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57 results for “rodent models”
Raw fMRI data from 12 rats used in the manuscript "Mapping of hemodynamic responses to the sensorymotor stimulation in a rodent model: a BOLD fMRI study" submitted to PlosOne for publication
<p>Raw data are from twelve male adult Wistar rats (Charles River Laboratories, Paris-France) weighing 300 ± 20g.</p> <p>Rats were initially anesthetized (induction) with 3% isoflurane and were maintained under 0,7-0.8% (sedation along with a muscle relaxation) during fMRI session. </p> <p>Each rat was submitted to two fMRI sessions: one with TE of 30 ms and and other with TE of 40 ms.</p> <p>For fMRI acquisition, electrodes were inserted subcutaneously in the palmar surface of the right hindpaw of each rat and electrical stimulation (current pulses with a 1.7 mA amplitude, 10 ms duration and 8 Hz frequency) was applied in a block-design starting with a resting period of 25s as a baseline followed by 25s stimulation, repeated 8 times.</p> <p>Ten 1-mm thick contiguous axial slices, from -6.36 mm to +2.64 mm to Bregma, were acquired with a two-shot gradient echo planar imaging (GE EPI) pulse sequence (2.56 cm2 FOV; 64x64 matrix size; a TR of 1000 ms; a flip angle of 50°) resulting in the pixel size of 0.4 mm.</p> <p>All imaging experiments were performed on a 4.7T Bruker (Biospec 47/40, Bruker, GmbH, Ettlingen,Germany) with a horizontal bore magnet equipped with a 12 cm gradient coil (Bruker BGA12, 400 mT/m) and interfaced to AVANCE III console. Two actively decoupled RF coils were used: a 7.2-cm diameter volume coil for transmission and a 2-cm diameter surface coil (Rapid Biomedical, Rimpar, Germany) positioned on the top of the animal's head for reception.</p>
Extravascular administration of IGF1R antagonists protects against aortic aneurysm in rodent and porcine models
<p>Aortic aneurysm is a life-threatening cardiovascular disease with high mortality. Herein, we first identified that plasma IGF1 was an independent risk factor in patients with abdominal aortic aneurysm. The IGF1 receptor was also activated in aneurysmal aortas from humans and mice, and SMC- or fibroblast-specific knockout of IGF1R attenuated AAA formation in mouse models, indicating the potential of IGF1R as a therapeutic target. Systemic administration of IGF1C peptide exerted an evident inhibitory effect on AAA formation and progression via competitive inhibition of IGF1 binding to its receptor and modulation of downstream AKT/mTOR signaling. However, global inhibition of IGF1R signaling induces side effects, including abnormal glucose metabolism, muscular disorder, and pain hypersensitivity observed after systemic administration of IGF1C or the commercialized IGF1R antagonists. Accordingly, local administration of IGF1C was realized via ultrasound-guided percutaneous injection of an IGF1C-loaded hydrogel, and the therapeutic efficacy was confirmed in a pig AAA model, demonstrating its translational potential for AAA therapy.</p>
Neural network models for processing of ultrasound rodents recordings
<p>Neural network models for processing of ultrasound rodents recordings to be used with custom software dedicated to detection and classification of USV.</p>
Extravascular administration of IGF1R antagonists protects against aortic aneurysm in rodent and porcine models
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Data from: Weighing homoplasy against alternative scenarios with the help of macroevolutionary modeling: a case study on limb bones of fossorial sciuromorph rodents
Homoplasy is a strong indicator of a phenotypic trait's adaptive significance when it can be linked to a similar function. We assessed homoplasy in functionally relevant scapular and femoral traits of Marmotini and Xerini, two sciuromorph rodent clades that independently acquired a fossorial lifestyle from an arboreal ancestor. We studied 125 species in the scapular dataset and 123 species in the femoral dataset. Pairwise evolutionary model comparison was used to evaluate whether homoplasy of trait optima is more likely than other plausible scenarios. The most likely trend of trait evolution among all traits was assessed via likelihood scoring of all considered models. The homoplasy hypothesis could never be confirmed as the single most likely model. Regarding likelihood scoring, scapular traits most frequently did not differ among Marmotini, Xerini, and arboreal species. For the majority of femoral traits, results indicate that Marmotini, but not Xerini, evolved away from the ancestral arboreal condition. We conclude on the basis of the scapular results that the forelimbs of fossorial and arboreal sciuromorphs share mostly similar functional demands, whereas the results on the femur indicate that the hind limb morphology is less constraint, perhaps depending on the specific fossorial habitat.
Data from: A priori and a posteriori approaches for finding genes of evolutionary interest in non-model species: osmoregulatory genes in the kidney transcriptome of the desert rodent Dipodomys spectabilis (banner-tailed kangaroo rat)
One common goal in evolutionary biology is the identification of genes underlying adaptive traits of evolutionary interest. Recently next-generation sequencing techniques have greatly facilitated such evolutionary studies in species otherwise depauperate of genomic resources. Kangaroo rats (Dipodomys sp.) serve as exemplars of adaptation in that they inhabit extremely arid environments, yet require no drinking water because of ultra-efficient kidney function and osmoregulation. As a basis for identifying water conservation genes in kangaroo rats, we conducted a priori bioinformatics searches in model rodents (Mus musculus and Rattus norvegicus) to identify candidate genes with known or suspected osmoregulatory function. We then obtained 446,758 reads via 454 pyrosequencing to characterize genes expressed in the kidney of banner-tailed kangaroo rats (Dipodomys spectabilis). We also determined candidates a posteriori by identifying genes that were overexpressed in the kidney. The kangaroo rat sequences revealed nine different a priori candidate genes predicted from our Mus and Rattus searches, as well as 32 a posteriori candidate genes that were overexpressed in kidney. Mutations in two of these genes, Slc12a1 and Slc12a3, cause human renal diseases that result in the inability to concentrate urine. These genes are likely key determinants of physiological water conservation in desert rodents.
Data from: Computational Modeling of Gluteus Medius Muscle Moment Arm in Caviomorph Rodents Reveals Ecomorphological Specializations
<p>The data stored in this repository allow the reproduction of the study described in the following. Vertebrate musculoskeletal locomotion is realized through lever-arm systems. The instantaneous muscle moment arm (IMMA), which is expected to be under selective pressure and thus of interest for ecomorphological studies, is a key aspect of these systems. The IMMA changes with joint motion and its length change is technically difficult to acquire—usually, proxies such as osteological in-levers are used instead—and has not been compared in a larger phylogenetic ecomorphology framework, yet. We used 18 species of the ecologically diverse clade of caviomorph rodents to test whether its diversity is reflected in the IMMA of the hip extensor M. gluteus medius. A large IMMA is beneficial for torque generation; a small IMMA facilitates fast joint excursion. We expected large IMMAs in scansorial species, small IMMAs in fossorial species, and somewhat intermediate IMMAs in cursorial species, depending on the relative importance of acceleration and joint angular velocity. We modelled the IMMA over the entire range of possible hip extensions and applied macroevolutionary model comparison to selected joint poses. We also obtained the osteological in-lever of the M. gluteus medius to compare it to the IMMA. At small hip extension, the IMMA was largest on average in scansorial species, while the other two lifestyles were similar. We interpret this as an emphasized need for increased hip joint torque when climbing on inclines, especially in a crouched posture. Cursorial species might benefit from a fast joint excursion, but their similarity with the fossorial species is difficult to interpret and could hint at ecological similarities. At larger extension angles, cursorial species displayed the second-largest IMMAs after scansorial species. The larger IMMA optimum results in powerful hip extension which coincides with forward acceleration at late stance beneficial for climbing, jumping, and escaping predators. This might be less relevant for a fossorial lifestyle. The results of the in-lever only matched the IMMA results of larger hip extension angles, suggesting that the modelling of the IMMA provides more nuanced insights into adaptations of musculoskeletal lever arm systems than this osteological proxy.</p>
Modelling human neuronal catecholaminergic pigmentation in rodents recapitulates age-related multisystem neurodegenerative deficits
<p>Raw data used to generate the figures in the paper "Modelling human brain-wide pigmentation in rodents recapitulates age-related multisystem neurodegenerative deficits" published as a bioRxiv preprint doi: https://doi.org/10.1101/2023.08.08.552400; v1 posted August 8, 2023; v2 posted August 14, 2024.</p>
Hypoglycemia-induced electrocardiogram changes in a rodent model of type 1 diabetes
<p>Retrospective data was obtained from studies conducted by Reno et al. Adult male Sprague-Dawley rats (weight, 250–300 g; Charles River Laboratories, Malvern, PA) were housed individually in temperature- and light-controlled environments and fed ad libitum a standard chow diet and water. Rats underwent surgery for carotid artery and jugular vein cannulation as previously described. ECG leads were also placed subcutaneously during surgery. One wire was placed over the lower left rib cage and one was placed over the right supraclavicular fossa. A reference wire was placed over the back. Two days after cannulation, one set of rats received intraperitoneal injections of streptozotocin (65 mg/kg; Sigma, St. Louis, MO) to induce diabetes (n = 37). A second group of rats received sodium citrate buffer and acted as a control, non-diabetic group (n = 54). Blood glucose was measured from the tail vein with a glucometer (Ascensia Contour; Bayer HealthCare, Mishawaka, IN) to ensure diabetes. Rats were diabetic for two weeks prior to the hypoglycemic clamp. Overnight fasted, awake, unrestrained non-diabetic and diabetic rats underwent hyperinsulinemic (0.2 units ⋅ kg−1 ⋅ min−1; Humulin R), severe hypoglycemic (10–15 mg/dL) single step clamps with continuous ECGs for 3 hours, as previously described ECGs were recorded every millisecond (ms) using PowerLab 26T software (LabChart; ADInstruments, Colorado Springs, CO). Arterial blood was used to determine glucose levels during the clamp with a glucometer (Ascensia Contour BG monitors; Bayer Healthcare Mishawaka, IN) every 15-minutes.</p> <p> </p> <p>Reno CM, Daphna-Iken D, Chen YS, VanderWeele J, Jethi K, Fisher SJ. Severe hypoglycemia-induced lethal cardiac arrhythmias are mediated by sympathoadrenal activation. Diabetes. 2013;62(10):3570-81.</p> <p> </p> <p>Reno CM, VanderWeele J, Bayles J, Litvin M, Skinner A, Jordan A, et al. Severe Hypoglycemia-Induced Fatal Cardiac Arrhythmias Are Augmented by Diabetes and Attenuated by Recurrent Hypoglycemia. Diabetes. 2017;66(12):3091-7.</p> <p> </p> <p> </p> <p> </p>
Data from: Species distribution models of an endangered rodent offer conflicting measures of habitat quality at multiple scales
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Data from: Four rodent and vole biodiversity models for Europe
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Data from: Computational Modeling of Gluteus Medius Muscle Moment Arm in Caviomorph Rodents Reveals Ecomorphological Specializations
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Data from: Weighing homoplasy against alternative scenarios with the help of macroevolutionary modeling: a case study on limb bones of fossorial sciuromorph rodents
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Data from: A priori and a posteriori approaches for finding genes of evolutionary interest in non-model species: osmoregulatory genes in the kidney transcriptome of the desert rodent Dipodomys spectabilis (banner-tailed kangaroo rat)
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Host-Parasite biogeographic interactions: modelling the distribution of Phyllotis xanthopygus rodents complex and their flea assemblage using the favorability function
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Data from: Sucrose and starch intake contribute to reduced alveolar bone height in a rodent model of naturally occurring periodontitis
While there is a burgeoning interest in the effects of nutrition on systemic inflammatory diseases, how dietary macronutrient balance impacts local chronic inflammatory diseases in the mouth has been largely overlooked. Here, we used the Geometric Framework for Nutrition to test how the amounts of dietary macronutrients and their interactions, as well as carbohydrate type (starch vs sucrose vs resistant starch) influenced periodontitis-associated alveolar bone height in mice. Increasing intake of carbohydrates reduced alveolar bone height, while dietary protein had no effect. Whether carbohydrate came from sugar or starch did not influence the extent of alveolar bone height. In summary, the amount of carbohydrate in the diet modulated periodontitis-associated alveolar bone height independent of the source of carbohydrates.
Data from: Mainland size variation informs predictive models of exceptional insular body size change in rodents
The tendency for island populations of mammalian taxa to diverge in body size from their mainland counterparts consistently in particular directions is both impressive for its regularity and, especially among rodents, troublesome for its exceptions. However, previous studies have largely ignored mainland body size variation, treating size differences of any magnitude as equally noteworthy. Here, we use distributions of mainland population body sizes to identify island populations as 'extremely' big or small, and we compare traits of extreme populations and their islands with those of island populations more typical in body size. We find that although insular rodents vary in the directions of body size change, 'extreme' populations tend towards gigantism. With classification tree methods, we develop a predictive model, which points to resource limitations as major drivers in the few cases of insular dwarfism. Highly successful in classifying our dataset, our model also successfully predicts change in untested cases.
Data from: The fitness of drug-resistant malaria parasites in a rodent model: multiplicity of infection
Malaria infections normally consist of more than one clonally-replicating lineage. Within-host interactions between sensitive and resistant parasites can have profound effects on the evolution of drug resistance. Here, using the Plasmodium chabaudi mouse malaria model, we ask whether the costs and benefits of resistance are affected by the number of co-infecting strains competing with a resistant clone. We found strong competitive suppression of resistant parasites in untreated infections and marked competitive release following treatment. The magnitude of competitive suppression depended on competitor identity. However, there was no overall effect of the diversity of susceptible parasites on the extent of competitive suppression or release. If these findings generalize, then transmission intensity will impact on resistance evolution because of its effect on the frequency of mixed infections, not because of its effect on the distribution of clones per host. This would greatly simplify the computational problems of adequately capturing within-host ecology in models of drug resistance evolution in malaria.
Rodent Model of Non-alcoholic Fatty Liver Disease: A Systematic Review
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Data from: Sucrose and starch intake contribute to reduced alveolar bone height in a rodent model of naturally occurring periodontitis
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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.