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65 results for “Size regulation”
Stacks of microCT Scans, Cell size, weight, volume and thallus size data supporting the paper 'Mechanical regulation of tissue flatness in Marchantia'
<div> <div> <div> <p>These data are the supporting elements to the following paper: 'Mechanical regulation of tissue flatness in Marchantia'</p> </div> </div> </div> <p> .tif files contain MicroCT (MCT) scans of 16-day-old <em>Marchantia polymorpha</em> thalli. Three genotypes were analysed here: <strong><em>fer-2</em></strong> mutant (from Mecchia et al., 2022), <strong>FER-OE #9</strong> (proMpEF1::MpFERONIA-mCitrine trangenic line 9)<strong> </strong>from Mecchia et al., 2022), and Tak-1 (WT line). These plants were grown in 3 different media: Gamborgh B5 + vitamins and 0.6, 1.2 and 2.5% agar, and one stress condition consisting of the adjunction of a thin PDMS film at 4, to mimich external mechanical stimulus (only performed on thalli grown on 1.2% agar).</p> <p>MicroCT scans were performed at the faculity of odontology of Université Paris-Cité (Plateform imagerie du vivant) with the technical support of Lotfi Slimani and Baptiste Casel. https://piv.u-paris.fr/micro-ct-haute-resolution/ </p> <p>All files already have embeded scales.</p> <p>Each file name consists of a unique ID number in the following form:</p> <p>P+<LETTER>+<NUMBER>-<CONDITION></p> <p>-LETTER: One letter = one imaging session</p> <p>-NUMBER: Individual and Genotype: 33-40 -> Tak1; 200-207-><em>fer-2</em>; 41-49 -> FER-OE</p> <p>-CONDITION : AGAR0.6/AGAR2.5/PDMS. Absence of condition indicates growth on standard medium (1.2% agar). PDMS indicated growth on standard medium and supplementation of a topping PDMS film at day 4)</p> <p> </p> <p>-Volume data were calculated from MicroCT scans</p> <p>-thallus projected surfaces were calculated from MicroCT scans</p> <p><a href="https://zenodo.org/api/records/13981438/draft/files/Lambda%20curvature%20calculation.ipynb/content" target="_blank" rel="noopener noreferrer">-Lambda curvature calculation.ipynb</a> is suited for MorphographX mesh exported .txt files.</p> <p> </p> <p> </p> <p> </p>
Large effect loci mediate rapid adaptation of salmon body size after river regulation
<p>Understanding the potential of natural populations to adapt to altered environments is becoming increasingly relevant in evolutionary research. Currently, our understanding of adaptation to human alteration of the environment is hampered by lack of knowledge on the genetic basis of traits, lack of time series, and little or no information on changes in optimal trait values. Here we used time series data spanning nearly a century to investigate how body mass of Atlantic salmon (<em>Salmo salar</em>) adapts to river regulation. We found that the change in body mass followed the change in waterflow, both decreasing to ~1/3 of their original values. Allele frequency changes at two loci in the regions of <em>vgll3</em> and <em>six6 </em>predicted more than 80% of the observed body mass reduction. Modelling the adaptive dynamics revealed that the population mean lagged behind its optimum before catching up ~6 salmon generations after the initial waterflow reduction. Our results demonstrate rapid adaptation mediated by large effect loci and provide insight into the temporal dynamics of evolutionary rescue following human disturbance.</p>
A real-time feedback system stabilises the regulation of worker reproduction under various colony sizes
<p>Based on individual trait expression, an agent-based simulation was used to identify an explicit mechanism for understanding colony size dependent behaviour. This is the code for and data from the agent-based simulation</p>
Data from: The fat body cortical actin network regulates Drosophila inter-organ nutrient trafficking, signaling, and adipocyte cell size
<p>Defective nutrient storage and adipocyte enlargement (hypertrophy) are emerging features of metabolic syndrome and type 2 diabetes. How the cytoskeletal network contributes to nutrient uptake, fat storage, and adipocyte size remains poorly understood. Utilizing the <em>Drosophila</em> larval fat body (FB) as a model adipose tissue, we show that a specific actin isoform—Act5C—forms the cortical actin network necessary for inter-organ lipid trafficking. Act5C also promotes FB tissue expansion during larval development so larvae can store sufficient biomass for metamorphosis. We find FB-specific loss of Act5C, but not other <em>Drosophila</em> actins, perturbs FB triglyceride (TG) storage in lipid droplets (LDs), resulting in developmentally delayed larvae that fail to develop into flies. Act5C localizes to the FB cell surface where it intimately contacts peripheral LDs (pLDs), forming a cortical actin network together with spectrins for cell architectural support. While both the cortical actin and spectrin cytoskeletons maintain FB cell surface architecture, we find that only the actin network is required for fat storage. Mechanistically, we show that FBs lacking the Act5C cortical cytoskeleton exhibit a block in lipoprotein (Lpp) secretion from FB cells, and a subsequent disruption of gut:FB inter-organ lipid transport, resulting in mid-gut fat accumulation. Utilizing temporal RNAi-depletion approaches, we also reveal that Act5C is indispensable post-embryogenesis during larval feeding to promote FB cell expansion. Act5C-deficient FBs fail to expand cell sizes, leading to lipodystrophic larvae unable to accrue sufficient biomass for metamorphosis. Collectively, we propose that the Act5C-mediated cortical actin network of <em>Drosophila</em> adipose tissue plays an essential role in post-embryonic inter-organ nutrient transport and FB cell size determination for organismal energy homeostasis and development.</p>
Data from: The fat body cortical actin network regulates Drosophila inter-organ nutrient trafficking, signaling, and adipocyte cell size
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Data from: Territory size decreases minimally with increasing food abundance in stream salmonids: implications for population regulation
How the local density of territorial animals responds to changes in food abundance will depend on the flexibility of territory size. Quantitative estimates of territory size over a broad range of food abundance are relatively rare because of the difficulty of measuring food abundance in the wild. Stream salmonids are an ideal model system for investigating flexibility in territory size, because food abundance can be quantified in the field and manipulated in the laboratory. We conducted a meta-analysis to test whether territory size decreases with increasing food abundance, and a mixed model analysis to test among three competing predictions: with increasing food abundance, territory size will be (1) fixed – the slope of a regression of log territory size vs. log food abundance = 0; (2) flexible and decreasing, as if individuals are defending a fixed amount of food – a slope = -1; and (3) initially compressible, but with an asymptotic minimum size – a slope between 0 and -1. We collected data from 16 studies that manipulated or measured food abundance while monitoring changes in territory size of young-of-the-year salmonids; 10 were experimental laboratory studies, whereas six were observational field studies. Overall, territory size decreased significantly with increasing food abundance; the weighted average correlation coefficient was -0.31. However, the estimated slope of the relationship between log territory size and log food abundance was only -0.23, significantly different from 0, but also significantly shallower than -1. Our estimated slope suggests that attempts to increase the density of territorial salmonids by increasing food abundance and reducing territory size will be inefficient; a 20-fold increase in food abundance would be required to double population density. Our analysis may also have implications for other species with a territorial mosaic social system – i.e. contiguous territories. In these social systems, social inertia will dampen any effects of changes in food abundance on the local density of settlers, compared to non-territorial species or those with non-contiguous territories.
Data Analysis for: Coupling Cell Size Regulation and Proliferation Dynamics for C. glutamicum Reveals Cell Division Based on Surface Area
<div>Data and methods of Data Analysis of: Coupling Cell Size Regulation and Proliferation Dynamics of</div> <div>C. glutamicum Reveals Cell Division Based on Surface Area</div> <div> </div> <div>Authors: Cesar Nieto and Zahra Vahdat at University of Delaware (2023)</div> <div>Correspondence: cnieto@udel.edu.</div> <div> </div> <div> </div>
Data from: Territory size decreases minimally with increasing food abundance in stream salmonids: implications for population regulation
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Data from: Seed size regulates plant dispersal distances in flowing water
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Data from: Stage-specific plasticity in ovary size is regulated by insulin/insulin-like growth factor and ecdysone signalling in Drosophila
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Data from: Interference versus exploitative competition in the regulation of size-structured populations
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Plasma amino acids regulate pancreatic acinar cell proliferation and size via mTORC1 and YAP/TAZ signaling pathways
GEO Series GSE243695. Mus musculus. 9 samples. Type: Expression profiling by high throughput sequencing.
The tumor suppressor PTEN regulates negatively Sertoli cell proliferation, testis size and sperm production in vivo
GEO Series GSE123119. Mus musculus. 2 samples. Type: Expression profiling by high throughput sequencing.
Dot6 is a major regulator of cell size and a transcriptional activator of ribosome biogenesis in the opportunistic yeast Candida albicans
GEO Series GSE119089. Candida albicans. 3 samples. Type: Expression profiling by array.
TGF-beta Sma/Mab signaling regulates a set of genes in oocytes associated with reproductive aging and another set in L4 associated with body size growth
GEO Series GSE23509. Caenorhabditis elegans. 17 samples. Type: Expression profiling by array.
Differential regulation of meristem size, morphology and organization by the ERECTA, CLAVATA and class III HD-ZIP pathways
GEO Series GSE79839. Arabidopsis thaliana. 10 samples. Type: Expression profiling by high throughput sequencing.
A human tissue screen identifies a regulator of ER secretion as a brain size determinant [RNA-Seq]
GEO Series GSE151379. Homo sapiens. 40 samples. Type: Expression profiling by high throughput sequencing.
Pod size regulator in soybean (Glycine max L. Merr.): heat shock protein 70 is associated with duration of cell proliferation in early pod development
GEO Series GSE136772. Glycine max. 2 samples. Type: Expression profiling by array.
Identification of lens-regulated genes driving anterior eye development and eye size.
GEO Series GSE284063. Gallus gallus. 10 samples. Type: Expression profiling by high throughput sequencing.
Cell size regulates human endoderm specification through actomyosin-dependent AMOT-YAP signaling
GEO Series GSE232608. Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.
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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.