Barn swallows long-distance migration occurs between significantly temperature-correlated areas

Birds of a feather flock together: a dataset for Clock and Adcyap1 genes from migration genetics studies

Birds in seasonal habitats rely on intricate strategies for optimal timing of migrations. This is governed by environmental cues, including photoperiod. Genetic factors affecting intrinsic timekeeping mechanisms, such as circadian clock genes, have been explored, yielding inconsistent findings with potential lineage-dependency. To clarify this evidence, a systematic review and phylogenetic reanalysis was done. This descriptor outlines the methodology for sourcing, screening, and processing relevant literature and data. PRISMA guidelines were followed, ultimately including 66 studies, with 34 focusing on candidate genes at the genotype-phenotype interface. Studies were clustered using bibliographic coupling and citation network analysis, alongside scientometric analyses by publication year and location. Data was retrieved for allele data from databases, article supplements, and direct author communications. The dataset, version 1.0.2, encompasses data from 52 species, with 46 species for the Clock gene and 43 for the Adcyap1 gene. This dataset, featuring data from over 8000 birds, constitutes the most extensive cross-species collection for these candidate genes, used in studies investigating gene polymorphisms and seasonal bird migration.

Time trees and clock genes: a systematic review and comparative analysis of contemporary avian migration genetics

Timing is a crucial aspect for survival and reproduction in seasonal environments leading to carefully scheduled annual programs of migration in many species. But what are the exact mechanisms through which birds (class: Aves) can keep track of time, anticipate seasonal changes, and adapt their behaviour? One proposed mechanism regulating annual behaviour is the circadian clock, controlled by a highly conserved set of genes, collectively called 'clock genes' which are well established in controlling the daily rhythmicity of physiology and behaviour. Due to diverse migration patterns observed within and among species, in a seemingly endogenously programmed manner, the field of migration genetics has sought and tested several candidate genes within the clock circuitry that may underlie the observed differences in breeding and migration behaviour. Among others, length polymorphisms within genes such as Clock and Adcyap1 have been hypothesised to play a putative role, although association and fitness studies in various species have yielded mixed results. To contextualise the existing body of data, here we conducted a systematic review of all published studies relating polymorphisms in clock genes to seasonality in a phylogenetically and taxonomically informed manner. This was complemented by a standardised comparative re-analysis of candidate gene polymorphisms of 76 bird species, of which 58 are migrants and 18 are residents, along with population genetics analyses for 40 species with available allele data. We tested genetic diversity estimates, used Mantel tests for spatial genetic analyses, and evaluated relationships between candidate gene allele length and population averages for geographic range (breeding- and non-breeding latitude), migration distance, timing of migration, taxonomic relationships, and divergence times. Our combined analysis provided evidence (i) of a putative association between Clock gene variation and autumn migration as well as a putative association between Adcyap1 gene variation and spring migration in migratory species; (ii) that these candidate genes are not diagnostic markers to distinguish migratory from sedentary birds; and (iii) of correlated variability in both genes with divergence time, potentially reflecting ancestrally inherited genotypes rather than contemporary changes driven by selection. These findings highlight a tentative association between these candidate genes and migration attributes as well as genetic constraints on evolutionary adaptation.

Limited increase in asynchrony between the onset of spring green-up and the arrival of a long-distance migratory bird

For many migrant bird species around the world, climate change has been shown to induce changes in the timings of arrival and the onset of spring food availability at breeding sites. However, whether such changes enlarged asynchrony between the timings of spring arrival of long-distance migratory birds and onset of vegetation greenness increase remain controversial. We used a 29-year phenological dataset to investigate the temporal changes in spring first-sighting date (FSD) of a long-distance migratory bird (barn swallow, Hirundo rustica), from observations at 160 local breeding sites across northern China, and the vegetation green-up onset date (VGD), determined from satellite observations of vegetation greenness. We found that both FSD and VGD trended earlier at over two-thirds of the breeding sites. FSD significantly advanced at 26.9% of the sites, and VGD significantly advanced at 23.8% of the sites. The degree of asynchrony between FSD and VGD changed significantly at one-third of the breeding sites (22.5% with an increase versus 11.3% with a decrease), leading to a limited increase of phenological mismatch. We speculated that climate change did not disrupt the climatic connections between most breeding sites and corresponding non-breeding sites (wintering grounds and migration routes). Our findings suggest that climate change may not greatly increase phenological mismatch between first arrival date of barn swallows and VGD at breeding sites. Importantly, this study should serve as a cue to encourage ecologists and conservation biologists to expand the context under which to explore the ecological consequences of phenological shifts beyond asynchrony, such as individual survival, population demography and ecosystem-level consequences.

High-Throughput Sequencing for Examining Salmonella Prevalence and Pathogen—Microbiota Relationships in Barn Swallows

Studies in both humans and model organisms suggest that the microbiome may play a significant role in host health, including digestion and immune function. Microbiota can offer protection from exogenous pathogens through colonization resistance, but microbial dysbiosis in the gastrointestinal tract can decrease resistance and is associated with pathogenesis. Little is known about the effects of potential pathogens, such as Salmonella, on the microbiome in wildlife, which are known to play an important role in disease transmission to humans. Culturing techniques have traditionally been used to detect pathogens, but recent studies have utilized high throughput sequencing of the 16S rRNA gene to characterize host-associated microbial communities (i.e., the microbiome) and to detect specific bacteria. Building upon this work, we evaluated the utility of high throughput 16S rRNA gene sequencing for potential bacterial pathogen detection in barn swallows (Hirundo rustica) and used these data to explore relationships between potential pathogens and microbiota. To accomplish this, we first compared the detection of Salmonella spp. in swallows using 16S rRNA data with standard culture techniques. Second, we examined the prevalence of Salmonella using 16S rRNA data and examined the relationship between Salmonella-presence or -absence and individual host factors. Lastly, we evaluated host-associated bacterial diversity and community composition in Salmonella-present vs. -absent birds. Out of 108 samples, we detected Salmonella in six (5.6%) samples based on culture, 25 (23.1%) samples with unrarefied 16S rRNA gene sequencing data, and three (2.8%) samples with both techniques. We found that sex, migratory status, and weight were correlated with Salmonella presence in swallows. In addition, bacterial community composition and diversity differed between birds based on Salmonella status. This study highlights the value of 16S rRNA gene sequencing data for monitoring pathogens in wild birds and investigating the ecology of host microbe-pathogen relationships, data which are important for prediction and mitigation of disease spillover into domestic animals and humans.

The start of migration correlates with arrival timing, and the total speed of migration increases with migration distance in migratory songbirds: a cross-continental analysis

BACKGROUND

Anthropogenic changes in the climate and environment have globally affected ecological processes such that the spatiotemporal occurrence of the main annual cycle events (i.e., breeding, wintering, moulting, and migration) has shifted in migratory birds. Variation in arrival timing at migratory destinations can be proximately caused by an altered start of migration, total migration distance, and/or total speed of migration. Quantifying the relative contributions of these causes is important because this will indicate the mechanisms whereby birds could potentially adjust their annual cycle in response to global change. However, we have relatively little quantitative information about how each of these factors contributes to variation in arrival timing. My main aims are to estimate how arrival timing is correlated with variation in the start of migration and the total migration distance and how the total speed of migration may change with the total migration distance and body mass in a comprehensive analysis including multiple species.

METHODS

For this purpose, I considered individual tracks covering complete migrations from multiple species and distinguished between within- and between-species effects.

RESULTS

Assuming that the within- and between-species effects quantified under this approach agree with the effects acting at the individual level, starting migration one day later or increasing the total migration distance by 1000 km would result in later arrival timing by 0.4-0.8 days or 2-5 days, respectively. The generality with which the start of migration is correlated with arrival timing within species suggests that this is the general biological mechanism regulating arrival timing, rather than the total migration distance. The total speed of migration was positively correlated with the total migration distance but not with the bird's body mass.

CONCLUSIONS

As the start of migration is endogenously controlled and/or affected by hatching date, directional selection can probably act on existing within-species/within-population variation to alter arrival timing. This factor and the importance of variation in the start of migration for arrival timing suggest that migratory species/populations in which there is sufficient variation in the start of migration and transgenerational processes affect the corresponding timing may present an advantage over others in coping with anthropogenic-induced global changes.