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1,129 results for “aerobic”
Indicative distribution map for Ecosystem Functional Group S1.1 Aerobic caves
<p>This archive contains indicative distribution maps and profiles for <strong>S1.1 Aerobic caves</strong>, a ecosystem functional group (EFG, level 3) of the <a href="https://global-ecosystems.org/">IUCN Global Ecosystem Typology</a> (v2.0). Please refer to Keith <em>et al.</em> (2020) for details.</p> <p>The descriptive profiles provide brief summaries of key ecological traits and processes, maps are indicative of global distribution patterns, and are not intended to represent fine-scale patterns. The maps show areas of the world containing major (value of 1, coloured red) or minor occurrences (value of 2, coloured yellow) of each ecosystem functional group. Minor occurrences are areas where an ecosystem functional group is scattered in patches within matrices of other ecosystem functional groups or where they occur in substantial areas, but only within a segment of a larger region. Given bounds of resolution and accuracy of source data, the maps should be used to query which EFG are likely to occur within areas, rather than which occur at particular point locations. Detailed methods and references for the maps are included in the profile (xml format).</p>
Dataset of scientific article "Variability in Arsenic Methylation Efficiency across Aerobic and Anaerobic Microorganisms"
<p>Dataset for journal paper entitled "Variability in Arsenic Methylation Efficiency across Aerobic and Anaerobic Microorganisms" (DOI: 10.1021/acs.est.0c03908).</p> <p><strong>Partial publication's abstract:</strong> "Microbially-mediated methylation of arsenic (As) plays an important role in the As biogeochemical cycle, particularly in rice paddy soils where methylated As, generated microbially, is translocated into rice grains. The presence of the arsenite (As(III)) methyltransferase gene (<em>arsM</em>) in soil microbes has been used as an indication of their capacity for As methylation. Here, we evaluate the ability of seven microorganisms encoding active ArsM enzymes to methylate As. Amongst those, only the aerobic species were efficient methylators. The anaerobic microorganisms presented high resistance to As exposure, presumably through their efficient As(III) efflux, but methylated As poorly. The only exception were methanogens, for which efficient As methylation was seemingly an artifact of membrane disruption."</p> <p>The files deposited include: the flow cytometry data and fluorescence microscopy pictures used to assess membrane disruption of the methanogen <em>Methanosarcina mazei</em>, for experimental details please refer to publication, and the supporting information of the publication. Files:</p> <ol> <li><strong>Figure 3_flowcytometry files.zip:</strong> flow cytometry measurements reported in Figure 3 of publication. Measurements were performed with a 5-laser LSRII SORP flow cytometer. SYBR Green I (SG) (Invitrogen) was excited by the Blue laser (488 nm) and detected using a 530/30 band pass filter. propidium iodide (PI) (Sigma) was excited by the YG laser (561 nm) and detected using a 610/20 band pass filter. 30’000 events per sample were analyzed into four populations (no fluorescence, SG, SG/PI, or PI). Cells could be assigned to the membrane-compromised population, based on the gating of double-stained and single-stained controls of glutaraldehyde- fixed and ethanol-permeabilized cells. Cytometric data were acquired and analyzed using BD TM FACSDiva software v. 8.0.1 (BD Biosciences, CA, USA). The files consist of the reports generated by BD TM FACSDiva software in .jpg format.</li> <li><strong>Figure S14_fluorescence microscopy files.zip:</strong> Fluorescence microscopy pictures in .lsm format of single-stained SG control (SG), single-stained PI control (PI), double-stained control (SG/PI), 16-days sample (16 days) and 20-day sample (20 days) of a <em>Methanosarcina mazei</em> culture grown with 10 μM As(III) as initial concentration. The pictures are published as Figure S14 of the publication. The pictures were taken using Zeiss LSM 700 in the upright configuration equipped with a Plan-Apochromat 63x/1.40 oil immersion objective. For more details please refer to supplementary information in publicaiton. Recommended software for .lsm format included in .zip file.</li> <li><strong>SI_tables_Viacava_et_al_for_publication:</strong> file in .xlsx format including the tables: Accession numbers for As(III)-efflux and ArsM proteins and genes; primers used in preparing mutants of <em>C. pasteurianum</em>; growth curves and growth rates values for all sampled cultures; relative abundance of flow-cytometry populations; ICP-MS settings for As analysis; primers for <em>arsM</em> gene amplifications; primers for RT-qPCR of <em>C. pasteurianum</em>; HPLC-ICP-MS spectrum values ; values of <em>arsM</em> and <em>acr3</em> expression in <em>C. pasteurianum</em> WT and <em>Δacr3</em>; and concentration of total soluble arsenic and soluble arsenic species in filtered medium from all sampled cultures.</li> <li><strong>SI_Viacava_et_al_for_publication:</strong> file in .pdf format including: <ol> <li>Materials and methods: total arsenic and arsenic speciation analysis; cloning the arsM genes and gene expression in <em>E. coli </em>AW3110 (DE3); growth conditions of <em>C. pasteurianum</em> H0D0R4, strain used for genetic modification; isolation of the <em>Δacr3</em> and <em>ΔpyrE::Δacr3</em> mutants; arsenic methylation by <em>C. pasteurianum Δacr3</em>; transcription of arsM in <em>C. pasteurianum</em> WT and <em>Δacr3</em>; and membrane-integrity assessment of <em>M. mazei</em> cells using flow cytometry.</li> <li>Figures: growth rate of each individual species; abiotic control growth curves; total soluble anaerobic bacterium culture; soluble arsenic species in filtered medium from anaerobic bacterial cultures grown with 50 μM As(III); soluble arsenic species in filtered medium and volatile arsenic species from an A. rosenii culture; soluble arsenic in filtered medium from <em>S. vietnamensis, M. mazei and M. acetivorans</em> cultures; soluble arsenic species in abiotic controls; spiked HPLC-ICP-MS spectra; growth and concentration of soluble arsenic species in ArsM-expressing <em>E. coli </em>AW3110 (DE3); fluorescence microscopy pictures of flow cytometry controls from the membrane-integrity assessment from a <em>M. mazei </em>culture grown with 50 μM As(III); expression of <em>arsM</em> and <em>acr3</em> in <em>C. pasteurianum</em> WT and <em>Δacr3</em> mutant; and alignment of ArsM proteins.</li> </ol> </li> <li><strong>README.txt:</strong> .txt file with this description text.</li> </ol>
Pyruvate transamination and NAD biosynthesis enable proliferation of succinate dehydrogenase-deficient cells by supporting aerobic glycolysis
<p>Data supporting results published by Ricci et al. Pyruvate transamination and NAD biosynthesis enable proliferation of succinate dehydrogenase-deficient cells by supporting aerobic glycolysis. Cell Death and Disease (2023) 14:403 (https://doi.org/10.1038/s41419-023-05927-5).</p>
Leaf wound induced ultraweak photon emission is suppressed under anoxic stress: observations of Spathiphyllum under aerobic and anaerobic conditions using novel in vivo methodology
<p>Dataset for paper: ABSTRACT: </p> <p>Plants have evolved a variety of means to energetically sense and respond to abiotic and biotic environmental stress. Two typical photochemical signaling responses involve the emission of volatile organic compounds and light. The emission of certain leaf wound volatiles and light are mutually dependent upon oxygen which is subsequently required for the wound-induced lipoxygenase reactions that trigger the formation of fatty acids and hydroperoxides; ultimately leading to photon emission by chlorophyll molecules. A low noise photomultiplier with sensitivity in the visible spectrum (300 – 720 nm) is used to continuously measure long duration ultraweak photon emission of dark-adapting whole <em>Spathiphyllum</em>leaves (<em>in vivo</em>). Leaves were mechanically wounded after two hours of dark adaptation in aerobic and anaerobic conditions. It was found that (1) nitrogen incubation did not affect the pre-wound basal photocounts; (2) wound induced leaf biophoton emission was significantly suppressed when under anoxic stress; and (3) the aerobic wound induced emission spectra observed was > 650 nm, implicating chlorophyll as the likely emitter. Limitations of the PMT photocathode’s radiant sensitivity, however, prevented accurate analysis from 700 – 720 nm. Further examination of leaf wounding profile photon counts revealed that the pre-wounding basal state (aerobic and anoxic), the anoxic wounding state, and the post-wounding aerobic state statistics all approximate a Poisson distribution. It is additionally observed that aerobic wounding induces two distinct exponential decay events. These observations contribute to the body of plant wound-induced luminescence research and provide a novel methodology to measure this phenomenon <em>in vivo</em>.</p>
Aerobic Exercise in Women With Systemic Lupus Erythematosus
ClinicalTrials.gov study NCT03186794. IPD Sharing: YES. Countries: 1. Publications: 3.
δ15N of nitric oxide produced under aerobic or anaerobic conditions from seven soils and their associated N isotope fractionations
<p>Measuring the nitrogen isotope compositions (δ<sup>15</sup>N) of nitric oxide (NO) from different sources helps to quantify the relative contributions of atmospheric NO<sub>x</sub>. Soil is one of the most important sources of atmospheric NO<sub>x</sub>, but only limited measurements on the δ<sup>15</sup>N of soil emitted NO exist, hampering our ability to partition sources to air pollution. Here we conducted soil incubations to measure the δ<sup>15</sup>N-NO under defined aerobic or anaerobic conditions, favoring either nitrification or denitrification. Soils were collected from seven sites spanning three ecosystems in northern China (two agricultural, two forest, and three grassland sites). We found that the δ<sup>15</sup>N-NO and their associated N isotope fractionations were significant different between anaerobic and aerobic conditions in seven soils. Under aerobic condition, the δ<sup>15</sup>N-NO ranged from -62‰ to -50‰ (averaged -56 ± 4‰), being significantly more negative (by 23‰) than those under anaerobic condition (-45‰ to -23‰, averaged -33 ± 7‰). The apparent N isotope fractionation for NO production under aerobic condition (<sup>15</sup><em>ε</em><sub>aerobic</sub> = 61 ± 3‰) was significantly higher (by 26‰) than under anaerobic condition (<sup>15</sup><em>ε</em><sub>anaerobic</sub> = 35 ± 6‰), with a small variability among ecosystem types. Our study demonstrates that the δ<sup>15</sup>N-NO from different soils are very different from fuel combustions (mainly from 0 to +20‰), supporting that measuring <sup>15</sup>N is a useful tool to partition the contributions of soil NO to atmospheric NO<sub>x</sub>. Our results also imply δ<sup>15</sup>N-NO produced by nitrification and denitrification distinctly different, as these two processes are dominant processes producing NO under aerobic and anaerobic conditions, respectively.</p>
Multiple extracellular polymeric substances pathways expressed by Accumulibacter and the flanking community during aerobic granule formation and after influent modification
<p><span>Aerobic granular sludge is a biological wastewater treatment process in which a microbial community forms a granular biofilm. The role of <em>Candidatus</em> Accumulibacter in the production of a biofilm matrix, composed of extracellular polymeric substances, was studied in a sequencing batch reactor enriched with polyphosphate-accumulating organisms. The metabolisms of the microbial populations were investigated using <em>de novo</em> metatranscriptomics analysis. Finally, the effect of decreasing the influent phosphate concentration on the granule stability and microbial activity was investigated. </span></p> <p><span>A few weeks after the reactor start-up, the microbial community was dominated by <em>Accumulibacter</em> with up to nine species active in parallel. However, the most active species differed according to sampling time. Decreasing drastically the influent phosphate concentration led to a dominance of the glycogen-accumulating organism <em>Propionivibrio</em>, with some <em>Accumulibacter</em> species still abundant. <em>De novo</em> metatranscriptomics analysis indicated a high diversity of potential extracellular substances produced mainly by <em>Accumulibacter</em>, <em>Azonexus</em>, <em>Candidatus</em> Contendobacter, and <em>Propionivibrio</em>. Moreover, the results suggest that <em>Azonexus</em>, <em>Contendobacter</em> and <em>Propionivibrio</em> recycle the neuraminic acids produced by <em>Accumulibacter</em>. Changes in the microbial community did not cause the granules to disintegrate, indicating that a <em>Propionivibrio</em>-dominated community can maintain stable granules.</span></p>
Scripts, figures and output for "Oxygen intrusions sustain aerobic nitrite oxidation in anoxic marine zones" by Pearse J. Buchanan & colleagues.
<p>Scripts for producing the visualisations, analysis and model results presented in the paper entitled "<em>Oxygen intrusions sustain </em><em>aerobic nitrite-oxidizing bacteria in anoxic </em><em>marine zones</em>" by Pearse James Buchanan & colleagues. </p> <p>Figures.tar holds the figures made with the python scripts <br>Chemostat_model.tar holds the python code required for running the chemostat model<br>Chemostat_output.tar holds the output of our experiments<br>OxicMAGS.txt and mumax_MAGS_gRodon.txt are required data files for fig5.py</p> <p>Other python scripts and figures seen in the full paper are held at https://doi.org/10.5281/zenodo.15139207 and were completed using jupyter notebooks on a memory intensive instance on the Expanse Super computer in San Diego. Please see those files for the remaining analysis.</p> <p><br>Contact pearse.buchanan@csiro.au or ezakem@carnegiescience.edu for any questions<br> </p> <p> </p>
Growth and persistence of an aerobic microbiome in Wyoming bentonite MX-80 despite anoxic in situ conditions
<p>This dataset contains all raw data used for the manuscript "Growth and persistence of an aerobic microbiome in Wyoming bentonite MX-80 despite anoxic <em>in situ</em> conditions"</p> <p>Raw data of enumeration via cultivation (colony forming units per gram dry Wyoming bentonite; most probable number per gram dry Wyoming bentonite), and raw sequences of 16S rRNA gene V4 region sequencing. The dataset also includes the 16S rRNA bioinformatics pipeline and the used 16S database to map the obtained sequences on as well as a metadata file in Excel and CSV format.<br> Figures 1, 2, 3, 4, 5, and 6 were created with the data and/or the scripts provided in the respective subfolders.</p>
From performance curves to performance surfaces: Interactive effects of temperature and oxygen availability on aerobic and anaerobic performance in the common wall lizard
<p>1. Accurately predicting the responses of organisms to novel or changing environments requires the development of ecologically-appropriate experimental methodology and process-based models.</p> <p>2. For ectotherms, thermal performance curves (TPCs) have provided a useful framework to describe how organismal performance is dependent on temperature. However, this approach often lacks a mechanistic underpinning, which limits our ability to use thermal performance curves predictively. Further, thermal dependence varies across traits, and performance is also limited by additional abiotic factors, such as oxygen availability.</p> <p>3. We test a central prediction of our recent Hierarchical Mechanisms of Thermal Limitation (HMTL) Hypothesis which proposes that natural hypoxia exposure will reduce maximal performance and cause the thermal performance curve for whole-organism performance to become more symmetrical.</p> <p>4. We quantified thermal performance curves for two traits often used as fitness proxies, sprint speed and aerobic scope, in lizards under conditions of normoxia and high-elevation hypoxia.</p> <p>5. In line with the predictions of HMTL, anaerobically-fueled sprint speed was unaffected by acute hypoxia while the TPC for aerobic scope became shorter and more symmetrical. This change in TPC shape resulted from both the maximum aerobic scope and the optimal temperature for aerobic scope being reduced in hypoxia as predicted.</p> <p>6. Following these results, we present a mathematical framework, which we call Temperature-Oxygen Performance Surfaces (TOPS), to quantify the interactive effects of temperature and oxygen on whole-organism performance in line with the HMTL hypothesis. This framework is transferrable across traits and levels of organization to allow predictions for how ectotherms will respond to novel combinations of temperature and other abiotic factors, providing a useful tool in a time of rapidly changing environmental conditions.</p>
The thermal performance curve for aerobic metabolism of a flying endotherm
<p>Performance benefits of stable, warm muscles are believed to be important for the evolution of endothermy in mammals, birds, and flying insects. However, thermal performance curves have never been measured for a free-flying endotherm, as it is challenging to vary body temperatures of these animals, and maximal flight performance is difficult to elicit. We varied air temperatures and gas densities to manipulate thoracic temperatures of flying honey bees from 29-44°C, with low air densities used to increase flight metabolic rates to maximal values. Honey bees showed a clear thermal performance curve with an optimal temperature of 39°C. Maximal flight metabolic rates increased by ~2% per 1°C increase in thoracic temperature at suboptimal thoracic temperatures, but decreased ~5% per 1°C increase as the bees continued to heat up. This study provides the first quantification of the maximal metabolic performance benefit of thermoregulation in an endotherm. These data directly support aerobic capacity models for benefits of thermoregulation in honey bees, and suggest that improved aerobic capacity likely contributes to the multiple origins of endothermic heterothermy in bees and other insects.</p>
Data from: Mitonuclear interactions impact aerobic metabolism in hybrids and may explain mitonuclear discordance in young, naturally hybridizing bird lineages
<p>Understanding genetic incompatibilities and genetic introgression between incipient species are major goals in evolutionary biology. Mitochondrial genes evolve rapidly and exist in dense gene networks with coevolved nuclear genes, suggesting that mitochondrial respiration may be particularly susceptible to disruption in hybrid organisms. Mitonuclear interactions have been demonstrated to contribute to hybrid dysfunction between deeply divergent taxa crossed in the laboratory, but there are few empirical examples of mitonuclear interactions between younger lineages that naturally hybridise. Here we use controlled hybrid crosses and high resolution respirometry to provide the first experimental evidence in a bird that inter-lineage mitonuclear interactions impact mitochondrial aerobic metabolism. Specifically, respiration capacity of the two mitodiscordant backcrosses (with mismatched mito-nuclear combinations) differ from one another, although they do not differ significantly from the parental groups or mitoconcordant backcrosses as we would expect of mitonuclear disruptions. In the wild hybrid zone between these subspecies the mitochondrial cline centre is shifted west of the nuclear cline centre, which is consistent with the direction of our experimental results. Our results therefore demonstrate asymmetric mitonuclear interactions that impact the capacity of cellular mitochondrial respiration and may help to explain the geographic discordance between mitochondrial and nuclear genomes observed in the wild.</p>
Coronary Circulation Enhances the Aerobic Performance of Pacific Salmon, Particularly for Females
<p>Female Pacific salmon often experience higher mortality than males during their once-in-a-lifetime up-river spawning migration, particularly when exposed to secondary stressors (e.g. high temperatures). However, the underlying mechanisms remain unknown. One hypothesis is that female Pacific salmon hearts are more oxygen-limited than males and are less able to supply oxygen to the body's tissues during this demanding migration. Such oxygen limitations can develop from naturally occurring coronary blockages (<em>i.e.</em>, coronary arteriosclerosis) found in mature salmon hearts. To test this hypothesis, we measured resting (RMR) and maximum metabolic rate (MMR), aerobic scope (AS) and acute upper thermal tolerance in coho salmon (<em>Oncorhynchus kisutch</em>) with an intact or artificially blocked coronary oxygen supply. We also assessed venous blood oxygen and chemistry (cortisol, ions, and metabolite concentrations) at different time intervals during recovery from exhaustive exercise. We found that coronary blockage impaired MMR, but to a greater extent in females than males. Thus, coronary oxygen supply is more important in females than males to support peak metabolism, which is essential during upriver swimming. Furthermore, the coronary blockage reduced AS and PvO<sub>2</sub> during exercise recovery but did not differ between sexes. Coronary ligation lowered acute upper thermal tolerance by 1.1°C. Our findings highlight the importance of coronary blood supply for mature salmon and show evidence that elevated female mortality may be linked to cardiac limitation, particularly during warm water conditions.</p>
MADFORWATER: WP2: Adaptation of technologies for efficient water management and treated wastewater reuse in agriculture: Task 2.3–Agro-industrial wastewater treatment: Subtask 2.3.1. –Treatment of olive mill wastewater (OMWW): Aerobic biological treatment in sequenced batch reactors (SBRs): Subset 1
<p>This dataset contains the data underlying the following publication: Fatma AROUS, Chadlia HAMDI, Souhir KMIHA, Nadia KHAMMASSI, Amani AYARI, Mohamed NEIFAR, Tahar MECHICHI, Atef JAOUANI (2018). Treatment of olive mill wastewater through employing sequencing batch reactor: Performance and microbial diversity assessment. 3 Biotech 2018, 8, 481. https://doi.org/10.1007/s13205-018-1486-6.</p>
Figure 2 in Diversity of the aerobic cloacal microbiota of syntopic lizard species (Reptilia: Sauria) from a low-mountain area in Western Bulgaria
Figure 2. Composition of the cloacal microbiota of each lizard species.
Data of the effects of temperature and dissolved oxygen on thermal biology and aerobic metabolism of tropical Callinectes sapidus crabs
<p>This file contains raw data on the effects of temperature and dissolved oxygen on several aspects of the physiology of the Callinectes sapidus tropical population. </p> <p>I. Data on thermal biology includes the effects of acclimation temperatures on 1) Preferred temperature; 2) Critical thermal minima and maxima; 3) Thermal safety margin (TSM); Thermal metabolic scope (TMS).</p> <p>II. Data on the combined effects of temperature and dissolved oxygen on routine oxygen consumption of C. sapidus. </p> <p>Those data was sent as a scientific paper to the Journal of Thermal Biology. </p> <p> </p>
Supplementary data for the manuscript titled 'Energy metabolism and aerobic respiratory chain of Vitreoscilla sp. C1: Comparison with beta-proteobacteria'
<p>This dataset contains the supplementary data files for the manuscript titled, 'Energy metabolism and aerobic respiratory chain of Vitreoscilla sp. C1: Comparison with beta-proteobacteria.' </p>
Data for Radiation and temperature drive diurnal variation of aerobic methane emissions from Scots pine canopy
<p>Aerobic methane emissions from plant foliage may play an important role in the global methane cycle, but their size and the underlying source processes remain poorly understood. Here, we quantify methane fluxes from the shoots Scots pine trees, a dominant tree species in boreal forests, identify source processes and environmental drivers, and evaluate the potential of leaf emissions to constrain methane emissions at the ecosystem-level eddy covariance flux measurements. We show that shoot-level measurements conducted in forest, garden, or greenhouse settings; on mature trees and saplings; manually and with an automated CO<sub>2</sub> -, temperature-, and water-controlled chamber system; and with multiple methane analysers all resulted in comparable daytime flux rates (0.094±0.035 to 0.241±0.090 nmol CH<sub>4</sub> g<sup>-1</sup> foliar dw h<sup>-1</sup>). We find that methane emissions from Scots pine shoots exhibit a pronounced diurnal cycle that closely follows photosynthetically active radiation (PAR) and is further modulated by temperature. These diurnal patterns indicate that methane production is associated with diurnal cycle of sunlight, suggesting that methane is either a byproduct of photosynthesis-associated biochemical reactions (e.g. the methionine cycle) or produced through non-enzymatic photochemical reactions in plant biomass. Moreover, we identified a light-dependent component in stand-level methane fluxes, which showed an order-of-magnitude agreement with shoot-level measurements (0.968±0.031 nmol CH<sub>4</sub> g<sup>-1</sup> h<sup>-1</sup>), and which provides an upper limit to shoot methane emissions.</p> <p> </p>
Supplementary material 1 for Thesis Chapter 2 - An obligate aerobe hybridises hydrogen fermentation and carbon storage to adapt to hypoxia
<p>Supplementary material for paired comparative metabolomics and proteomics on <em>Mycobacterium smegmatis </em>mc<sup>2</sup>155 during hypoxia, as part of chapter 2 for the thesis "Biochemistry and physiology of mycobacterial adaptations to energy starvation".</p> <p>Description below is identical to that provided in 'Summary.docx'. </p> <p>Proteomics_analysis.xlsx</p> <p>Includes raw and annotated data for comparative proteomics experiments for chapter 2.</p> <p>The tab ‘Annotated comparisons’ contains fold change and p values for the comparisons for each protein from <em>Mycobacterium smegmatis </em>mc<sup>2</sup>155 derived from LFQ-Analyst. Functional annotations are derived from KEGG pathways and modules, which utilise the spreadsheets in ‘MSMEG gene annotation’ ‘Protein ids to KEGG pathway’ and ‘KEGG Pathway and Modules’ to link KEGG annotations to MSMEG_XXXX gene identifiers and MSMEG_XXXX to Uniprot ID. Output from LFQ-Analyst is provided in the ‘Full_dataset’, ‘Imputed_matrix’ and ‘Original_matrix’ tabs.</p> <p>Data provided by the Monash Proteomics and Metabolomics Facility for upload into LFQ-analyst are provided as the ‘combined_protein.tsv’ and ‘LFQ-Analyst_experimental_design.txt’.</p> <p> </p> <p>Metabolism_analysis.xlsx</p> <p>Includes annotated data for comparative metabolomics experiments for chapter 2. Within the spreadsheet, TR refers to transition, ST refers to stationary phase and EXP refers to exponential phase. The tabs ‘TRvsEXP’, ‘STvsTR’ and ‘STvsEXP’ contain fold change and p values for each metabolite detected for each comparison. The remaining tabs categorise the metabolites based on KEGG database and IDEOM annotations. For broader categories (‘Lipid metabolism’,’ Carbohydrate metabolism’, ‘Cofactor metabolism’, ‘Nucleotide metabolism’, ‘Amino acid metabolism’ and ‘Peptides’ tabs), annotations were derived directly from filtering the ‘Map’ column of ‘Comparisons’ tab of the IDEOM worksheet (IDEOM_analysis.xlsb). Screenshots are pasted into each tab to show the filtering settings. The remaining tabs comprise narrower categories which were manually annotated with reference to KEGG pathways and maps, and also include rows corresponding to the proteomics data for these categories, so the proteomics and metabolomics data can be interpreted together. The ‘Proteomics’ tab contains the proteomics data referenced by these tabs, which is a copy of the ‘Annotated comparisons’ tab from the ‘Proteomics_analysis.xlsx’ file. A value of ‘N’ indicates the metabolite or protein (at least according to the name in the same row) was not found in these datasets.</p> <p>The IDEOM worksheet (IDEOM_analysis.xlsb) was provided by the Monash Proteomics and Metabolomics Facility and was used for further analysis and for annotations. ‘Data_for_MA_no_normalization.csv’ was also provided by the Monash Proteomics and Metabolomics Facility for upload into Metaboanalyst (https://www.metaboanalyst.ca/).</p>
Efficacy of Aerobic Exercise Added to Alprazolam in Panic Disorder Treatment
ClinicalTrials.gov study NCT00803400. IPD Sharing: NO. Countries: 1. Publications: 1.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.