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646 results for “Migration data”
Data from: Approximate Bayesian computation for modular inference problems with many parameters: the example of migration rates
We propose a two-step procedure for estimating multiple migration rates in an approximate Bayesian computation (ABC) framework, accounting for global nuisance parameters. The approach is not limited to migration, but generally of interest for inference problems with multiple parameters and a modular structure (e.g. independent sets of demes or loci). We condition on a known, but complex demographic model of a spatially subdivided population, motivated by the reintroduction of Alpine ibex (Capra ibex) into Switzerland. In the first step, the global parameters ancestral mutation rate and male mating skew have been estimated for the whole population in Aeschbacher et al. (Genetics 2012; 192: 1027). In the second step, we estimate in this study the migration rates independently for clusters of demes putatively connected by migration. For large clusters (many migration rates), ABC faces the problem of too many summary statistics. We therefore assess by simulation if estimation per pair of demes is a valid alternative. We find that the trade-off between reduced dimensionality for the pairwise estimation on the one hand and lower accuracy due to the assumption of pairwise independence on the other depends on the number of migration rates to be inferred: the accuracy of the pairwise approach increases with the number of parameters, relative to the joint estimation approach. To distinguish between low and zero migration, we perform ABC-type model comparison between a model with migration and one without. Applying the approach to microsatellite data from Alpine ibex, we find no evidence for substantial gene flow via migration, except for one pair of demes in one direction.
Data from: Long-term changes in the seasonal timing of landbird migration on the Pacific Flyway
The seasonal phenology of latitudinal movements is one of the key life-history traits of migratory birds. We used quantile regression to examine long-term changes in the timing of spring and autumn migration in 5 species of migratory passerine birds captured at a banding station in northern California, USA, over a 22 yr period from 1987 to 2008. Our 5 study species included 3 short-distance migrants, Pacific-slope Flycatcher (Empidonax difficilis), Orange-crowned Warbler (Oreothlypis celata), and Wilson's Warbler (Cardellina pusilla); and 2 long-distance migrants, Swainson's Thrush (Catharus ustulatus) and Yellow Warbler (Setophaga petechia). Median timing of migration advanced in spring for 2 of the 5 species (−2.5 days decade−1) but was delayed during autumn migration for 3 of the species (+2.9 days decade−1). The duration of the migration period also became compressed in some species but more protracted in others. We tested whether annual variation in migration timing was related to 3 indices of regional climatic conditions: the Pacific–North American index, multivariate El Niño–Southern Oscillation index, and North Atlantic Oscillation index. Climate indices explained relatively little of the variation in migration timing (r2 < 0.35), but advances in spring migration and delays in autumn migration were associated with warm, wet conditions during positive phases of the climate indices. The strongest effects of climatic conditions on migration timing were found among short-distance migrants, with the largest changes in timing due to variation in the El Niño–Southern Oscillation and Pacific–North American indices. Linkages between the timing of movements and climatic conditions indicate that passerine birds on the Pacific coast exhibit phenotypic plasticity in their migration timing, but future studies based on experimental methods are needed to test alternative ecological mechanisms.
Data from: Different modes of migration among Late Cretaceous ammonoids in northwestern Hokkaido, Japan: evidence from the analyses of shell whorls
The thickness ratios of shell whorls (= whorl breadth / shell diameter) in the ammonoids Damesites sugata, Hypophylloceras subramosum, and Gaudryceras tenuiliratum from the Late Cretaceous outer shelf deposits in the Kotanbetsu area of northwestern Hokkaido, Japan, were examined in order to determine their mode of migration. The thickness ratios of D. sugata differ significantly with depth on the outer shelf environment, but show no significant difference laterally at a similar depth. These results suggest that D. sugata did not frequently migrate to different depths on the outer shelf environment, but tended to live and migrate laterally at a similar depth on the outer shelf. The thickness ratios of H. subramosum and G. tenuiliratum show no significant difference between different depths on the outer shelf environment nor for lateral direction at a similar depth. This suggests that H. subramosum and G. tenuiliratum frequently migrated at different depths on the out er shelf environment and laterally at a similar depth. There is no difference in hatchling diameters in all the examined species at different depths on the outer shelf environment, suggesting that the thickness ratios became manifest after the post-hatchling stage due to limited migration, which would have been in a nektobenthic habitat. The various modes of migration in the study area are reconstructed in this study, suggesting a diversified paleoecology of Late Cretaceous ammonoids.
Data from: A bridge between oceans: Overland migration of marine birds in a wind energy corridor
Located at the shortest overland route between the Gulf of Mexico and the Pacific Ocean, Mexico's Tehuantepec Isthmus is a globally important migratory corridor for many terrestrial bird species. The Pacific coast of the Isthmus also contains a significant wetland complex that supports large multi-species aggregations of non-breeding waterbirds during the boreal winter. In recent years, extensive wind energy development has occurred in the plains bordering these wetlands, directly along the migratory flyway. Using recent studies of movement patterns of three marine-associated bird species—reddish egrets (Egretta rufescens), brown pelicans (Pelecanus occidentalis), and red knots (Calidris canutus)—from the northern Gulf of Mexico, we assess the use of the isthmus as a migratory corridor. Our data provide evidence that marine birds from the Gulf region regularly overwinter along the Pacific coast of Mexico and use the isthmus as a migratory corridor, creating the potential for interaction with terrestrial wind farms during non-breeding. This study is the first to describe migration by marine-associated bird species between the Gulf of Mexico and Pacific coast. These data contribute new information toward ongoing efforts to understand the complex migration patterns of mobile marine species, with the goal of informing integrated conservation efforts for species whose year-round habitat needs cross ecoregional and geopolitical boundaries.
Data from: Spatial memory shapes migration and its benefits: evidence from a large herbivore
From fine-scale foraging to broad-scale migration, animal movement is shaped by the distribution of resources. There is mounting evidence, however, that learning and memory also guide movement. Although migratory mammals commonly track resource waves, how resource tracking and memory guide long-distance migration has not been reconciled. We examined these hypotheses using movement data from four populations of migratory mule deer (n=91). Spatial memory had an extraordinary influence on migration, affecting movement 2–28 times more strongly than tracking spring green-up or autumn snow depth. Importantly, with only an ability to track resources, simulated deer were unable to recreate empirical migratory routes. In contrast, simulated deer with memory of empirical routes, used those routes and obtained higher foraging benefits. For migratory terrestrial mammals, spatial memory provides knowledge of where seasonal ranges and migratory routes exist, while resource tracking determines when to beneficially move within those areas.
Data from: Geographic differentiation of domesticated einkorn wheat and possible Neolithic migration routes
To analyse the spread of domesticated einkorn into Europe, 136 landraces, 9 wild einkorns and 3 Triticum urartu were fingerprinted by the diversity array technology sequence (DArT-seq) marker technology. The obtained 3455 single-nucleotide polymorphism (SNP) markers confirmed earlier results about the separation of wild and domesticated einkorn from T. urartu and about the pinpointing of the domesticated forms to the Karacadağ Mountains (Turkey). Further analyses identified two major domesticated landrace einkorn groups, one relating to the Prealpine region and the other to the Maghreb/Iberian region. The previously published four geographical provenance groups were mostly identified in our results. The earlier reported unique position of the Maghreb/Iberia einkorns cannot be confirmed, as the three landrace clusters we identified with STRUCTURE also occur in the remaining einkorn, although at different frequencies. The results are discussed with respect to the spreading of domesticated einkorn into Western Europe and two possible Neolithic migration routes are indicated.
Data from: Causes and consequences of partial migration in a passerine bird
Many animal species have populations in which some individuals migrate and others remain on the breeding grounds. This phenomenon is called partial migration. Despite substantial theoretical work, empirical data on causes and consequences of partial migration remain scarce, mainly because of difficulties associated with tracking individuals over large spatial scales. We used stable hydrogen isotopes in claw material to determine whether skylarks Alauda arvensis from a single breeding population in the Netherlands had migrated or remained resident in the previous winter and investigated whether there were causes or consequences of either strategy. Age and sex had no influence on the propensity to migrate, but larger individuals were more likely to be residents. The wintering strategy was not fixed within individuals. Up to 45% of individuals measured in multiple years switched strategies. Reproductive parameters were not related to the wintering strategy, but individuals that wintered locally experienced lower future return rates, and this was directly correlated with two independent measures of immune function. Our results suggest that partial migration in skylarks is based neither on genetic dimorphism nor on an age- and sex-dependent condition. Instead, the wintering strategy is related to structural size and immune function. These new insights on causes and consequences of partial migration advance our understanding of the ecology, evolution, and coexistence of different life-history strategies.
Data from: Partial migration: growth varies between resident and migratory fish
Partial migration occurs in many taxa and ecosystems and may confer survival benefits. Here, we use otolith chemistry data to determine whether fish from a large estuarine system were resident or migratory, and then examine whether contingents display differences in modelled growth based on changes in width of otolith growth increments. Sixty-three per cent of fish were resident based on Ba : Ca of otoliths, with the remainder categorized as migratory, with both contingents distributed across most age/size classes and both sexes, suggesting population-level bet hedging. Migrant fish were in slightly better condition than resident fish based on Fulton's K condition index. Migration type (resident versus migratory) was 56 times more likely to explain variation in growth than a model just incorporating year- and age-related growth trends. While average growth only varied slightly between resident and migratory fish, year-to-year variation was significant. Such dynamism in growth rates likely drives persistence of both life-history types. The complex relationships in growth between contingents suggest that management of species exhibiting partial migration is challenging, especially in a world subject to a changing climate.
Data from: Energy expenditure of adult green turtles (Chelonia mydas) at their foraging grounds and during simulated oceanic migration
Measuring the energy requirements of animals under natural conditions and determining how acquired energy is allocated to specific activities is a central theme in ecophysiology. Turtle reproductive output is fundamentally linked with their energy balance so a detailed understanding of marine turtle energy requirements during the different phases of their life cycle at sea is essential for their conservation. We used the non-invasive accelerometry technique to investigate the activity patterns and energy expenditure (EE) of adult green turtles (Chelonia mydas) foraging year-round at a seagrass meadow in Mayotte (n = 13) and during simulated oceanic migration (displacement from the nesting beach) off Mohéli (n = 1), in the south-western Indian Ocean. At the foraging site, turtles divided their days between foraging benthically on the shallow seagrass meadow during daylight hours and resting at greater depth on the inner side of the reef slope at night. Estimated oxygen consumption rates (sinline image) and daily energy expenditures (DEE) at the foraging site were low (sinline image during the day was 1·6 and 1·9 times the respective resting rate at night during the austral summer and winter, respectively), which is consistent with the requirement to build up substantial energy reserves at the foraging site, to sustain the energy-demanding breeding migration and reproduction. Dive duration (but not dive depth) at the foraging site shifted significantly with season (dive duration increased with declining water temperatures, Tw), while overall activity levels remained unchanged. In parallel with a significant seasonal decline in Tw (from 28·9 ± 0·1 °C to 25·3 ± 0·4 °C), there was a moderate (˜19%) but significant decline in DEE of turtles during the austral winter (901 ± 111 kJ day−1), when compared with the austral summer (1117 ± 66 kJ day−1). By contrast, the turtle moved continuously during simulated oceanic migration, conducting short/shallow dives in the day, which (predominately at night) were interspersed with longer and deeper 'pelagic' dives. Estimated oxygen consumption rates during a simulated migration (1·25 ± 0·16 mL O2 min−1 kg−0·83) were found to be significantly increased over the foraging condition, equal to ˜3 times the resting rate at night (0·42 ± 0·02 mL O2 min−1 kg−0·83), and daily energy expenditure amounted to 2327 ± 292 kJ day−1, underlining the tremendous energetic effort associated with breeding migration. Our study indicates that the accelerometry technique provides a new and promising opportunity to study marine turtle energy relations in great detail and under natural conditions.
Data from: Migrating songbirds on stopover prepare for, and recover from, oxidative challenges posed by long-distance flight
Managing oxidative stress is an important physiological function for all aerobic organisms, particularly during periods of prolonged high metabolic activity, such as long-distance migration across ecological barriers. However, no previous study has investigated the oxidative status of birds at different stages of migration and whether that oxidative status depends on the condition of the birds. In this study, we compared (1) energy stores and circulating oxidative status measures in (a) two species of Neotropical migrants with differing migration strategies that were sampled at an autumn stopover site before an ecological barrier; and (b) a species of trans-Saharan migrant sampled at a spring stopover site after crossing an ecological barrier; and (2) circulating oxidative measures and indicators of fat metabolism in a trans-Saharan migrant after stopovers of varying duration (0–8 nights), based on recapture records. We found fat stores to be positively correlated with circulating antioxidant capacity in Blackpoll Warblers and Red-eyed Vireos preparing for fall migration on Block Island, USA, but uncorrelated in Garden Warblers on the island of Ponza, Italy, after a spring crossing of the Sahara Desert and Mediterranean Sea. In all circumstances, fat stores were positively correlated with circulating lipid oxidation levels. Among Garden Warblers on the island of Ponza, fat anabolism increased with stopover duration while oxidative damage levels decreased. Our study provides evidence that birds build antioxidant capacity as they build fat stores at stopover sites before long flights, but does not support the idea that antioxidant stores remain elevated in birds with high fuel levels after an ecological barrier. Our results further suggest that lipid oxidation may be an inescapable hazard of using fats as the primary fuel for flight. Yet, we also show that birds on stopover are capable of recovering from the oxidative damage they have accrued during migration, as lipid oxidation levels decrease with time on stopover. Thus, the physiological strategy of migrating songbirds may be to build prophylactic antioxidant capacity in concert with fuel stores at stopover sites before a long-distance flight, and then repair oxidative damage while refueling at stopover sites after long-distance flight.
Data from: Northeast African genomic variation shaped by the continuity of indigenous groups and Eurasian migrations
Northeast Africa has a long history of human habitation, with fossil-finds from the earliest anatomically modern humans, and housing ancient civilizations. The region is also the gate-way out of Africa, as well as a portal for migration into Africa from Eurasia via the Middle East and the Arabian Peninsula. We investigate the population history of northeast Africa by genotyping ~3.9 million SNPs in 221 individuals from 18 populations sampled in Sudan and South Sudan and combine this data with published genome-wide data from surrounding areas. We find a strong genetic divide between the populations from the northeastern parts of the region (Nubians, central Arab populations, and the Beja) and populations towards the west and south (Nilotes, Darfur and Kordofan populations). This differentiation is mainly caused by a large Eurasian ancestry component of the northeast populations likely driven by migration of Middle Eastern groups followed by admixture that affected the local populations in a north-to-south succession of events. Genetic evidence points to an early admixture event in the Nubians, concurrent with historical contact between North Sudanese and Arab groups. We estimate the admixture in current-day Sudanese Arab populations to about 700 years ago, coinciding with the fall of Dongola in 1315/1316 AD, a wave of admixture that reached the Darfurian/Kordofanian populations some 400-200 years ago. In contrast to the northeastern populations, the current-day Nilotic populations from the south of the region display little or no admixture from Eurasian groups indicating long-term isolation and population continuity in these areas of northeast Africa.
Data from: Do the high energy lifestyles of shorebirds result in high maximal metabolic rates? - Basal and maximal metabolic rates in least and pectoral sandpipers during migration
Shorebirds have high resting and field metabolic rates relative to many other bird groups, and this is posited to be related to their high-energy lifestyle. Maximum metabolic outputs for cold or exercise are also often high for bird groups with energetically demanding lifestyles. Moreover, shorebirds demonstrate flexible basal and maximal metabolic rates, which vary with changing energy demands throughout the annual cycle. Consequently, shorebirds might be expected to have high maximum metabolic rates, especially during migration periods. We captured least (Calidris minutilla) and pectoral (C. melanotos) sandpipers during spring and fall migration in southeastern South Dakota and measured maximal exercise metabolic rate (MMR; least sandpipers only), summit metabolic rate (Msum, maximal cold-induced metabolic rate) and basal metabolic rate (BMR, minimum maintenance metabolic rate) with open-circuit respirometry. BMR for both least and pectoral sandpipers exceeded allometric predictions by 3-14%, similar to other shorebirds, but Msum and MMR for both species were either similar to or lower than allometric predictions, suggesting that the elevated BMR in shorebirds does not extend to maximal metabolic capacities. Old World shorebirds show the highest BMR during the annual cycle on the Arctic breeding grounds. Similarly, least sandpiper BMR during migration was lower than on the Arctic breeding grounds, but this was not the case for pectoral sandpipers, so our data only partially support the idea of similar seasonal patterns of BMR variation in New World and Old World shorebirds. We found no correlations of BMR with either Msum or MMR for either raw or mass-independent data, suggesting that basal and maximum aerobic metabolic rates are modulated independently in these species.
Data from: A Western route of prehistoric human migration from Africa into the Iberian Peninsula
Being at the Western fringe of Europe, Iberia had a peculiar prehistory and a complex pattern of Neolithization. A few studies, all based on modern populations, reported the presence of DNA of likely African origin in this region, generally concluding it was the result of recent gene flow, probably during the Islamic period. Here we provide evidence of much older gene flow from Africa to Iberia by sequencing whole genomes from four human remains from Northern Portugal and Southern Spain dated around 4,000 years BP (from the Middle Neolithic to the Bronze Age). We found one of them to carry an unequivocal Sub-Saharan mitogenome of most likely West or West-Central African origin, never reported before in prehistoric remains outside Africa. Our analyses of ancient nuclear genomes show small but significant levels of Sub-Saharan African affinity in several ancient Iberian samples, which indicates that what we detected was not an occasional individual phenomenon, but an admixture event recognizable at the population level. We interpret this result as evidence of an early migration process from Africa into the Iberian Peninsula through a Western route, possibly across the Strait of Gibraltar.
Data from: Genetic profiling links changing sea-ice to shifting beluga whale migration patterns
There is increasing concern over how Arctic fauna will adapt to climate related changes in sea-ice. We used long-term sighting and genetic data on beluga whales (Delphinapterus leucas) in conjunction with multi-decadal patterns of sea-ice in the Pacific Arctic to investigate the influence of sea-ice on spring migration and summer residency patterns. Substantial variations in sea-ice conditions were detected across seasons, years and sub-regions, revealing ice–ocean dynamics more complex than Arctic-wide trends suggest. This variation contrasted with a highly consistent pattern of migration and residency by several populations, indicating that belugas can accommodate widely varying sea-ice conditions to perpetuate philopatry to coastal migration destinations. However, a number of anomalous migration and residency events were detected and coincided with anomalous ice years, and in one case with an increase in killer whale (Orcinus orca) sightings and reported predation on beluga whales. The behavioural shifts were likely driven by changing sea-ice and associated changes in resource dispersion and predation risk. Continued reductions in sea-ice may result in increased predation at key aggregation areas and shifts in beluga whale behaviour with implications for population viability, ecosystem structure and the subsistence cultures that rely on them.
Data from: Combining micro-volume isotope analysis and numerical simulation to reproduce fish migration history
1. Tracking the movement of migratory fish is of great importance for efficient conservation, although this has been technically difficult to achieve in small fish to which artificial tags cannot be attached. 2. We show that migration history can be reproduced by combining high-resolution otolith stable oxygen isotope ratio (δ18O) analysis and numerical simulation. 3. High-precision micro-milling and micro-volume carbonate analysing systems had the remarkable capability of extracting the otolith δ18O profiles with 10–30 days resolution. Furthermore, reasonable movements were reproduced by searching the routes consistent with the otolith δ18O profile, using an individual-based model with random swimming behaviour. 4. This method will be a valuable alternative to tagging and electronic loggers for revealing migration routes in early life stages, thereby providing crucial information to understand population structures and the environmental cause of recruitment variabilities, and to validate and improve fish movement models.
Data from: Migration strategies and annual space-use in an Afro-Palaearctic aerial insectivore – the European nightjar Caprimulgus europaeus
Obligate insectivorous birds breeding in high latitudes travel thousands of kilometres during annual movements to track the local seasonal peaks of food abundance in a continuously fluctuating resource landscape. Avian migrants use an array of strategies when conducting these movements depending on e.g. morphology, life history traits and environmental factors encountered en route. Here we used geolocators to derive data on the annual space-use, temporal pattern and migratory strategies in an Afro-Palaearctic aerial insectivorous bird species – the European nightjar Caprimulgus europaeus. More specifically, we aimed to test a set of hypothesises pertaining to the migration of a population of nightjars breeding in south-eastern Sweden. We found that the birds wintered across the central and western parts of the southern tropical Africa almost entirely outside the currently described wintering range of the species. The nightjars performed a narrow loop migration across Sahara, with spring Sahel stopovers significantly to the west of autumn stops indicative to an adaptive response to winds during migration. To our surprise, the migration speed was faster in the autumn (119 km d− 1) than in the spring (99 km d− 1), possibly due to the prevailing wind regimes over the Sahara. The estimated flight fraction in both autumn (14%) and spring (12%) was almost exactly as the theoretically predicted 1:7 time relationship between flights and stopovers for small birds. The temporal patterns within the annual cycle indicate that individuals follow alternative spatiotemporal schedules that converge towards the breeding season. The positive relationship between the spatially and temporally distant winter departure and breeding arrival suggests that individuals´ temporal fine-tuning to breeding may be constrained, leading to potential negative fitness consequences.
Data from: Habitat-mediated effects of diurnal and seasonal migration strategies on juvenile salmon survival
Behavioral decisions during periods of vulnerability to predation risk, such as migrations during the juvenile life-history stage, may strongly affect the probability of survival. Habitats through which animals migrate are heterogeneous, and risk-reducing behaviors may be more important in some habitats than others. Using biotelemetry data, diurnal and seasonal riverine migration patterns of >3800 juvenile salmon across four species, 12 watersheds, and five years were quantified to evaluate possible effects of migration timing on survival from lower river reaches to coastal waters. In small, clear rivers most salmon avoided migrating during daylight hours, and average survival of fish migrating at night (55%; 95% confidence limits 50–61%) was twice that of fish migrating in daylight (24%; CL 17-31%). Conversely, in the large, heavily silted Fraser River neither preference for nocturnal travel nor effects of diurnal timing on survival were observed. Early ocean survival was also influenced by the timing of ocean entry, but in opposite directions for fish from the Fraser River and smaller rivers. In the Fraser River, average survival for later migrants (69%; CL 60–77%) was nearly twice that of earlier migrants (38%; CL 33–44%), likely related to seasonal increases in river flow. In contrast, in smaller rivers, average survival for earlier migrants (70%; CL 65–74%) was 3-fold greater than survival for later migrants (19%; 95% CL 14–25%). Together these results demonstrate that timing decisions affecting survival of juvenile salmon during their migration are likely mediated by landscape characteristics that plausibly influence the risk of predation.
Data from: Combined genetic and telemetry data reveal high rates of gene flow, migration, and long-distance dispersal potential in Arctic ringed seals (Pusa hispida)
Ringed seals (Pusa hispida) are broadly distributed in seasonally ice covered seas, and their survival and reproductive success is intricately linked to sea ice and snow. Climatic warming is diminishing Arctic snow and sea ice and threatens to endanger ringed seals in the foreseeable future. We investigated the population structure and connectedness within and among three subspecies: Arctic (P. hispida hispida), Baltic (P. hispida botnica), and Lake Saimaa (P. hispida saimensis) ringed seals to assess their capacity to respond to rapid environmental changes. We consider (a) the geographical scale of migration, (b) use of sea ice, and (c) the amount of gene flow between subspecies. Seasonal movements and use of sea ice were determined for 27 seals tracked via satellite telemetry. Additionally, population genetic analyses were conducted using 354 seals representative of each subspecies and 11 breeding sites. Genetic analyses included sequences from two mitochondrial regions and genotypes of 9 microsatellite loci. We found that ringed seals disperse on a pan-Arctic scale and both males and females may migrate long distances during the summer months when sea ice extent is minimal. Gene flow among Arctic breeding sites and between the Arctic and the Baltic Sea subspecies was high; these two subspecies are interconnected as are breeding sites within the Arctic subspecies.
Data from: Fine-grained adaptive divergence in an amphibian: genetic basis of phenotypic divergence and the role of non-random gene flow in restricting effective migration among wetlands
Adaptive ecological differentiation among sympatric populations is promoted by environmental heterogeneity, strong local selection and restricted gene flow. High gene flow, on the other hand, is expected to homogenize genetic variation among populations and therefore prevent local adaptation. Understanding how local adaptation can persist at the spatial scale at which gene flow occurs has remained an elusive goal, especially for wild vertebrate populations. Here, we explore the roles of natural selection and nonrandom gene flow (isolation by breeding time and habitat choice) in restricting effective migration among local populations and promoting generalized genetic barriers to neutral gene flow. We examined these processes in a network of 17 breeding ponds of the moor frog Rana arvalis, by combining environmental field data, a common garden experiment and data on variation in neutral microsatellite loci and in a thyroid hormone receptor (TRβ) gene putatively under selection. We illustrate the connection between genotype, phenotype and habitat variation and demonstrate that the strong differences in larval life history traits observed in the common garden experiment can result from adaptation to local pond characteristics. Remarkably, we found that haplotype variation in the TRβ gene contributes to variation in larval development time and growth rate, indicating that polymorphism in the TRβ gene is linked with the phenotypic variation among the environments. Genetic distance in neutral markers was correlated with differences in breeding time and environmental differences among the ponds, but not with geographical distance. These results demonstrate that while our study area did not exceed the scale of gene flow, ecological barriers constrained gene flow among contrasting habitats. Our results highlight the roles of strong selection and nonrandom gene flow created by phenological variation and, possibly, habitat preferences, which together maintain genetic and phenotypic divergence at a fine-grained spatial scale.
Data from: Temporal patterns of genetic variation in a salmon population undergoing rapid change in migration timing
Though genetic diversity is necessary for population persistence in rapidly changing environments, little is known about how climate-warming influences patterns of intra-population genetic variation. For a pink salmon population experiencing increasing temperatures, we used temporal genetic data (microsatellite = 1993, 2001, 2009; allozyme = 1979, 1981, 1983) to quantify the genetic effective population size (Ne) and genetic divergence due to differences in migration timing and to estimate whether these quantities have changed over time. We predicted that temporal trends toward earlier migration timing and a corresponding loss of phenotypic variation would decrease genetic divergence based on migration timing and Ne. We observed significant genetic divergence based on migration timing and genetic heterogeneity between early- and late-migrating fish. There was also some evidence for divergent selection between early- and late-migrating fish at circadian rhythm genes, but results varied over time. Estimates of Ne from multiple methods were large (>1200) and Ne/Nc generally exceeded 0.2. Despite shifts in migration timing and loss of phenotypic variation, there was no evidence for changes in within-population genetic divergence or Ne over the course of this study. These results suggest that in instances of population stability, genetic diversity may be resistant to climate-induced changes in migration timing.
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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.