanism research which showed that compound 8c could inhibit the formation of 20S protein discs by acting on TMV coat protein. These compounds also displayed broad-spectrum fungicidal activities against 7 kinds of plant fungi. This work lays the foundation for the application of polycarpine simplified analogues in crop protection.

Antioxidants improve ß-cypermethrin degradation by alleviating oxidative damage and increasing bioavailability by Bacillus cereus GW-01.

Microbial degradation of pesticide residues has the potential to reduce their hazards to human and environmental health. However, in some cases, degradation can activate pesticides, making them more toxic to microbes. Here we report on the ß-cypermethrin (ß-CY) toxicity to Bacillus cereus GW-01, a recently described ß-CY degrader, and effects of antioxidants on ß-CY degradation. GW-01 exposed to ß-CY negatively affected the growth rate. The highest maximum specific growth rate (µm) appeared at 25 mg/L ß-CY. ß-CY induced the oxidative stress in GW-01. The activities of superoxide dismutase (SOD), catalyse (CAT), and glutathione-S-transferase (GST) were significantly higher than that in control (p < 0.01); but they are decreased as growth phase pronged, which is contrary to the ß-CY degradation by GW-01 cells obtaining from various growth phase. Ascorbic acid (Vc), tea polyphenols (TP), and adenosine monophosphate (AMP) improved the degradation through changing the physiological property of GW-01. TP and AMP prompted the expression of gene encoding ß-CY degradation in GW-01, while Vc does the opposite. Biofilm formation was significantly inhibited by ß-CY, while was significantly enhanced by certain concentrations of TP and AMP (p < 0.05); while cell surface hydrophobicity (CSH) was negatively associated with ß-CY concentrations from 25 to 100 mg/L, and these 4 antioxidants all boosted the CSH. Cells grown with ß-CY had lower levels of saturated fatty acids but increased levels of some unsaturated and branched fatty acids, and these antioxidants alleviated the FA composition changes and gene expression related with FA metabolism. We also mined transcriptome analyses at lag, logarithmic, and stationary phases, and found that ß-CY induced oxidative stress. The objective of this study was to elaborate characteristics in relation to the microbial resistance of pesticide poisoning and the efficiency of pesticide degradation, and to provide a promising method for improving pesticide degradation by microbes.

Photonic beamforming using a quantum-dash optical frequency comb source.

We demonstrate photonic beamforming using a quantum-dash (QD) optical frequency comb (OFC) source. Thanks to the 25 GHz free spectral range (FSR) and up to 40 comb lines available from the QD OFC, we can implement phased antenna arrays (PAAs) with directional radiation and scanning. We consider two types of PAAs: a uniform linear array (ULA) and a uniform planar array (UPA). By selecting different comb lines with a programmable optical filter, we can tune the FSR of the OFC source and realize a discrete scanning function. We evaluate the beam squint of the ULAs, and the results show that we can achieve broadband operation. Finally, we show that we can achieve both directional radiation and scanning simultaneously using the UPA.

Enhancing the Throughput of FT Mass Spectrometry Imaging Using Joint Compressed Sensing and Subspace Modeling.

Mass spectrometry imaging (MSI) allows for untargeted mapping of the chemical composition of tissues with attomole detection limits. MSI using Fourier transform (FT)-based mass spectrometers, such as FT-ion cyclotron resonance (FT-ICR), grants the ability to examine the chemical space with unmatched mass resolution and mass accuracy. However, direct imaging of large tissue samples using FT-ICR is slow. In this work, we present an approach that combines the subspace modeling of ICR temporal signals with compressed sensing to accelerate high-resolution FT-ICR MSI. A joint subspace and spatial sparsity constrained model computationally reconstructs high-resolution MSI data from the sparsely sampled transients with reduced duration, allowing a significant reduction in imaging time. Simulation studies and experimental implementation of the proposed method in investigation of brain tissues demonstrate a 10-fold enhancement in throughput of FT-ICR MSI, without the need for instrumental or hardware modifications.

The Joint Toxicity of Organic Three-dimensional Layered Double Hydroxide and Methyl Orange to Green Algae Chlorella Vulgaris.

Organic modified layered double hydroxides (O-LDHs), known as attractive adsorbents for organic pollutants, may pose severe toxicity to the aquatic organisms during their large-scale application. However, little information is available on the toxicity of O-LDHs and the joint toxicity with the coexisted organic pollutants. Herein, we employed organic three-dimensional layered double hydroxide (O3D-LDH) and methyl orange (MO) as representative to investigate the toxicity mechanisms of single substance and its binary mixture on green algae Chlorella vulgaris. Results showed that O3D-LDH and MO presented concentration-dependent toxicity, the binary mixture showed additive effect after exposed to low O3D-LDH concentration (≤ 50 mg/L), but antagonism was observed for the other. It revealed that the agglomeration of O3D-LDH and microalgae influenced chlorophyll content, eventually inhibiting the growth of algae. Overall, this toxicity investigation was critical for understanding the environmental risk of organic LDHs to provide theorical guidance for their practical application in the water purification.

Single-Cell Classification Using Mass Spectrometry through Interpretable Machine Learning.

The brain consists of organized ensembles of cells that exhibit distinct morphologies, cellular connectivity, and dynamic biochemistries that control the executive functions of an organism. However, the relationships between chemical heterogeneity, cell function, and phenotype are not always understood. Recent advancements in matrix-assisted laser desorption/ionization mass spectrometry have enabled the high-throughput, multiplexed chemical analysis of single cells, capable of resolving hundreds of molecules in each mass spectrum. We developed a machine learning workflow to classify single cells according to their mass spectra based on cell groups of interest (GOI), e.g., neurons vs astrocytes. Three data sets from various cell groups were acquired on three different mass spectrometer platforms representing thousands of individual cell spectra that were collected and used to validate the single cell classification workflow. The trained models achieved >80% classification accuracy and were subjected to the recently developed instance-based model interpretation framework, SHapley Additive exPlanations (SHAP), which locally assigns feature importance for each single-cell spectrum. SHAP values were used for both local and global interpretations of our data sets, preserving the chemical heterogeneity uncovered by the single-cell analysis while offering the ability to perform supervised analysis. The top contributing mass features to each of the GOI were ranked and selected using mean absolute SHAP values, highlighting the features that are specific to the defined GOI. Our approach provides insight into discriminating the chemical profiles of the single cells through interpretable machine learning, facilitating downstream analysis and validation.

Risk of physical clogging induced by low-density suspended particles during managed aquifer recharge with reclaimed water: Evidences from laboratory experiments and numerical modeling.

How to reduce the risk of physical clogging is the most significant challenge during managed aquifer recharge (MAR). The prediction of occurrence and development of physical clogging has received increasing attention. In this study, chlorinated secondary wastewater (SW) was recharged into a laboratory column filled with quartz sands. The results showed that the continuous injection of reclaimed water caused a significant reduction in hydraulic conductivity by about 86% in porous media, during the 50-h injection process. The reduction was attributed to physical clogging resulting from the deposition of suspended particles with a flocculent and reticular structure, significantly increasing the surface area and the effective volume of the particle deposits. A numerical model was established based on the mass balance equations for liquid and suspended particles, coupling the particle transport-deposition model and the expressions describing the relationships between the porosity, hydraulic conductivity (K), and the concentration of deposited particles; the model was used to obtain a quantitative description of the temporal and spatial distribution of physical clogging. The bulk factor and the attachment and detachment coefficients were calibrated simultaneously. The model results provided an improved understanding of the influence degree of the three parameters on the physical clogging process. The sensitivity analysis results showed that the bulk factor had the largest sensitivity among the three parameters. In addition, a significant correlation was observed between the simulated data and the experimental data (R2 > 0.90, p < 0.01). The proposed numerical model provides a meaningful guidance tool for assessing and predicting the risk of physical clogging induced by low-density floc particles during artificial recharge with reclaimed water at a large-scale site.

Comparison of hematological alterations and markers of B-cell activation in workers exposed to benzene, formaldehyde and trichloroethylene.

Benzene, formaldehyde (FA) and trichloroethylene (TCE) are ubiquitous chemicals in workplaces and the general environment. Benzene is an established myeloid leukemogen and probable lymphomagen. FA is classified as a myeloid leukemogen but has not been associated with non-Hodgkin lymphoma (NHL), whereas TCE has been associated with NHL but not myeloid leukemia. Epidemiologic associations between FA and myeloid leukemia, and between benzene, TCE and NHL are, however, still debated. Previously, we showed that these chemicals are associated with hematotoxicity in cross-sectional studies of factory workers in China, which included extensive personal monitoring and biological sample collection. Here, we compare and contrast patterns of hematotoxicity, monosomy 7 in myeloid progenitor cells (MPCs), and B-cell activation biomarkers across these studies to further evaluate possible mechanisms of action and consistency of effects with observed hematologic cancer risks. Workers exposed to benzene or FA, but not TCE, showed declines in cell types derived from MPCs, including granulocytes and platelets. Alterations in lymphoid cell types, including B cells and CD4+ T cells, and B-cell activation markers were apparent in workers exposed to benzene or TCE. Given that alterations in myeloid and lymphoid cell types are associated with hematological malignancies, our data provide biologic insight into the epidemiological evidence linking benzene and FA exposure with myeloid leukemia risk, and TCE and benzene exposure with NHL risk.

Streptomyces canalis sp. nov., an actinomycete isolated from an alkali-removing canal.

A novel actinomycete strain, designated TRM 46794-61T, was isolated from an alkali-removing canal in 14th Farms of Xinjiang Production and Construction Corps, north-west China. The isolate contained ll-diaminopimelic acid as the diagnostic diamino acid. The whole-cell sugar patterns of the isolate contained ribose, mannose and glucose. The polar lipids were diphosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylethanolamine, phosphatidylcholine, phosphatidylinositol, phosphatidylinositol mannoside and two unidentified phospholipids. The predominant menaquinones were MK-9(H2), MK-9(H4), MK-9(H6) and MK-9(H8). The major fatty acids were iso-C16 : 0, anteiso-C17 : 0 and anteiso-C15 : 0. The G+C content of the DNA was 70.4 mol%. Phylogenetic analysis showed that strain TRM 46794-61T had a 16S rRNA gene sequence similarity of 97.6 % with the most closely related species with a validly published name, Streptomyces aidingensis TRM 46012T, and it could be distinguished from all species in the genus Streptomyces based on data from this polyphasic taxonomic study. However, DNA-DNA hybridization studies between strain TRM 46794-61T and S.aidingensis TRM 46012T showed only 45.4 % relatedness. On the basis of these data, strain TRM 46794-61T should be designated as a representative of a novel species of the genus Streptomyces, for which the name Streptomyces canalis sp. nov. is proposed. The type strain is TRM 46794-61T (=CCTCC AA 2015006T=KCTC 39568T).

[Determination of n-pentanol in workplace air by solvent desorption gas chromatography].

OBJECTIVE: To develop a solvent desorption gas chromatographic method for determination of n-pentanol in the workplace air. METHODS: n-Pentanol in the workplace air was collected with activated carbon tubes, desorbed with 2% 2-propanol in carbon disulfide, separated with a nitroterephthalic acid-modified FFAP capillary column, and detected with flame ionization detector. RESULTS: The limit of detection was 0.2 mg/L; the lower limit of quantification was 0.6 mg/L; the linear range was 0.6-4072.0 mg/L. The minimum detectable mass concentration was 0.2 mg/m3 for 1.5 L of air sample. This method was highly repeatable. The relative standard deviations were 2.3%-5.4%. The average desorption efficiencies were 86.9%-94.2%. The absorption efficiencies were 100%. The breakthrough volume was above 8.0 mg in 100-mg activated carbon. The samples in activated carbon tubes could be stored for at least 14 days at room temperature. CONCLUSION: The method is feasible for determination of n-pentanol in the workplace air.

Composition and variation of sediment bacterial and nirS-harboring bacterial communities at representative sites of the Bohai Gulf coastal zone, China.

With rapid urbanization, anthropogenic activities are increasingly influencing the natural environment of the Bohai Bay. In this study, the composition and variation of bacterial and nirS-harboring bacterial communities in the coastal zone sediments of the Bohai Gulf were analyzed using PCR-based clone libraries. A total of 95 genera were detected in the bacterial communities, with Proteobacteria (72.1 %), Acidobacteria (10.5 %), Firmicutes (1.7 %), Bacteroidetes (1.4 %), Chloroflexi (0.7 %) and Planctomycetes (0.7 %) being the dominated phyla. The NirS sequences were divided into nine Clusters (A-I). Canonical correlation analysis showed that the bacterial or denitrifying communities were correlated with different environmental factors, such as total organic carbon, total nitrogen, ammonium, sulfate, etc. Furthermore, bacterial communities' composition and diversity are influenced by oil exploration, sewage discharge and other anthropogenic activities in the coastal area of the Bohai Sea. Thus, this study provided useful information on further research on regional or global environmental control and restore.

The Effects of Illegitimate Tasks on Task Crafting and Cyberloafing: The Role of Stress Mindset and Stress Appraisal.

Previous studies have mainly focused on the detrimental effects of illegitimate tasks as ubiquitous workplace stressors while ignoring the appraisal measures for such tasks. The term "illegitimate" is used by employees to describe the alignment of a task with their job role rather than the inherent qualities of the task itself. Thus, drawing on the transactional theory of stress, this study examines the moderating effect of the stress mindset on the relationship between illegitimate tasks and the appraisal of such tasks. On this basis, this study further explores when cognitive appraisal mediates the effects of illegitimate tasks on coping behaviors (task crafting and cyberloafing). Data were collected from 285 employees from an energy company in Shandong, China, by using a time-lagged research design. The findings indicate that employees react differently to illegitimate tasks depending on their stress mindset. Specifically, for employees with a stress-is-enhancing mindset, illegitimate tasks induce their challenge appraisal, which leads to task crafting. In addition, illegitimate tasks induce hindrance appraisal in employees with a stress-is-debilitating mindset, which leads to cyberloafing. In practice, this research study suggests that when illegitimate tasks cannot be eliminated, organizations should consider employees' stress mindset when assigning such tasks.

Comparative effects of ammonium nitrogen on perchlorate degradation performance under heterotrophic condition with different carbon sources.

Perchlorate (ClO4-) mainly exists in the form of ammonium perchlorate in industrial production. However, the degradation mechanisms of different concentrations of ammonium nitrogen (NH4+-N) and ClO4- mixed pollutants in the environment are not well understood. This study aims to explore the potential of different types of carbon sources for ClO4- and NH4+-N biodegradation. Experimental results showed that the concentration and type of carbon sources are decisive to simultaneous removal of NH4+-N and ClO4-. Under condition of C(COD)/C(ClO4-) ratio of 21.15 ± 4.40, the simultaneously removal efficiency of ClO4- and NH4+-N in acetate (Ace) was relatively higher than that in methanol (Met). C(NH4+-N)/C(ClO4-) ratio of 9.66 ± 0.51 and C(COD)/C(ClO4-) ratio of 2.51 ± 0.87 promoted ClO4- reduction in glucose-C (Glu-C). However, high concentration of Glu could cause pH decrease (from 7.57 to 4.59), thereby inhibiting ClO4- reduction. High-throughput sequencing results indicated that Proteobacteria and Bacteroidetes have made a major contribution to the simultaneous removal of NH4+-N and ClO4-. They are two representative bacterial phyla for participating in both ClO4- reduction and denitrification. Notably, the abundance of main ClO4- degrading bacteria (such as Proteobacteria, Chloroflexi, and Firmicutes) significantly increased by 528.57 % in Glu-C. It can be inferred that the concentration of carbon source and NH4+-N were the most important factors determining the removal efficiency of ClO4- by influencing changes in the core microbial community. This study will provide new techniques and mechanistic insights for the simultaneous removal of mixed ClO4- and nitrogen pollutants, which can also provide theoretical support for innovation in future biological treatment processes.