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178 results for “great tit”
Data for: Telomere dynamics in relation to experimentally increased locomotion costs and fitness in great tits
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Data from: Age dependent reproductive effort in great tits
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List of known SNP positions (based on SNP chip data) for base quality score recalibration of alignments for whole-genome resequencing and whole-genome bisulfite sequencing data from great tits (Parus major)
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Repeatable differences in exploratory behaviour predict tick infestation probability in wild great tits
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Timing and social dynamics of divorce in wild great tits: A phenomenological approach
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The genomics of adaptation to climate in European great tit (Parus major) populations
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Data from: Dimorphism from an early age: sex differences in size and immune function in great tit nestlings
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Data from: the great tit HapMap project: a continental-scale analysis of genomic variation in a songbird
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Data from: Genomic dissection of variation in clutch size and egg mass in a wild great tit (Parus major) population
Clutch size and egg mass are life history traits that have been extensively studied in wild bird populations, as life history theory predicts a negative trade-off between them, either at the phenotypic or genetic level. Here, we analyse the genomic architecture of these heritable traits in a wild great tit (Parus major) population, using three marker-based approaches - chromosome partitioning, quantitative trait locus (QTL) mapping and a genome-wide association study (GWAS). The variance explained by each great tit chromosome scales with predicted chromosome size, no location in the genome contains genome-wide significant QTL, and no individual SNPs are associated with a large proportion of phenotypic variation, all of which may suggest that variation in both traits is due to many loci of small effect, located across the genome. There is no evidence that any regions of the genome contribute significantly to both traits, which combined with a small, non-significant, negative genetic covariance between the traits, suggests the absence of genetic constraints on the independent evolution of these traits. Our findings support the hypothesis that variation in life history traits in natural populations is likely to be determined by many loci of small effect spread throughout the genome, which are subject to continued input of variation by mutation and migration, although we cannot exclude the possibility of an additional input of major effect genes influencing either trait.
Data from: Mhc-linked survival and lifetime reproductive success in a wild population of great tits
Major histocompatibility complex (Mhc) genes are frequently used as a model for adaptive genetic diversity. Although associations between Mhc and disease resistance are frequently documented, little is known about the fitness consequences of Mhc variation in wild populations. Further, most work to date has involved testing associations between Mhc genotypes and fitness components. However, the functional diversity of the Mhc, and hence the mechanism by which selection on Mhc acts, depends on how genotypes map to the functional properties of Mhc molecules. Here, we test three hypotheses that relate Mhc diversity to fitness: (1) the maximal diversity hypothesis; (2) the optimal diversity hypothesis, and (3) effect of specific Mhc types. We combine mark-recapture methods with analysis of long-term breeding data to investigate the effects of Mhc class I functional diversity (Mhc supertypes) on individual fitness in a wild great tit (Parus major) population. We found that the presence of three different Mhc supertypes was associated with three different components of individual fitness: survival, annual recruitment and lifetime reproductive success (LRS). Great tits possessing Mhc supertype 3 experienced higher survival rates than those that did not, whereas individuals with Mhc supertype 6 experienced higher LRS and were more likely to recruit offspring each year. Conversely, great tits that possessed Mhc supertype 5 had reduced LRS. We found no evidence for a selective advantage of Mhc diversity, either in terms of maximal or optimal supertype diversity. Our results support the suggestion that specific Mhc types are an important determinant of individual fitness.
Data from: Quantitative genetics of a carotenoid-based color: heritability and persistent natal environmental effects in the great tit
The information content of signals, such as animal coloration, depends on the extent to which variation reflects underlying biological processes. Although animal coloration has received considerable attention, little work has addressed the quantitative genetics of colour variation in natural populations. We investigated the quantitative genetics of a carotenoid-based colour patch - the ventral plumage of mature great tits (Parus major) - in a wild population. Carotenoid-based colours are often suggested to reflect environmental variation in carotenoid availability, but numerous mechanisms could also lead to genetic variation in coloration. Analyses of individuals of known origin showed that while plumage chromaticity ('colour') was moderately heritable, there was no significant heritability to achromaticity ('brightness'). We detected multiple long-lasting effects of natal environment, with hatching date and brood size both negatively related to plumage chromaticity at maturity. Our reflectance measures contrasted in their spatiotemporal sensitivity, with plumage chromaticity exhibiting significant spatial variation while achromatic variation exhibited marked annual variation. Hence, colour variation in this species reflects both genetic and environmental influences on different scales. Our analyses demonstrate the context-dependence of components of colour variation and suggest that colour patches may convey multiple aspects of individual state.
Data from: Between- and within-individual variation of maternal thyroid hormone deposition in wild great tits (Parus major)
Maternal hormones are often considered a mediator of anticipatory maternal effects, namely mothers adjust maternal hormone transfer to prepare the offspring for the anticipated environment. The flexibility for mothers to adjust hormone transfer is therefore a prerequisite for such anticipatory maternal effects. Nevertheless, previous studies have only focused on the average differences of maternal hormone transfer between groups and neglected the substantial individual variation, despite that individual plasticity in maternal hormone transfer is actually the central assumption. In this study, we studied the between- and within-individual variation of maternal thyroid hormones (THs) in egg yolk of wild great tits (Parus major) and estimated the individual plasticity of maternal yolk THs across environmental temperature, clutch initiation dates and egg laying order using linear mixed-effects models. Interestingly, our models provide statistical evidence that the two main THs – the main biologically active hormone T3, and T4, which is mostly considered as a prohormone – exhibited different variation patterns. Yolk T3 showed significant between-individual variation on the average levels, in line with its previously reported moderate heritability. Yolk T4, however, showed significant between-clutch variation in the pattern over the laying sequence, suggesting a great within-individual plasticity. Our findings suggest that the role and function of the hormone within the endocrine axis likely influences its flexibility to respond to environmental change. Whether the flexibility of T4 deposition brings fitness advantage should be examined along with its potential effects on offspring, which remains to be further investigated.
Data from: No evidence for MHC class I based disassortative mating in a wild population of great tits
Genes of the major histocompatibility complex (MHC) are regarded as a potentially important target of mate choice due to the fitness benefits that may be conferred to the offspring. According to the complementary genes hypothesis, females mate with MHC dissimilar males to enhance the immunocompetence of their offspring or to avoid inbreeding depression. Here, we investigate whether selection favours a preference for maximally dissimilar or optimally dissimilar MHC class I types, based on MHC genotypes, average amino acid distances and the functional properties of the antigen-binding sites (MHC supertypes); and whether MHC type dissimilarity predicts relatedness between mates in a wild great tit population. In particular, we explore the role that MHC class I plays in female mate choice decisions while controlling for relatedness and spatial population structure, and examine the reproductive fitness consequences of MHC compatibility between mates. We find no evidence for the hypotheses that females select mates on the basis of either maximal or optimal MHC class I dissimilarity. A weak correlation between MHC allele sharing and relatedness, and between MHC supertype sharing and relatedness suggests that MHC dissimilarity at functional variants may not provide an effective index of relatedness. Moreover the reproductive success of pairs did not vary with MHC dissimilarity. Our results provide no support for the suggestion that selection favours, or that mate choice realises, a preference for complimentary MHC types.
Data from: The relationship between plumage colouration, problem-solving and learning performance in great tits Parus major
Recent studies suggest that individuals with better problem-solving and/or learning performance have greater reproductive success, and that individuals may thus benefit from choosing mates based on these performances. However, directly assessing these performances in candidate mates could be difficult. Instead, the use of indirect cues related to problem-solving and/or learning performance, such as condition-dependent phenotypic traits, might be favored. We investigated whether problem-solving and learning performance on a novel non-foraging task correlated with sexually selected plumage colouration in a natural population of great tits Parus major. We found that males successful in solving the task had darker blue-black crowns than non-solvers, and that males solving the task more rapidly over multiple attempts (i.e. learners) exhibited blue-black crowns with higher UV chroma and shorter-wavelength hues than non-learners. In contrast, we found no link between behavioural performance on the task and the yellow breast colouration in either sex. Our findings suggest that blue-black crown colouration could serve as a signal of problem-solving and learning performance in wild great tit males. Further research remains necessary to determine whether different sexually selected traits are used to signal cognitive performance for mate choice, either directly (i.e. cognitive performance influencing individual's health and ornamentation through diet for example) or indirectly (i.e. due to a correlation with a third factor such as individual quality or condition).
Data from: A high density SNP chip for genotyping great tit (Parus major) populations and its application to studying the genetic architecture of exploration behaviour
High density SNP microarrays ('SNP chips') are a rapid, accurate and efficient method for genotyping several hundred thousand polymorphisms in large numbers of individuals. While SNP chips are routinely used in human genetics and in animal and plant breeding, they are less widely used in evolutionary and ecological research. In this paper we describe the development and application of a high density Affymetrix Axiom chip with around 500 000 SNPs, designed to perform genomics studies of great tit (Parus major) populations. We demonstrate that the per-SNP genotype error rate is well below 1% and that the chip can also be used to identify structural or copy number variation (CNVs). The chip is used to explore the genetic architecture of exploration behaviour (EB), a personality trait that has been widely studied in great tits and other species. No SNPs reached genome-wide significance, including at DRD4, a candidate gene. However, EB is heritable and appears to have a polygenic architecture. Researchers developing similar SNP chips may note: (i) SNPs previously typed on alternative platforms are more likely to be converted to working assays, (ii) detecting SNPs by more than one pipeline, and in independent datasets, ensures a high proportion of working assays, (iii) allele frequency ascertainment bias is minimised by performing SNP discovery in individuals from multiple populations and (iv) samples with the lowest call rates tend to also have the greatest genotyping error rates.
Data from: Personality and plasticity in neophobia levels vary with anthropogenic disturbance but not toxic metal exposure in urban great tits: urban disturbance, metal pollution and neophobia
Animal personalities, as defined by repeatable among individual differences in behavior, can vary across urbanization gradients. However, how urbanization affects personalities remains incompletely understood, especially because different urban stressors could affect personality traits in opposing ways, whereas most previous studies have considered only one urban disturbance factor. For instance, novel habitat features could favor reduced neophobia, whereas exposure to pollutants could increase risk sensitivity through neurotoxic or hormonal effects. To address this contingency, we studied object neophobia in four urban populations of great tits (Parus major) that vary in exposure to metal pollution and anthropogenic disturbance, as quantified by proximity to roads and pathways. We measured the return latency of incubating females when flushed from the nest and presented with up to two different novel objects, allowing quantification of behavioral repeatability and plasticity. To separate neophobia from sensitivity to disturbance, we also conducted baseline trials, in which females were flushed but no object was presented. We additionally measured exploration behavior and aggression (hissing) during nest defense, to explore whether suites of behaviors covary with urbanization, and examined whether neophobia affects reproductive success. Sensitivity to disturbance and neophobia were repeatable, and thus represent personality traits. Moreover, females occupying territories near roads and pathways had shorter return latencies during novel object but not baseline trials, suggesting a specific reduction in neophobia in disturbed areas. Plasticity in neophobia also increased with disturbance level. In contrast, metal exposure did not affect neophobia or sensitivity to disturbance, despite negatively correlating with exploration behavior. Neophobia correlated with exploration behavior, but not aggression or reproductive success. Results suggest that shifts in personality types in urbanized areas might involve specific reductions in neophobia, rather than general reductions in sensitivity to disturbance, and unexpectedly indicate no effect of toxic metals on risk sensitivity.
Data from: Haplotype structure, adaptive history and associations with exploratory behaviour of the DRD4 gene region in four great tit (Parus major) populations
The assessment of genetic architecture and selection history in genes for behavioural traits is fundamental to our understanding of how these traits evolve. The dopamine receptor D4 (DRD4) gene is a prime candidate for explaining genetic variation in novelty seeking behaviour, a commonly assayed personality trait in animals. Previously we showed that a single nucleotide polymorphism in exon 3 of this gene is associated with exploratory behaviour in at least one of four Western European great tit (Parus major) populations. These heterogeneous association results were explained by potential variable linkage disequilibrium (LD) patterns between this marker and the causal variant or by other genetic or environmental differences among the populations. Different adaptive histories are further hypothesized to have contributed to these population differences. Here, we genotyped 98 polymorphisms of the complete DRD4 gene including the flanking regions for 595 individuals of the four populations. We show that the LD structure, specifically around the original exon 3 SNP is conserved across the four populations and does not explain the heterogeneous association results. Study-wide significant associations with exploratory behaviour were detected in more than one haplotype block around exon 2, 3 and 4 in two of the four tested populations with different allele effect models. This indicates genetic heterogeneity in the association between multiple DRD4 polymorphisms and exploratory behaviour across populations. The association signals were in or close to regions with signatures of positive selection. We therefore hypothesize that variation in exploratory and other dopamine-related behaviour evolves locally by occasional adaptive shifts in the frequency of underlying genetic variants.
Data from: Dominance rank and boldness predict social attraction in great tits
Social relationships can have important fitness consequences, and how well an individual is socially connected often correlates with other behavioral traits. Whether such correlations are caused by underlying individual differences in social attraction usually remains unclear, because to identify effects of individual traits on social attraction, it is essential to experimentally exclude the influence of the social partner. Using standardized high-definition video playback on captive great tits (Parus major), we effectively demonstrate the influence of individual traits on the motivation to be near a conspecific. We show that social attraction varied contrastingly with boldness and stimulus novelty. Shyer birds tended to show stronger social attraction when they were confronted with the stimulus bird for the first time. Lower ranked birds showed the overall strongest social attraction. This rank effect remained after experimentally changing dominance ranks by altering group compositions. Moreover, preference for social association tended to increase with a decrease in dominance rank, suggesting that birds plastically change their social preference in relation to their within-group dominance status. Our results provide insight into how social relations can form and change, processes that are key for understanding the long-term consequences of the social environment, and the role individuals might play in influencing this environment themselves.
Data from: Sea buckthorn berries (Hippophae rhamnoides L.) predict size and composition of a great tit population (Parus major L.).
In seasonal environments variation in food abundance in the non-breeding season is thought to affect songbird population dynamics. In a unique tit-sea buckthorn berry system we can estimate the berry abundance and both the tit consumption and population dynamics. Six hundred nest boxes were available to great and blue tits (Cyanistes caeruleus) for breeding in spring and roosting in winter. We followed the dynamics including the recapture histories of individually marked great tits from 2008-2013. In each year we estimated 1) the winter sea buckthorn berry availability, 2) an index of berry consumption in December based on the colour of the faeces of roosting birds, 3) the number of breeding great and blue tits, 4) both recapture probability and the return rate of the great tits and 5) immigration rates. December berry abundance positively predicted the number of breeding pairs of both species in the subsequent season and great tit return rates in the second half of the winter. There was support for a sex specific berry effect on the adult return rate in the great tit: female return rate was associated less strongly to berry abundance than male return rate. This skewed the sex ratio of the local breeders in the following breeding season. Intriguingly, annual berry consumption in December was not related to berry abundance, and individuals consuming more berries tended to have slightly lower return rates. Reproductive rate was not related to berry abundance. There was hardly support for a relation between immigration rates of first year breeders and berry abundance. Taken together these results imply that berry stock not only affected population size but also the population composition through sex specific exchange with the surroundings. Since population density covaried with berry abundance, density dependent effects provide an alternative explanation for the patterns observed.
Data from: Nest-box temperature affects clutch size, incubation initiation, and nestling health in great tits
Prenatal maternal effects can be a source of phenotypic plasticity and may play a role in adaptation to climate change. However, we do not know how far temperature could influence such effects, if at all. We studied the influence of temperature during egg laying on maternal reproductive investment and on the phenotype of adult females, adult males, and nestlings. We expected temperature to have an effect, as it influences maintenance costs for females, who can also use it as a cue of the advancement of the breeding season. We experimentally increased night-time nest-box temperatures by approximately 1 °C throughout the entire laying period in great tits (Parus major). Clutch size was negatively correlated with laying date in heated females. Heated females did not delay incubation after clutch completion as frequently as control females did. Finally, blood sedimentation rate, which is an indicator of acute infections and inflammatory diseases, was positively correlated with hatching date in control broods. This suggests that nestlings were of lower quality in late-hatched broods than in early-hatched broods. This seasonal effect was not detected in heated nests. Our results show that a small increase in temperature during laying can influence breeding strategy and nestling characteristics. These results suggest that birds used temperature as a cue of seasonal advancement to adjust breeding phenology, with beneficial effects on nestling health. To better understand the consequences of maternal adjustments during egg laying, it would be interesting to combine studies with heating treatment during different periods of the breeding cycle.
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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.
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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.
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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.