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11,869 results for “metabolic”
Red spruce foliar nutritional and metabolic responses to N, Ca, and N+Ca additions in a plot level study from Hubbard Brook Experimental Forest NH, Adirondack State Park, NY and Groton State Forest, VT from 1997-2000.
Plot Level Ca, N, Ca+N Study Background: Three mature red spruce (Picea rubens Sarg.) – balsam fir (Abies balsamea (L.) Mill.) stands with closed canopies from across the northeastern United States were selected to assess the effects of N and Ca additions on forest growth. These sites included Groton, VT (Groton State Forest), Big Moose Lake, NY (Adirondack State Park) and Watershed 9 in the Hubbard Brook Experimental Forest, NH. Site descriptions can be found in the pdf file included in this dataset. Full site descriptions have been published in Kulmatiski et al, 2007, Nitrogen and calcium additions increase forest growth in northeastern USA spruce–fir forests, Canadian Journal of Forest Research 37: 1574-1585. This publication also provides more in-depth site and soil descriptions. In 1992, three replicate 30 m by 30 m plots were randomly assigned to each of four treatment levels: control (control), Ca addition (Ca), N addition (N), or Ca + N addition (Ca + N) in NY and NH (for a total of 12 plots at each site). In VT, only control and Ca treatments were established due to limited space and research goals (for a total of 6 plots). Beginning in July 1992 through July 2000, N amendments (100 kilograms of NH4NO3-N per hectare per year), Ca amendments (80 kilograms of CaSO4-Ca plus 80 kilograms of CaCl2-Ca per hectare per year), and Ca + N (same dosage as separate applications) amendments were hand broadcast as commercial grade salts. Applications were made in June, July, and August to each plot in each year. SUMMARY: The main objectives of this study were to evaluate changes over time (1997-2000) in foliar metabolism of mature red spruce (Picea rubens Sarg.) trees in response to additions of nitrogen, Ca, or N +Ca supplementation. N was applied as NH4NO3 and Ca was applied as gypsum [CaSO4 .2H2O (2X) + CaCl2 .2H2O (1X)] and Ca + N treatment was a combination of both at the same concentrations Three sites received these treatments; Groton, VT (Groton State Forest), Bi
Metabolic responses of Plectus murrayi across a temperature gradient, McMurdo Dry Valleys, Antarctica, 2016-2017
Populations of Plectus murrayi, a mesophilic nematode, have been increasing in the McMurdo Dry Valleys, Antarctica over the past three decades. In contrast, most other Antarctic nematode species, including Scottnema lindsayae, have experienced constant population declines over the same time period due to climate change related increases in summer temperatures and wetting occurrences. To determine why P. murrayi populations are outperforming other Antarctic nematode species, we performed a laboratory experiment to measure their metabolic responses to increasing temperatures. For this experiment, P. murrayi were cultured from soils collected in Taylor Valley during the austral summers of 2016 and 2017 as part of the McMurdo Dry Valleys Long Term Ecological Research (LTER) Project. Using a TAM IV Isothermal Microcalorimeter, we measured the metabolic heat rates of these cultured P. murrayi populations in six sealed 4 mL vials. Three of these vials also contained 200 µl ampoules of 0.4 M NaOH. NaOH reacts with CO2 produced from metabolic processes to release a known amount of heat (108.5 kJ/mol CO2). The difference in metabolic heat rate produced in vials containing NaOH and those without NaOH is proportional to CO2 produced from P. murrayi metabolism. Consequently, this method allowed us to track metabolic heat rates as well as CO2 production rates. O2 consumption was calculated from vials without NaOH using Thornton's rule (455 kJ of metabolic heat/mol O2). P. murrayi metabolic heat rates were compared to C. elegans for reference, and baseline measurements included heat rates of E. coli and blank agar.
MCR LTER: Coral Reef: Data for figures in Doo, et al., Ocean acidification effects on in situ coral reef metabolism, Scientific Reports, 2019
These data result from a Free Ocean CO2 Enrichment (FOCE). Data include net community calcification (NCC), net community production (NCP), and net ecosystem calcification (NEC) for the figures in Doo, Edmunds and Cparpenter, Ocean acidification effects on in situ coral reef metabolism, Scientific Reports, 2019, https://doi.org/10.1038/s41598-019-48407-7. Data for Figure 2A describe the 24-h NCC collected in the in situ SCoRe-FOCE. Data for Figures 2B and 2C describe the offset of NCC of the high CO2 treatment from ambient collected in the in situ SCoRe-FOCE. Data for Figure 3 describe the correlation of NCP to NCC collected in the in situ SCoRe-FOCE. This material is based upon work supported by the U.S. National Science Foundation under Grant No. OCE 16-37396 (and earlier awards) as well as a generous gift from the Gordon and Betty Moore Foundation. Research was completed under permits issued by the French Polynesian Government (Délégation à la Recherche) and the Haut-commissariat de la République en Polynésie Francaise (DTRT) (Protocole d'Accueil 2005-2018). This work represents a contribution of the Moorea Coral Reef (MCR) LTER Site.
Raw data for Maier et al. "Seasonal controls on the diet, metabolic activity, tissue reserves and growth of the cold-water coral Lophelia pertusa"
<p>All raw data presented in the article:</p> <p>Maier SR, Bannister RJ, van Oevelen D and Kutti T: Seasonal controls on the diet, metabolic activity, tissue reserves and growth of the cold-water coral <em>Lophelia pertusa</em>. Coral Reefs, <em>in press.</em></p>
Raw Nanopore data for "Nanopore Long-Read Guided Complete Genome Assembly of Hydrogenophaga intermedia, and Genomic Insights into 4-Aminobenzenesulfonate, p-Aminobenzoic Acid and Hydrogen Metabolism in the Genus Hydrogenophaga"
<p>This is the raw Nanopore dataset (fast5) for Hydrogenophaga intermedia PBC. The gDNA was prepared using the now obsolete SQK-NSK007 kit and sequenced on a MINION R9 Flowcell. </p>
Within and cross species predictions of plant specialized metabolism genes using transfer learning
<p>Datasets for <em>Within and cross species predictions of plant specialized metabolism genes using transfer learning.</em> </p> <ol> <li>Dataset 1: All gene features used in the full feature machine learning models including expression, co-expression, evolutionary, duplication, and protein domain features.</li> <li>Dataset 2: All gene features used in shared feature machine learning models including expression, evolutionary, duplication, and protein domain features.</li> <li>Table S1: All gene annotations from TomatoCyc or manual annotation.</li> <li>Table S2: All model scores.</li> <li>Table S3: All gene scores and predictions from each model.</li> <li>Table S4: Feature importance for 5 models.</li> <li>Table S5: Statistical analysis between classes for binary and continuous feature data.</li> <li>Table S6: RNAseq datasets used in analysis.</li> </ol>
The zebra mussel (Dreissena polymorpha) as a model organism for ecotoxicological studies: a prior 1H NMR spectrum interpretation of a whole body extract for metabolism monitoring.
<p>NMR data of the zebra mussel <em>Dreissena polymorpha</em> whole body polar extract metabolome</p> <p>- 1D <sup>1</sup>H annotated spectrum - 600 MHz</p> <p>- 2D <sup>1</sup>H-<sup>1</sup>H JRES spectrum - 600 MHz</p> <p>- 2D<sup>1</sup>H-<sup>1</sup>H COSY spectrum - 600 MHz</p> <p>- 2D<sup>1</sup>H-<sup>1</sup>H TOCSY spectrum - 600 MHz</p> <p>- 2D<sup>1</sup>H-<sup>13</sup>C HSQC spectrum - 600 MHz</p> <p>- 2D<sup>1</sup>H-<sup>13</sup>C HSQC spectrum - 800 MHz</p> <p>- 2D<sup>1</sup>H-<sup>31</sup>P HSQC spectrum - 800 MHz</p> <p>- <sup>1</sup>H annotated spectrum description tables (.xlsx)</p> <p>- Instructions for data visualization in Topspin</p>
Data from: Gut microbiome critically impacts PCB-induced changes in metabolic fingerprints and the hepatic transcriptome in mice
<p class="western"><span><span><span>Polychlorinated biphenyls (PCBs) are ubiquitously detected in the environment and have been linked to metabolic diseases. The liver serves as a central hub for the metabolism of xenobiotics and endogenous metabolites. Gut dysbiosis is recognized as a critical regulator of disease susceptibility, however, little is known regarding how PCBs and gut microbiome interact to modulate the interface between xenobiotic and intermediary metabolism. We hypothesized that the gut microbiome regulates PCBs-mediated changes in the metabolic fingerprints and hepatic transcriptome. Ninety-day-old female conventional (CV) and germ-free (GF) C57BL/6 mice were orally exposed to the PCB Fox River Mixture (synthetic PCB mixture, 6 or 30 mg/kg) or corn oil (vehicle control, 10 ml/kg), once daily for 3 consecutive days. Organs were collected 24 hours after the final dose. RNA-Seq was conducted on liver, and endogenous aqueous metabolites (amino acids, carbohydrates, and nucleotides) were measured in liver and serum by LC-MS. The primary factor in clustering the transcriptomic and metabolomic signatures within the same exposure was by enterotype. The numbers of PCB-regulated genes were higher in CV than in GF conditions. The prototypical target genes of the major xenobiotic-sensing transcription factors AhR, PXR, and CAR were more readily up-regulated by PCBs in CV than in GF conditions, indicating the effect of PCBs on the hepatic transcriptome act partly through the gut microbiome. Xenobiotic and steroid metabolism pathways were up-regulated, whereas response to incorrect proteins pathway was down-regulated by PCBs in a gut microbiome-dependent manner. At the high PCB dose, NADP and arginine appear to interact with drug-metabolizing enzymes (Cyp1-3 family, DhcR7, and Nqo1), which are highly correlated with <i>Anaerotruncus</i> and <i>Roseburia</i> in CV mice, providing a novel explanation of gut-liver interaction in toxicant exposures. In GF exposure groups, hepatic glucose was down-regulated, whereas fructose 6-phosphate and glucose 6-phosphate were up-regulated, indicating increased glucose utilization potentiated by lack of gut microbiota. Through querying the LINCS L1000 chemical database, Enrichr predicted that therapeutic drugs targeting the anti-inflammatory and ER stress pathways are potential remedies to mitigate PCB toxicity. In conclusion, our findings demonstrate that habitation of the gut microbiota drives PCBs-mediated hepatic responses, possibly due to crosstalk between gut and liver. </span></span></span></p>
Data from: Developmental nutrition modulates metabolic responses to projected climate change
<ol> <li>Current policy has the world on track to experience around 3°C of warming by 2100. The responses of organisms to our warming world will be mediated by changes in physiological processes, including metabolic rate. Metabolic rate represents the energetic cost of living, and is fundamental to understanding the energy required to sustain populations. Current evidence indicates that animals have a limited capacity to adapt to warmer environments by reducing their metabolic rate. Consequently, animals may be more reliant on metabolic plasticity to ameliorate the thermodynamic effect of rising temperatures on physiological rates. However, metabolic plasticity is influenced by other environmental factors, including the nutritional quality of food. Elevated levels of atmospheric CO<sub>2</sub> are expected to reduce the protein and increase the carbohydrate concentration in plants, but we do not know how this will affect the response of metabolic rate to climate warming.</li> <li>Here we test the interactive effects of developmental dietary protein and carbohydrate concentrations on the metabolic plasticity of adult <i>Drosophila melanogaster</i> in response to a 3°C increase in temperature while accounting for variation associated with body mass and activity (resting metabolic rate).</li> <li>We show that the thermal sensitivity of resting metabolic rate is modulated by developmental nutrition with animals reared on nutritionally poor, low-protein diets showing the greatest increase in resting metabolic rate in response to simulated climate warming. We also show that if the nutritional quality of resources is unaffected by climate change, then temperature-induced increases in resting metabolic rate will be offset by decreases in mass, but the absolute energy requirements of animals will be elevated relative to current conditions despite this. If, on the other hand, temperatures rise and resources become more calorie-dense and carbohydrate-rich, then the resting metabolic rate of animals will remain relatively unchanged, but decreases in mass and activity may drive down the absolute energy requirements of animals.</li> <li>In the absence of evolutionary adaptation, these findings suggest that the combined plastic response of physiological, morphological, and behavioural traits to temperature and nutrition may be an important determinant of the ultimate outcome of climate change for populations.</li> </ol>
Metabolic and behavioral adaptations of greater white-toothed shrews to urban conditions
<p class="MsoNoSpacing">The global trend of urbanization is creating novel challenges to many animal species. Studies investigating behavioral differences between rural and urban populations often report a general increase in risk-taking behaviors in urban populations. According to the most common energy management model (the performance model), behaviors that increase access to resources, such as aggression and boldness, and behaviors that consume net energy, like locomotion and stress responses, are both positively correlated to resting metabolic rate (RMR). Thus, we expect urban populations to not only exhibit a higher level of risk-taking behavior but also a higher RMR. However, these interactions remain poorly investigated. Our main goal was to analyze the relationship between RMR and risk-taking behaviors in the greater white-toothed shrew (<i>Crocidura russula</i>) in rural vs. urban populations. Trapped shrews were brought to captivity where we measured RMR, boldness and exploration rate three times in each individual. Our findings revealed urban shrews were indeed bolder and more exploratory, but contrary to our expectations, their RMR was lower than that of rural shrews. This is likely explained by differences in the environmental conditions of these two habitats, such as higher ambient temperatures and/or lower prey availability in cities. When looking at each population separately, this relationship remained similar: urban shrews with a higher RMR were less bold, and rural shrews with a higher RMR showed a lower exploration rate. We conclude the energetic strategy of <i>C. russula</i> is dependent on the environmental and observational context and cannot be explained by the performance model.</p>
Data from: Metabolic rate shapes phenotypic covariance among physiological, behavioural, and life history traits in honeybees
<p>Metabolic rate is often cited as the fundamental rate that determines the rate of all biological processes by shaping energetic availability for the various behavioral and life history traits that contribute to performance. It has therefore been suggested that metabolic rate drives the widely observed covariance among these different levels of phenotypic traits. However, much of the work on this topic has relied on pairwise correlational analysis, thereby leaving an important gap in our understanding regarding the functional links that shape this phenotypic covariance, often referred to as pace-of-life. Using honeybees as an experimental model, we measured a large number of behavioural, life history and physiological traits in individual bees and used a structural equation model to characterize the phenotypic covariance structure among these traits. Following this with a path analysis, we demonstrate that variation in metabolic rate plays a fundamental proximate role in driving this phenotypic covariance structure in honeybees. We discuss the importance of these findings in the context of how interindividual variation in terms of slow-fast phenotypes may drive the phenotype of a group and the functional role metabolic rate might play in shaping division of labour and social evolution.</p>
3D metabolic profiles acquired by a Time-of-Flight Secondary Ion Mass Spectrometry (TOF-SIMS)
<p>Dataset for "Spatially resolved 3D metabolomic profiling in tissues"</p> <p>The Dataset has 6 subdata of TOF-SIMS signal raw data:<br> * Inside germinal center dataset separate into 2<br> * Outside germinal center dataset<br> * Border germinal center dataset<br> * Unlabeled dataset separate into 2<br> * Labeled tonsil tissue dataset<br> * Unlabeled tonsil tissue dataset</p> <p>1 processed data for python numpy version: 3D metabolites npy Data.zip</p> <p>Each dataset is a folder that has 191 txt files corresponding to the signal of 189 mass channels, the sum of all signals and the rest of signals not captured. <br> In each folder, the signal corresponding to a channel is named: name - molecular compound<br> </p>
Short-term heritable variation overwhelms two hundred generations of mutational variance for metabolic traits in Caenorhabditis elegans
<p>Metabolic disorders have a large heritable component, and have increased markedly in human populations over the past few generations. Genome-wide association studies of metabolic traits typically find a substantial unexplained fraction of total heritability, suggesting an important role of spontaneous mutation. An alternative explanation is that epigenetic effects contribute significantly to the heritable variation. Here we report a study designed to quantify the cumulative effects of spontaneous mutation on adenosine metabolism in the nematode <i>Caenorhabditis elegans</i>, including both the activity and concentration of two metabolic enzymes and the standing pools of their associated metabolites. The only prior studies on the effects of mutation on metabolic enzyme activity, in <i>Drosophila melanogaster</i>, found that total enzyme activity presents a mutational target similar to that of morphological and life-history traits. However, those studies were not designed to account for short-term heritable effects. We find that the short-term heritable variance for most traits is of similar magnitude as the variance among MA lines. This result suggests that the potential heritable effects of epigenetic variation in metabolic disease warrant additional scrutiny.</p>
The critical role of MetR/MetB/MetC/MetX in cysteine and methionine metabolism, fungal development and virulence of Alternaria alternata
<p>Methionine is a unique sulfur-containing amino acid, which plays an important role in biological protein synthesis and various cellular processes. Here, we characterize the biological functions of <em>AaMetB</em>, <em>AaMetC</em>, and <em>AaMetX</em> in the tangerine pathotype of <em>Alternaria alternata</em>. Morphological analysis showed that mutants lacking <em>AaMetB</em>, <em>AaMetC</em>, or <em>AaMetX</em> resulted in less aerial hypha and fewer conidia in artificial media. The virulence assays revealed that <em>AaMetB</em>, <em>AaMetC</em>, and <em>AaMetX </em>are required for full virulence. The defects of <em></em><em>MetB</em>, <em></em><em>MetC</em>, and <em></em><em>MetX</em> in vegetative growth, conidiation and virulence can be restored by exogenous methionine and homocysteine, indicating that <em>AaMetB</em>, <em>AaMetC</em>, and <em>AaMetX </em>are required for methionine biosynthesis. The defects of <em></em><em>MetR </em>in vegetative growth and virulence can be restored by exogenous cysteine, indicating that <em>AaMetR</em> is essential for cysteine biosynthesis. The oxidant sensitivity assay showed that only <em></em><em>MetR</em> is sensitivity to H<sub>2</sub>O<sub>2</sub> and many ROS-generating compounds, which indicates that <em>AaMetR</em> is essential for oxidative tolerance. Interestingly, indoor bioassays of these mutants on fungicides showed that only the <em></em><em>MetR </em>mutants<em> </em>are susceptive to chlorothalonil, which can interact with the cysteine of glyceraldehyde-3-phosphate dehydrogenase. Comparative transcriptome analysis showed that the inactivation of <em>MetB</em>, <em>MetC</em>, <em>MetX</em>, or <em>MetR</em> significantly affected the expression of many genes related to methionine metabolism. Moreover, the inactivation of Aa<em>MetR</em> significantly affected the expression of many genes related to glutathione metabolism, which is required for ROS tolerance. In conclusion, our study provides genetic evidence to define the critical roles of <em>AaMetB</em>, <em>AaMetC</em>, <em>AaMetX</em>, and <em>AaMetR</em> in the metabolism of cysteine and methionine, fungal development and virulence of <em>Alternaria alternata.</em></p>
Quantifying selection on standard metabolic rate and body mass in Drosophila melanogaster
<p>Standard metabolic rate (SMR), defined as the minimal energy expenditure required for self-maintenance, is a key physiological trait. Few studies have estimated its relationship with fitness, most notably in insects. This is presumably due to the difficulty of measuring SMR in a large number of very small individuals. Using high-throughput flow-through respirometry and a <i>Drosophila melanogaster</i> laboratory population adapted to a life-cycle that facilitates fitness measures, we quantified SMR, body mass, and fitness in 515 female and 522 male adults. We used a novel multivariate approach to estimate linear and non-linear selection differentials and gradients from the variance-covariance matrix of fitness, SMR, and body mass, allowing traits specific covariates to be accommodated within a single model. In males, linear selection differentials for mass and SMR were positive and individually significant. Selection gradients were also positive but, despite substantial sample sizes, were non-significant due to increased uncertainty given strong SMR-mass collinearity. In females, only nonlinear selection was detected and it appeared to act primarily on body size, although the individual gradients were again non-significant. Selection did not differ significantly between sexes although differences in the fitness surfaces suggest sex-specific selection as an important topic for further study.</p>
Multi-omics analysis reveals the glycolipid metabolism response mechanism in the liver of Genetically Improved Farmed Tilapia (GIFT, Oreochromis niloticus) under hypoxia stress
<p><span><b>Background: </b>Dissolved oxygen (DO) in the water is a vital abiotic factor in aquatic animal farming. A hypoxic environment affects the growth, metabolism, and immune system of fish. Glycolipid metabolism is a vital energy pathway under acute hypoxic stress, and it plays a significant role in the adaptation of fish to stressful environments. In this study, we used multi-omics integrative analyses to explore the mechanisms of hypoxia adaptation in Genetically Improved Farmed Tilapia (GIFT, <i>Oreochromis niloticus</i>). </span></p> <p><span><b>Results:</b><b> </b>The 96 h median lethal hypoxia (96h-LH50) for GIFT was determined by linear interpolation. We established control (DO: 5 mg/L) groups (CG) and hypoxic stress (96h-LH50) groups (HG) and extracted liver tissues for high-throughput transcriptome and metabolome sequencing. A total of 581 differentially expressed (DE) genes and 1250 DE metabolites were detected between CG and HG, and were annotated using tools at the KEGG database. We verified the transcript levels of eight DE genes by quantitative real-time PCR.</span></p> <p><span><b>Conclusions: </b>Analyses of essential glycolipid metabolism pathways of GIFT under hypoxia stress showed that, after 96 h of hypoxia stress, lipid metabolism became the primary metabolic pathway in GIFT. Our findings reveal the changes in metabolites and gene expression that occur under hypoxia stress, and shed light on the regulatory pathways that function under such conditions. Ultimately, this information will be useful to devise strategies to decrease the damage caused by hypoxia stress in farmed fish.</span></p>
Dataset - Calorie restriction improves metabolic state independently of gut microbiome composition
<p>This dataset contains the supplementary information for the paper: <em>Calorie restriction improves metabolic state independently of gut microbiome composition</em>.</p>
Strategies in herbivory by mammals revisited: The role of liver metabolism in a juniper specialist ( Neotoma stephensi ) and a generalist ( Neotoma albigula )
Although herbivory is widespread among mammals, few species have adopted a strategy of dietary specialization. Feeding on a single plant species often exposes herbivores to high doses of similar plant secondary metabolites (PSMs), which may exceed the animal's detoxification capacities. Therefore, theory predicts that specialists will have unique detoxification mechanisms to process high levels of dietary toxins. To evaluate this hypothesis, we compared liver metabolism of a juniper specialist, Neotoma stephensi (diet >85% juniper), to that of a sympatric generalist, N. albigula (diet ≤30% juniper). Specifically, we quantified the content of a key detoxification enzyme, cytochrome P450 2B (CYP2B) in liver microsomes, as well as the microsomal turnover of α-pinene, the most abundant terpene in the juniper species consumed by the specialist woodrat. In both Neotoma species, a 30% juniper diet increased CYP2B content (2-3x) and α-pinene turnover rates (4-fold). In N. stephensi, higher levels of dietary juniper (60% and 100%) further induced CYP2B content and increased turnover rates of α-pinene. Although no species-specific differences in α-pinene turnover rates were observed at 30% dietary juniper, CYP2B content was 1.7x higher in N. stephensi than in N. albigula (p<0.01). In N. stephensi, the rates of α-pinene turnover increased with dietary juniper and were positively correlated with CYP2B content. The ability of N. stephensi to elevate CYP2B content and rate of α-pinene turnover with increasing levels of juniper in the diet (from 30-100%) may facilitate juniper specialization in this species.
Data from: Are acute and acclimated thermal effects on metabolic rate modulated by cell size? A comparison between diploid and triploid zebrafish larvae
Being composed of small cells may carry energetic costs related to maintaining ionic gradients across cell membranes as well as benefits related to diffusive oxygen uptake. Here we test the hypothesis that these costs and benefits of cell size in ectotherms are temperature dependent. To study the consequences of cell size for whole-organism metabolic rate we compared diploid and triploid zebrafish larvae differing in cell size. A fully factorial design was applied combining three different rearing and test temperatures that allowed us to distinguish acute from acclimated thermal effects. Individual oxygen consumption rates of diploid and triploid larvae across declining levels of oxygen availability were measured. We found that both acute and acclimated thermal effects affected the metabolic response. In comparison to triploids, diploids responded more strongly to acute temperatures, especially when reared at the highest temperature. These observations support the hypothesis that animals composed of smaller cells (i.e. diploids) are less vulnerable to oxygen limitation in warm aquatic habitats. Furthermore, we found slightly improved hypoxia tolerance in diploids. By contrast, warm-reared triploids had higher metabolic rates when they were tested at acute cold temperature, suggesting that being composed of larger cells may provide metabolic advantages in the cold. We offer two mechanisms as a potential explanation of this result, related to homeoviscous adaptation of membrane function and the mitigation of developmental noise. Our results suggest that being composed of larger cells provides metabolic advantages in cold water, while being composed of smaller cells provides metabolic advantages in warm water.
Dataset related to article "Evaluation of cell metabolic adaptation in wound and tumour by fluorescence Lifetime imaging Microscopy"
<p>This record contains data related to article "Evaluation of cell metabolic adaptation in wound and tumour by fluorescence Lifetime imaging Microscopy"</p> <p>Abstract</p> <p>Acidic pH occurs in acute wounds progressing to healing as consequence of a cell metabolic adaptation in response to injury-induced tissue hypoperfusion. In tumours, high metabolic rate leads to acidosis affecting cancer progression. Acidic pH affects activities of remodelling cells in vitro. The pH measurement predicts healing in pathological wounds and success of surgical treatment of burns and chronic ulcers. However, current methods are limited to skin surface or based on detection of fluorescence intensity of specific sensitive probes that suffer of microenvironment factors. Herein, we ascertained relevance in vivo of cell metabolic adaptation in skin repair by interfering with anaerobic glycolysis. Moreover, a custom-designed skin imaging chamber, 2-Photon microscopy (2PM), fluorescence lifetime imaging (FLIM) and data mapping analyses were used to correlate maps of glycolytic activity in vivo as measurement of NADH intrinsic lifetime with areas of hypoxia and acidification in models of skin injury and cancer. The method was challenged by measuring the NADH profile by interfering with anaerobic glycolysis and oxidative phosphorylation in the mitochondrial respiratory chain. Therefore, intravital NADH FLIM represents a tool for investigating cell metabolic adaptation occurring in wounds, as well as the relationship between cell metabolism and cancer.</p>
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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.