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470 results for “lifespan”
Data from: Mother of all bonds: influences on spatial association across the lifespan in capuchins
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A genome-wide test for paternal indirect genetic effects on lifespan in Drosophila melanogaster
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Data from: Caloric restriction-mediated reproductive lifespan extension across multiple strains of the clonal aquatic plant <em>Lemna turionifera</em>
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SBC LTER: REEF: Frond Lifespans of the giant kelp Macrocystis pyrifera
These data describe the demography of 109 cohorts of giant kelp fronds on 194 tagged plants (1007 total fronds surveyed). Cohorts of fronds on tagged plants were followed monthly in three kelp forests near Santa Barbara, CA from April 2002 to June 2005. These data are useful for determining frond birth rates, death rates, lifespan and age structure.
Data from: Distinct genomic signals of lifespan and life history evolution in response to postponed reproduction and larval diet in Drosophila
Reproduction and diet are two major factors controlling the physiology of aging and life history, but how they interact to affect the evolution of longevity is unknown. Moreover, while studies of large-effect mutants suggest an important role of nutrient sensing pathways in regulating aging, the genetic basis of evolutionary changes in lifespan remains poorly understood. To address these questions, we analyzed the genomes of experimentally evolved Drosophila melanogaster populations subjected to a factorial combination of two selection regimes: reproductive age (early versus postponed), and diet during the larval stage ('low', 'control', 'high'), resulting in six treatment combinations with four replicate populations each. Selection on reproductive age consistently affected lifespan, with flies from the postponed reproduction regime having evolved a longer lifespan. In contrast, larval diet affected lifespan only in early-reproducing populations: flies adapted to the 'low' diet lived longer than those adapted to control diet. Here we find genomic evidence for strong independent evolutionary responses to either selection regime, as well as loci that diverged in response to both regimes, thus representing genomic interactions between the two. Overall, we find that the genomic basis of longevity is largely independent of dietary adaptation. Differentiated loci were not enriched for 'canonical' longevity genes, suggesting that naturally occurring genic targets of selection for longevity differ qualitatively from variants found in mutant screens. Comparing our candidate loci to those from other 'evolve-and-resequence' studies of longevity demonstrated significant overlap among independent experiments. This suggests that the evolution of longevity, despite its presumed complex and polygenic nature, might be to some extent convergent and predictable.
Lifespan Data for: Genetic dissection of nutrition-induced plasticity in insulin/insulin-like growth factor signaling and median lifespan in a Drosophila multiparent population
<p>Daily mortality records. Columns are:</p> <p>setDate: date vial was set up</p> <p>flipDate: date flies moved to new food and mortality recorded</p> <p>Age: age in days of flies (from set up date)</p> <p>RIL: DSPR recombinant inbred line ID</p> <p>rilid: alternate id</p> <p>replicate: replicate id</p> <p>riltreat: unique RIL, treatment identifier</p> <p>Dead: # dead</p> <p>Censored: # escaped or inadvertently killed individuals </p> <p>Carried: # dead flies inadvertently moved to fresh food</p>
The evolution of lifespan and ageing in response to dietary macronutrients in male and female decorated crickets
<p>Dietary macronutrients regulate lifespan and ageing, yet little is known about their evolutionary effects. Here, we examine the evolutionary response of these traits in decorated crickets (<em>Gryllodes sigillatus</em>) maintained on diets varying in caloric content and protein-to-carbohydrate ratio. After 37 generations, each population was split: half remained on the evolution diet and half switched to a standardized diet. Crickets lived longer and aged slower when evolving on high-calorie (both sexes) and carbohydrate-biased (females only) diets and had lower baseline mortality on high-calorie (females only) diets. However, on the standardized diet, crickets lived longer when evolving on high-calorie diets (both sexes), aged slower on high-calorie (females only) and carbohydrate-biased (both sexes) diets, and had lower baseline mortality on high-calorie (males only) and protein-biased (both sexes) diets. Lifespan was longer and baseline mortality lower when provided the evolution versus the standardized diet but ageing rate was comparable. Moreover, lifespan was longer, ageing slower (females only) and baseline mortality lower (males only) compared to our evolved baseline suggesting varying degrees of dietary adaptation. Collectively, we show dietary components influence the evolution of lifespan and ageing in different ways and highlight the value of combining experimental evolution with nutritional geometry.</p>
Data From: Dietary restriction extends lifespan across different temperatures in the fly
<p>Dietary restriction (DR) has been consistently shown to extend lifespan across a range of taxa. However, recent findings question the universality of the DR longevity response, suggesting DR may not extend lifespan at lower temperatures in flies, and that the DR longevity response is an artifact of benign laboratory conditions. </p> <p>We re-test this hypothesis, measuring the lifespan of Drosophila melanogaster at the lab-standard 25°C, and at colder temperatures (18°C and 21°C) across a range of 5 diets. </p> <p>We found the DR longevity response to be robust, extending lifespan irrespective of temperature. Fecundity was measured as a positive control for the DR phenotype, and it was found that DR reduced egg laying.</p> <p>We suggest results that question DR as a phenotype should not be overinterpreted readily, as variations in the experimental setup, genetic lines used, and diet-lifespan reaction norm may be responsible for discrepancies. Additionally, starting conditions that show a lifespan extension by DR and then changing the environment and/or genotype promises a more robust test of DR modulating factors.</p>
Data from: Maternal age effects on offspring lifespan and reproduction vary within a species
<p>Across diverse taxa, offspring from older mothers have decreased lifespan and fitness. Little is known about the extent to which maternal age effects vary among genotypes for a given species, however, except for studies of a few arthropod species. To investigate the presence and degree of intraspecific variability in maternal age effects, we compared lifespan, reproductive schedule, and lifetime reproductive output of offspring produced by young, middle-aged, and old mothers in four strains of rotifers in the <em>Brachionus plicatilis </em>species complex. We found significant variability among strains in the magnitude and direction of maternal age effects on offspring life history traits. In one strain, offspring of young mothers lived 20% longer than offspring of old mothers, whereas there were no significant effects of maternal age on lifespan for other strains. Depending on strain, advanced maternal age had positive effects, negative effects, or no effect on lifetime reproductive output. Across strains, older mothers produced offspring that had higher maximum daily reproduction early in life. Effects of maternal age on offspring vital rates could not be explained by changes in trade-offs between lifespan and reproduction. This study documents intraspecific variability in maternal age effects in an additional clade. Investigating intraspecific variability is critical for understanding the ubiquity of maternal age effects and their role in the evolution of life history and aging.</p>
Intralocus sexual conflict over optimal nutrient intake and the evolution of sex differences in lifespan and reproduction
<p>Despite widespread variation in lifespan across species, three clear patterns exist: sex differences in lifespan are ubiquitous, lifespan is commonly traded against reproduction, and nutrition has a major influence on these traits and how they trade-off. One process that potentially unites these patterns is Intralocus Sexual Conflict (IASC) over the optimal intake of nutrients for lifespan and reproduction. If nutrient intake has sex-specific effects on lifespan and reproduction and nutrient choice is genetically linked across the sexes, IASC will occur and may prevent one or both sexes from feeding to their nutritional optima. Here we determine whether this process is operating in the cricket <i>Gryllodes sigillatus</i>. We show that protein and carbohydrate intake have contrasting effects on lifespan and reproduction in the sexes and that there are strong positive intersexual genetic correlations for the intake of these nutrients under dietary choice. This divergence in nutrient effects, combined with the genetic architecture for nutrient choice is predicted to accelerate the evolutionary response of nutrient intake in males but constrain it in females, suggesting they are losing the conflict. Supporting this view, males and females were shown to regulate nutrient intake to a common ratio that was not perfectly optimal for lifespan or reproduction in either sex, especially in females. Our findings show that IASC over the optimal intake of nutrients is likely to be an important process generating sex differences in lifespan and reproduction and may help explain why females age faster and live shorter than males in <i>G. sigillatus</i>.</p>
Annotated images from yeast cell lifespans - Testset- DetecDiv (id01)
<p>This dataset has been generated by manual annotation from timelapse images of yeast cells dividing using the DetecDiv software (see below).</p> <p>It contains ~ 35 000 images from 50 cell lifespans (each lifespan is made of between 700 and 1000 images). Each image is classified between 6 classes: "1. unbudded", "2. small", "3. large", "4. dead", "5. empty", "6. clog", according to the subfolder of the image.</p> <p>Besides, this folder also contains a .mat file containing 50 timeseries of classes corresponding to the lifespan of the 250 cells.</p> <p>It is related to the trained network <a href="https://doi.org/10.5281/zenodo.5553862">doi.org/10.5281/zenodo.5553862</a> from the software DetecDiv: <a href="https://github.com/gcharvin/DetecDiv">github.com/gcharvin/DetecDiv</a></p> <p><a href="https://biorxiv.org/content/10.1101/2021.10.05.463175v1">biorxiv.org/content/10.1101/2021.10.05.463175v1</a></p> <p> </p> <p><strong>Data type</strong>: 3D microscopy images (3 stacks brightfield) (.tif) + annotation (.mat)</p> <p><strong>Microscopy data type</strong>: Brightfield images with 3 stacks</p> <p><strong>Imaging</strong>: 20x 0.45 NA brightfield, 6.5µm*6.5µm sCMOS</p> <p><strong>Cell type</strong>: Budding yeast wild type cell (BY4742)</p> <p><strong>File format</strong>: .tif (16-bit RGB, 1 color per z-stack) + .mat</p> <p><strong>Image size</strong>: 60x60x1 (Pixel size: x,y: 325 nm, 3*z: 3*1325 nm)</p> <p> </p> <p><strong>Author(s)</strong>: Théo, ASPERT</p> <p><strong>Contact email</strong>: theo.aspert@gmail.com</p> <p><strong>Affiliation</strong>: IGBMC, Université de Strasbourg</p> <p><strong>Funding bodies</strong>: This work was supported by the Agence Nationale pour la Recherche, the grant ANR-10-LABX-0030-INRT, a French State fund managed by the Agence Nationale de la Recherche under the frame program Investissements d'Avenir ANR-10-IDEX-0002-02.</p>
Annotated timeseries from yeast cell lifespans - Training and Test sets - DetecDiv (id03)
<p>This dataset represents timeseries lables of cell divisions, to train & test a classifier to detect cell-cycle slowdown.<br> It has been generated by manual annotation from yeast cells lifespans using the DetecDiv software (see below).</p> <p>It is made of 1 file containing :</p> <ul> <li>Groundtruth Input data (Xdata): 250 timeseries of classes "1. unbudded", "2. small", "3. large", "4. dead", "5. empty", "6. clog" which are outputs from the <a href="https://doi.org/10.5281/zenodo.5553862">doi.org/10.5281/zenodo.5553862</a> network</li> <li>Groundtruth outputdata (Ydata): 250 timeseries of classes "1. pre-slowdown", "2. post-slowdown", which have been annotated manually.</li> </ul> <p>The indexes from the Xdata correspond to that of the Ydata. Timeseries from 1->200 were used as training while 201->250 were used as validation.</p> <p>It is related to the trained network <a href="https://https://doi.org/10.5281/zenodo.5553829">doi.org/10.5281/zenodo.5553829</a> from the software DetecDiv: <a href="https://github.com/gcharvin/DetecDiv">github.com/gcharvin/DetecDiv</a></p> <p><a href="http://biorxiv.org/content/10.1101/2021.10.05.463175v1">biorxiv.org/content/10.1101/2021.10.05.463175v1</a></p> <p> </p> <p><strong>Data type</strong>: Vector timeseries (.mat) (250xF with F the number of frames, between 700 and 1000).</p> <p><strong>File format</strong>: .mat</p> <p><strong>Author(s)</strong>: Théo, ASPERT</p> <p><strong>Contact email</strong>: theo.aspert@gmail.com</p> <p><strong>Affiliation</strong>: IGBMC, Université de Strasbourg</p> <p><strong>Funding bodies</strong>: This work was supported by the Agence Nationale pour la Recherche, the grant ANR-10-LABX-0030-INRT, a French State fund managed by the Agence Nationale de la Recherche under the frame program Investissements d'Avenir ANR-10-IDEX-0002-02.</p> <p> </p>
Genetic diversity and lifespan of transplanted colonies
<p>Selection may favour traits throughout an individuals lifetime or at a particular life stage. In many species of social insects, established colonies that are more genetically diverse outperform less diverse colonies with respect to a variety of traits that contribute to fitness, but whether selection favours high diversity in small colonies is unknown. We tested the hypothesis that selection favours genetically diverse colonies during the juvenile period using a multi-year field experiment with the harvester ant, <em>Pogonomyrmex occidentalis</em>. We used controlled matings to generate colonies that varied in genetic diversity and transplanted them into the field. We monitored their survival for seven (the 2015 cohort, <em>N</em> = 149) and six (the 2016 cohort, <em>N</em> = 157) years. Genetically more diverse colonies had greater survival, resulting in significant viability selection. However, in both cohorts survival was not influenced by genetic diversity until colonies were three years old. We suggest that changes in their internal organization enabled colonies to use the benefits of multiple genotypes, and discuss possible mechanisms that can generate this pattern.</p> <p>The accompanying data give the number of patrilines, the date of transplant and the number of years that the colony survived. </p>
Life history data for: High investment into reproduction is associated with reduced lifespan in dogs
<p><span>Prominent differences in aging among and within species present an evolutionary puzzle. The theories proposed to explain evolutionary differences in aging are based on the axiom that selection maximizes fitness, not necessarily lifespan. This implies trade-offs between investment into self-maintenance and investment into reproduction, where high investment into growth and current reproduction are associated with short lifespans. Fast growth and large adult size are related with shorter lifespans in the domestic dog, a bourgeoning model in aging research, however, whether reproduction influences lifespan in this system remains unknown. Here we test the relationship between reproduction and differences in lifespan among dog breeds, controlling simultaneously for shared ancestry and recent gene flow. We found that shared ancestry explains a higher proportion of the among-breed variation in life history traits, in comparison with recent gene flow. Our results also show that reproductive investment negatively impacts lifespan, and more strongly so in large breeds, an effect that is not merely a correlated response of adult size. These results suggest that basic life history trade-offs are apparent in a domestic animal whose diversity is the result of artificial selection and that among-breed differences in lifespan are due to a combination of size and reproduction.</span></p>
Raw data from: Natural alleles at the Doa locus underpin evolutionary changes in Drosophila lifespan and fecundity
<p>Evolve and resequence' (E&R) studies in <em>Drosophila melanogaster</em> have identified many candidate loci underlying the evolution of ageing and life history, but experiments that validate the effects of such candidates remain rare. In a recent E&R study we have identified several alleles of the LAMMER kinase <em>Darkener of apricot</em> (<em>Doa</em>) as candidates for evolutionary changes in lifespan and fecundity. Here, we use two complementary approaches to confirm the functional role of <em>Doa</em> in life-history evolution. First, we used transgenic RNAi to study the effects of<em> Doa</em> at the whole-gene level. Ubiquitous silencing of expression in adult flies reduced both lifespan and fecundity, indicating pleiotropic effects. Second, to characterize segregating variation at <em>Doa</em>, we examined four candidate single nucleotide polymorphisms (SNPs;<em> Doa-1, -2, -3, -4</em>) using a genetic association approach. Three candidate SNPs had effects that were qualitatively consistent with expectations based on our E&R study: <em>Doa</em>-2 pleiotropically affected both lifespan and late-life fecundity; <em>Doa</em>-1 affected lifespan (but not fecundity), and <em>Doa</em>-4 affected late-life fecundity (but not lifespan). Finally, the last candidate allele (<em>Doa</em>-3) also affected lifespan, but in the opposite direction than predicted.</p>
Data from: Differential effects of early life adversity on male and female rhesus macaque lifespan
<p>Early life adversity predicts shorter adult lifespan in several animal taxa. Yet, work on long-lived primate populations suggests the evolution of mechanisms that contribute to resiliency and long lives despite early life insults. Here, we tested associations between individual and cumulative early life adversity and lifespan on rhesus macaques at the Cayo Santiago Biological Field Station using 50 years of demographic data. We performed sex-specific survival analyses at different life stages to contrast short-term effects of adversity (i.e., infant survival) with long-term effects (i.e., adult survival). Female infants showed vulnerability to multiple adversities at birth, but affected females who survived to adulthood experienced a reduced risk later in life. In contrast, male infants showed vulnerability to a lower number of adversities at birth, but those who survived to adulthood were negatively affected by both early life individual and cumulative adversity. Our study shows profound immediate effects of insults at birth on female infant cohorts and suggests that affected female adults are more robust. In contrast, adult males who experienced harsh conditions early in life showed an increased mortality risk at older ages as expected from hypotheses within the life course perspective. Our analysis suggests sex-specific selection pressures on life histories and highlights the need for studies addressing the effects of early life adversity across multiple life stages.</p>
Lifespan and fecundity data for: The evolutionary potential of diet-dependent effects on lifespan and fecundity in a multi-parental population of Drosophila melanogaster
<p>This repository contains 3 original data files for a study of heritability in a half-sibling design of outbred multi-parent population of Drosophila melanogaster treated with 3 nutritional conditions.</p> <p> </p> <p>1) lifespan_only.xlsx contains lifespan records.</p> <p>Columns:</p> <p>setDate, start date</p> <p>flipDate, observation date</p> <p>days, age</p> <p>fID, identity of line</p> <p>repl, replicate number</p> <p>treat, diet treatment (HS=high sugar, STD=standard, LY=low yeast)</p> <p>NstartF, starting number of females</p> <p>NstartM, starting number of males</p> <p>box, ccord, rcoord are position coordinates of a vial in a holding box</p> <p>deadF, number of female dead</p> <p>deadM, number of males dead</p> <p>cens, censored events</p> <p>carriedF, dead females that flip to a new food vial</p> <p>carriedM, dead males that flip to a new food vial</p> <p>flipper initials of observer</p> <p>time, time in which 108 vials were flipped.</p> <p> </p> <p>2) feclife_with-image-ids.xlsx - lifespan observation vials are matched with a specific image of eggs collected at a specific day (once a week).</p> <p>Columns:</p> <p>cameraid, image id assigned by the camera</p> <p>handcounted, images counted by hand</p> <p>handcount, number of eggs on an image counted by hand</p> <p>training_set, images that were used to develop and test a prediction model</p> <p>drop_from_lifespan & visually_recheck, quality control.</p> <p> </p> <p>3) egg_images.tgz - all original images. Each image represent fecundity from a single vial at a specific date (in feclife_with-image-ids.xlsx ). The images have been cropped to remove the excess area outside the egg disc. The area outside the circular disc has been converted to black to peripheral eliminate noise.</p>
Oregon-R-modENCODE(#25211) wild-type fruit fly (D.melanogaster) lifespan under standard maintenance conditions
<p><span>Aging is a phenomenon that manifests itself as permanent physiological deterioration, resulting in changes like reduction of immune function and fitness-related forms of behavior. Studies on changes in lifespan in response to various environmental alterations can bring knowledge of the mechanisms driving them. To properly conduct these studies, data on lifespan under the standard husbandry conditions are required.</span></p>
A high-precision method of segmenting complex postures in C. elegans and deep phenotyping to analyze lifespan
<p>The data for our paper, "A high-precision method of segmenting complex postures in <em>C. elegans</em> and deep phenotyping to analyze lifespan", includes the following three components:</p> <ol> <li>Synthetic image dataset, CSB-1 dataset, and MD dataset, which originate from the paper <em>"WormSwin: Instance segmentation of C. elegans using Vision Transformer"</em>.</li> <li>BBC010 dataset, sourced from the paper <em>"Annotated high-throughput microscopy image sets for validation".</em></li> <li>Training weights for the Synthetic image dataset, CSB-1 dataset, MD dataset, and BBC010 dataset, as well as the pretrained weights used for worm tracking. The training weights from the synthetic image dataset can serve as pretrained weights for training on other datasets.</li> </ol> <p>Our experimental results are based on the average of multiple training runs; here, we have only uploaded one set of weights per dataset to facilitate reproducibility for readers. For more detailed information on the datasets, please refer to the relevant papers.</p> <p> </p>
Data from: Disturbance history is a key driver of tree lifespan in temperate primary forests
<p>AIMS</p> <p>We examined differences in lifespan among the dominant tree species (spruce (Picea abies (L.) H. Karst.), fir (Abies alba Mill.), beech (Fagus sylvatica L.), and maple (Acer pseudoplatanus L.)) across primary mountain forests of Europe. We ask how disturbance history, lifetime growth patterns, and environmental factors influence lifespan.</p> <p>LOCATIONS</p> <p>Balkan mountains, Carpathian mountains, Dinaric mountains.</p> <p>METHODS</p> <p>Annual ring widths from 20,600 cores from primary forests were used to estimate tree life spans, growth trends, and disturbance history metrics. Mixed models were used to examine species-specific differences in lifespan (i.e. defined as species-specific 90th percentiles of age distributions), and how metrics of radial growth, disturbance parameters, and selected environmental factors influence lifespan.</p> <p>RESULTS</p> <p>While only a few beech trees surpassed 500 years, individuals of all four species were older than 400 years. There were significant differences in lifespan among the four species (beech > fir > spruce > maple), indicating life history differentiation in lifespan. Trees were less likely to reach old age in areas affected by more severe disturbance events, whereas individuals that experienced periods of slow growth and multiple episodes of suppression and release were more likely to reach old age. Aside from a weak but significant negative effect of vegetation season temperature on fir and maple lifespan, no other environmental factors included in the analysis influenced lifespan.</p> <p>CONCLUSIONS</p> <p>Our results indicate species-specific biological differences in lifespan, which may play a role in facilitating tree species coexistence in mixed temperate forests. Finally, natural disturbances regimes were a key driver of lifespan, which could have implications for forest dynamics if regimes shift under global change.</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.