Intestinal microbiota of Nearctic-Neotropical migratory birds vary more over seasons and years than between host species.

Seasonal migration of Nearctic-Neotropical passerine birds may have profound effects on the diversity and abundance of their host-associated microbiota. Migratory birds experience seasonal change in environments and diets throughout the course of the annual cycle that, along with recurrent biological events such as reproduction, may significantly impact their microbiota. In this study, we characterize the intestinal microbiota of four closely related species of migratory Catharus thrushes at three time points of their migratory cycle: during spring migration, on the summer breeding territories and during fall migration. Using observations replicated over 3 years, we determined that microbial community diversity of Catharus thrushes was significantly different across distinct time periods of the annual cycle, whereas community composition was more similar within than across years. Elevated alpha diversity in the summer birds compared to either migratory period indicated that birds may harbour a reduced microbiota during active migration. We also found that community composition of the microbiota did not substantially differ between host species. Finally, we recovered two phyla, Cyanobacteria and Planctomycetota, which are not commonly described from birds, that were in relatively high abundance in specific years. This study contributes to our growing understanding of how microbiota in wild birds vary throughout disparate ecological conditions and reveals potential axes across which an animal's microbial flexibility adapts to variable environments and recurrent biological conditions throughout the annual cycle.

Coinfection rates of avian blood parasites increase with latitude in parapatric host species.

Animals are frequently coinfected with multiple parasites concurrently, and advances in our sampling of these complex intra-host parasite communities have revealed important ecological impacts on their hosts. However, the spatial distributions and environmental determinants of parasite coinfection remain infrequently studied. Here, we investigated the drivers of haemosporidian blood parasite coinfection in the Bicknell's thrush (Catharus bicknelli) and grey-cheeked thrush (Catharus minimus), parapatric sister species that occur across a broad latitudinal range in northern North America. Using 298 samples from across the distributions of these species, we found high overall infection (86%) and coinfection (41%) rates within host populations. Coinfection rates within populations were highly variable across sampling sites, ranging from 7 to 75%. Latitude was a more important predictor of coinfection frequency than host species identity, with coinfections becoming more abundant at higher latitudes. The 2 host species exhibited similar parasite faunas, and an analysis of the co-occurrence patterns among haemosporidians showed that host species identity was largely not a factor in structuring which parasites were found within coinfections. To our knowledge, this is the first study to illustrate a reverse latitudinal gradient in coinfection frequency in a eukaryotic parasite system. Further work is necessary to determine whether vector ecology or some other factor is the primary proximate driver of this pattern.

Patterns of blood mercury variation in two long-distance migratory thrushes on Mount Mansfield, Vermont.

We investigated mercury (Hg) blood concentrations in Bicknell's thrush (Catharus bicknelli) and Swainson's thrush (C. ustulatus), congeneric long-distance migratory songbirds, from 2000-2017 at a montane forest site in north-central Vermont. We analyzed variation in blood Hg of both species using mixed-effects models, incorporating atmospheric wet Hg deposition data from a nearby sampling location. Although Hg deposition varied among years and seasonally, we detected no temporal trend in either atmospheric deposition or blood Hg, nor evidence of a relationship between the two. Sampling date had the strongest effect on blood Hg concentration, which declined seasonally, followed by age and sex of the individual. The data did not support an effect of species. We believe that the absence of a clear relationship between local atmospheric deposition and thrush blood Hg concentrations suggests that Hg cycling dynamics, mechanisms of transfer, and timing of uptake by montane forest biota are complex and poorly understood. The blood Hg concentrations of ~0.07-0.1 µg/g we documented in Bicknell's and Swainson's thrush are below those found to negatively impact physiological or reproductive endpoints in other invertivorous terrestrial passerines. To better evaluate the validity of Bicknell's thrush as a bioindicator of MeHg availability in montane forest ecosystems, we recommend (1) effects-based investigations, (2) a more robust understanding of Hg and MeHg cycling, (3) more clear geospatial and temporal links between Hg deposition and biotic uptake, and (4) more thorough documentation of Hg burdens across the species' annual cycle.

Seasonal gene expression in a migratory songbird.

The annual migration of a bird can involve thousands of kilometres of nonstop flight, requiring accurately timed seasonal changes in physiology and behaviour. Understanding the molecular mechanisms controlling this endogenous programme can provide functional and evolutionary insights into the circannual biological clock and the potential of migratory species to adapt to changing environments. Under naturally timed photoperiod conditions, we maintained captive Swainson's thrushes (Catharus ustulatus) and performed RNA sequencing (RNA-Seq) of the ventral hypothalamus and optic chiasma to evaluate transcriptome-wide gene expression changes of individuals in migratory condition. We found that 188 genes were differentially expressed in relation to migratory state, 86% of which have not been previously linked to avian migration. Focal hub genes were identified that are candidate variables responsible for the occurrence of migration (e.g. CRABP1). Numerous genes involved in cell adhesion, proliferation and motility were differentially expressed (including RHOJ, PAK1 and TLN1), suggesting that migration-related changes are regulated by seasonal neural plasticity.

Geographic isolation drives divergence of uncorrelated genetic and song variation in the Ruddy-capped Nightingale-Thrush (Catharus frantzii; Aves: Turdidae).

Montane barriers influence the evolutionary history of lineages by promoting isolation of populations. The effects of these historical processes are evident in patterns of differentiation among extant populations, which are often expressed as genetic and behavioral variation between populations. We investigated the effects of geographic barriers on the evolutionary history of a Mesoamerican bird by studying patterns of genetic and vocal variation in the Ruddy-capped Nightingale-Thrush (Turdidae: Catharus frantzii), a non-migratory oscine bird that inhabits montane forests from central Mexico to Panama. We reconstructed the phylogeographic history and estimated divergence times between populations using Bayesian and maximum likelihood methods. We found strong support for the existence of four mitochondrial lineages of C. frantzii corresponding to isolated mountain ranges: Sierra Madre Oriental; Sierra Madre del Sur; the highlands of Chiapas, Guatemala, and El Salvador; and the Talamanca Cordillera. Vocal features in C. frantzii were highly variable among the four observed clades, but vocal variation and genetic variation were uncorrelated. Song variation in C. frantzii suggests that sexual selection and cultural drift could be important factors driving song differentiation in C. frantzii.

Genomic analysis of a migratory divide reveals candidate genes for migration and implicates selective sweeps in generating islands of differentiation.

Differential gene flow, reductions in diversity following linked selection and/or features of the genome can structure patterns of genomic differentiation during the process of speciation. Possible sources of reproductive isolation are well studied between coastal and inland subspecies groups of Swainson's thrushes, with differences in seasonal migratory behaviour likely playing a key role in reducing hybrid fitness. We assembled and annotated a draft reference genome for this species and generated whole-genome shotgun sequence data for populations adjacent to the hybrid zone between these groups. We documented substantial genomewide heterogeneity in relative estimates of genetic differentiation between the groups. Within population diversity was lower in areas of high relative differentiation, supporting a role for selective sweeps in generating this pattern. Absolute genetic differentiation was reduced in these areas, further suggesting that recurrent selective sweeps in the ancestral population and/or between divergent populations following secondary contact likely occurred. Relative genetic differentiation was also higher near centromeres and on the Z chromosome, suggesting that features of the genome also contribute to genomewide heterogeneity. Genes linked to migratory traits were concentrated in islands of differentiation, supporting previous suggestions that seasonal migration is under divergent selection between Swainson's thrushes. Differences in migratory behaviour likely play a central role in the speciation of many taxa; we developed the infrastructure here to permit future investigations into the role several candidate genes play in reducing gene flow between not only Swainson's thrushes but other species as well.

Gene trees, species trees and Earth history combine to shed light on the evolution of migration in a model avian system.

The evolution of migration in birds has fascinated biologists for centuries. In this study, we performed phylogenetic-based analyses of Catharus thrushes, a model genus in the study of avian migration, and their close relatives. For these analyses, we used both mitochondrial and nuclear genes, and the resulting phylogenies were used to trace migratory traits and biogeographic patterns. Our results provide the first robust assessment of relationships within Catharus and relatives and indicate that both mitochondrial and autosomal genes contribute to overall support of the phylogeny. Measures of phylogenetic informativeness indicated that mitochondrial genes provided more signal within Catharus than did nuclear genes, whereas nuclear loci provided more signal for relationships between Catharus and close relatives than did mitochondrial genes. Insertion and deletion events also contributed important support across the phylogeny. Across all taxa included in the study, and for Catharus, possession of long-distance migration is reconstructed as the ancestral condition, and a North American (north of Mexico) ancestral area is inferred. Within Catharus, sedentary behaviour evolved after the first speciation event in the genus and is geographically and temporally correlated with Central American distributions and the final closure of the Central American Seaway. Migratory behaviour subsequently evolved twice in Catharus and is geographically and temporally correlated with a recolonization of North America in the late Pleistocene. By temporally linking speciation events with changes in migratory condition and events in Earth history, we are able to show support for several competing hypotheses relating to the geographic origin of migration.

Genotype-environment associations across spatial scales reveal the importance of putative adaptive genetic variation in divergence.

Identifying areas of high evolutionary potential is a judicious strategy for developing conservation priorities in the face of environmental change. For wide-ranging species occupying heterogeneous environments, the evolutionary forces that shape distinct populations can vary spatially. Here, we investigate patterns of genomic variation and genotype-environment associations in the hermit thrush (Catharus guttatus), a North American songbird, at broad (across the breeding range) and narrow spatial scales (at a hybrid zone). We begin by building a genoscape or map of genetic variation across the breeding range and find five distinct genetic clusters within the species, with the greatest variation occurring in the western portion of the range. Genotype-environment association analyses indicate higher allelic turnover in the west than in the east, with measures of temperature surfacing as key predictors of putative adaptive genomic variation rangewide. Since broad patterns detected across a species' range represent the aggregate of many locally adapted populations, we investigate whether our broadscale analysis is consistent with a finer scale analysis. We find that top rangewide temperature-associated loci vary in their clinal patterns (e.g., steep clines vs. fixed allele frequencies) across a hybrid zone in British Columbia, suggesting that the environmental predictors and the associated candidate loci identified in the rangewide analysis are of variable importance in this particular region. However, two candidate loci exhibit strong concordance with the temperature gradient in British Columbia, suggesting a potential role for temperature-related barriers to gene flow and/or temperature-driven ecological selection in maintaining putative local adaptation. This study demonstrates how patterns identified at the broad (macrogeographic) scale can be validated by investigating genotype-environment correlations at the local (microgeographic) scale. Furthermore, our results highlight the importance of considering the spatial distribution of putative adaptive variation when assessing population-level sensitivity to climate change and other stressors.

Microplastic accumulation in the gastrointestinal tracts of nestling and adult migratory birds.

This study examines the abundance and types of microplastic (MP) content in the digestive system of different bird species to help us better understand MP transfer to birds from their environments. The lower GI tracts of six bird species (Tree Swallow (Tachycineta bicolor), Ovenbird (Seiurus aurocapilla), Dark-eyed Junco (Junco hyemalis), Hermit Thrush (Catharus guttatus), Tennessee Warbler (Leiothlypis peregrine), White-throated Sparrow (Zonotrichia albicollis)) were collected for MP analysis. Tree Swallows were collected from nine locations along three drainages in the Milwaukee area and at a remote lake in Wisconsin, USA and consisted of nestlings not yet fledged. The five other bird species were adult migratory bird fatalities from window strikes at the Loyola University Chicago's Lake Shore Campus. Results of plastic analysis showed that the lower GI tracts of all bird species contained different types of MPs (i.e., fibers, fragment, beads). Fiber was the most dominant, followed by fragment and beads. Microplastics were polyethylene, polyethylene terephthalate, nylon, and polyvinyl base materials. There was no statistically significant difference in the site average MP concentration for nestling Tree Swallows or in the species average concentration for adult migratory birds. However, except for Ovenbird, species of adult migratory birds had a species average MP concentration (20.1) that was statistically higher than the site-average MP concentration for Tree Swallow nestlings (5.9). The presence of MPs in the lower GI tracts of unfledged swallows could suggest that MPs had been transferred to the birds from the environment via their diet, such as flying insects-the food source of the birds. Further study should be conducted to investigate the potential transfer of MPs from aquatic insects to birds.

Drivers of community turnover differ between avian hemoparasite genera along a North American latitudinal gradient.

The latitudinal diversity gradient (LDG) is an established macroecological pattern, but is poorly studied in microbial organisms, particularly parasites. In this study, we tested whether latitude, elevation, and host species predicted patterns of prevalence, alpha diversity, and community turnover of hemosporidian parasites. We expected parasite diversity to decrease with latitude, alongside the diversity of their hosts and vectors. Similarly, we expected infection prevalence to decrease with latitude as vector abundances decrease. Lastly, we expected parasite community turnover to increase with latitudinal distance and to be higher between rather than within host species. We tested these hypotheses by screening blood and tissue samples of three closely related avian species in a clade of North American songbirds (Turdidae: Catharus, n = 466) across 17.5° of latitude. We used a nested PCR approach to identify parasites in hemosporidian genera that are transmitted by different dipteran vectors. Then, we implemented linear-mixed effects and generalized dissimilarity models to evaluate the effects of latitude, elevation, and host species on parasite metrics. We found high diversity of hemosporidian parasites in Catharus thrushes (n = 44 lineages) but no evidence of latitudinal gradients in alpha diversity or prevalence. Parasites in the genus Leucocytozoon were most prevalent and lineage rich in this study system; however, there was limited turnover with latitude and host species. Contrastingly, Plasmodium parasites were less prevalent and diverse than Leucocytozoon parasites, yet communities turned over at a higher rate with latitude and host species. Leucocytozoon communities were skewed by the dominance of one or two highly prevalent lineages with broad latitudinal distributions. The few studies that evaluate the hemosporidian LDG do not find consistent patterns of prevalence and diversity, which makes it challenging to predict how they will respond to global climate change.

Division within the North American boreal forest: Ecological niche divergence between the Bicknell's Thrush (Catharus bicknelli) and Gray-cheeked Thrush (C. minimus).

Sister species that diverged in allopatry in similar environments are expected to exhibit niche conservatism. Using ecological niche modeling and a multivariate analysis of climate and habitat data, I test the hypothesis that the Bicknell's Thrush (Catharus bicknelli) and Gray-cheeked Thrush (C. mimimus), sister species that breed in the North American boreal forest, show niche conservatism. Three tree species that are important components of breeding territories of both thrush species were combined with climatic variables to create niche models consisting of abiotic and biotic components. Abiotic-only, abiotic+biotic, and biotic-only models were evaluated using the area under the curve (AUC) criterion. Abiotic+biotic models had higher AUC scores and did not over-project thrush distributions compared to abiotic-only or biotic-only models. From the abiotic+biotic models, I tested for niche conservatism or divergence by accounting for the differences in the availability of niche components by calculating (1) niche overlap from ecological niche models and (2) mean niche differences of environmental values at occurrence points. Niche background similarity tests revealed significant niche divergence in 10 of 12 comparisons, and multivariate tests revealed niche divergence along 2 of 3 niche axes. The Bicknell's Thrush breeds in warmer and wetter regions with a high abundance of balsam fir (Abies balsamea), whereas Gray-cheeked Thrush often co-occurs with black spruce (Picea mariana). Niche divergence, rather than conservatism, was the predominant pattern for these species, suggesting that ecological divergence has played a role in the speciation of the Bicknell's Thrush and Gray-cheeked Thrush. Furthermore, because niche models were improved by the incorporation of biotic variables, this study validates the inclusion of relevant biotic factors in ecological niche modeling to increase model accuracy.

Surveys of Forest Birds on Puerto Rico, 2015.

BACKGROUND: The island of Puerto Rico supports a diverse assemblage of breeding birds, including 16 endemic species (Raffaele et al. 1998), and provides critical wintering habitat for many North American migratory birds (Wunderle and Waide 1994). Despite being a hotspot of avian biodiversity, spatially extensive data on the distribution and abundance of birds on the island are scarce. Breeding-bird assemblages were sampled by the North American Breeding Bird Survey from 1997-2007 (Sauer et al. 2013), but comparable primary data are not available for bird assemblages present during the boreal winter. NEW INFORMATION: We provide data from one of the few spatially extensive surveys of forest birds on Puerto Rico. We sampled 211 locations in forests across the island during January-March 2015 using repeated point-count surveys. These data are suitable for use in estimating abundance, occupancy, and distribution of forest birds on Puerto Rico during the winter.

Primer registro documentado del Zorzal de Dorso Rojizo, Catharus fuscescens (Aves : Turdidae) para Loreto, Perú / First documented record of the Reddish back thrush, Catharus fuscescens (Aves : Turdidae) in Loreto, Peru

Resumen El 5 de octubre del 2019 se capturó un individuo de Catharus fuscescens, como parte de los muestreos mensuales del proyecto Monitoreo de las poblaciones de avifauna en el departamento de Loreto - Perú realizado por el Observatorio de Aves Loreto - LBO en la comunidad de San Rafael, distrito de Indiana, departamento de Loreto. Esta captura representa el primer registro documentado de C. fuscescens para el departamento de Loreto, confirmando la condición sugerida de migrante raro en el extremo noreste del Perú en su paso hacia el sur durante su migración hacia Sudamérica.

Abstract On October 5, 2019, an individual from Catharus fuscescens was captured, as part of the monthly sampling of the project Monitoring of birdlife populations in the department of Loreto - Peru conducted by the Loreto Bird Observatory - LBO in the San Rafael community, Indiana district, department of Loreto. This capture represents the first documentation of C. fuscescens for the department of Loreto, confirming the suggested condition of a rare migrant in the northeastern end of Peru as it moves south as its migration season to South America.

Integrative tracking methods elucidate the evolutionary dynamics of a migratory divide.

Migratory divides, the boundary between adjacent bird populations that migrate in different directions, are of considerable interest to evolutionary biologists because of their alleged role in speciation of migratory birds. However, the small size of many passerines has traditionally limited the tools available to track populations and as a result, restricted our ability to study how reproductive isolation might occur across a divide. Here, we integrate multiple approaches by using genetic, geolocator, and morphological data to investigate a migratory divide in hermit thrushes (Catharus guttatus). First, high genetic divergence between migratory groups indicates the divide is a region of secondary contact between historically isolated populations. Second, despite low sample sizes, geolocators reveal dramatic differences in overwintering locations and migratory distance of individuals from either side of the divide. Third, a diagnostic genetic marker that proved useful for tracking a key population suggests a likely intermediate nonbreeding location of birds from the hybrid zone. This finding, combined with lower return rates from this region, is consistent with comparatively lower fitness of hybrids, which is possibly due to this intermediate migration pattern. We discuss our results in the context of reproductive isolating mechanisms associated with migration patterns that have long been hypothesized to promote divergence across migratory divides.

Research into brazilian thrushes: bibliographies, species and next steps / Pesquisas com sabiás no Brasil: bibliografias, espécies e próximos passos

Synthesis studies are essential for detecting subjects that have not yet been fully explored. Therefore, a scientiometric study was conducted in order to evaluate the state of knowledge about the Turdidae bird family in Brazil. Searches were performed using the software Publish or Perish©. We found 23 papers from the period January 1990 to August 2012 directly involving the bioecological study of thrushes. Some studies were carried out on more than one species, giving a further 31 papers in which taxa of the Turdidae family were included. Using the dominance index, Turdus albicollis, T. amaurochalinus, T. leucomelas and T. rufiventris were considered eudominants. There was a greater frequency of studies based on T. leucomelas (χ ² c. (11.07) = 15.55, df = 5, P < 0.05). Turdus subalaris and Catharus ustulatus have also been studied and found to be subdominant. It was possible to define seven categories as areas of knowledge. From the spatial distribution of the localities (biomes) sampled by studies involving thrushes it was inferred that the most studied species are those having a greater distribution in Brazil. Finally, species naturally more restricted to northern Brazil have been less studied, mainly because most studies involving thrushes have been performed in southern and southeastern Brazil, mainly in the Atlantic Forest and Cerrado biomes.

Trabalhos de síntese são fundamentais para a detecção de campos ainda pouco explorados na ciência. Neste sentido, foi efetuado um estudo cienciométrico avaliando o estado de conhecimento da família de aves Turdidae no Brasil. Foram efetuadas buscas de trabalhos desenvolvidos no Brasil sobre sabiás, para tais buscas foi utilizado o Software Publish or Perish© no recorte temporal de janeiro de 1990 até agosto de 2012. Foram encontrados 23 artigos envolvendo diretamente o estudo bioecológico de sabiás. Alguns destes, efetuados abordando mais de uma espécie, totalizando 31 vezes em que os táxons da família foram contemplados. Através do índice de dominância, Turdus albicollis, T. amaurochalinus, T. leucomelas, e T. rufiventris foram consideradas eudominantes. Houve maior frequência de estudo de T. leucomelas (χ² c. (11,07) = 15,55, gl = 5, P < 0,05). Turdus subalaris e Catharus ustulatus também foram contempladas e consideradas subdominantes. Foi possível definir sete categorias considerando as áreas de conhecimento. É possível inferir através da espacialização dos locais (biomas) amostrados pelos estudos envolvendo turdídeos, que as espécies mais estudadas são também as que possuem maior distribuição no Brasil. Finalmente, espécies com distribuição restrita ao norte brasileiro foram pouco estudadas, devido principalmente, ao fato que a maioria dos estudos envolvendo turdídeos estão concentrados na região Sul e Sudeste do Brasil, desenvolvidos principalmente nos biomas Mata Atlântica e Cerrado.

The role of historical and local factors in determining species composition of the highland avifauna of Costa Rica and Western Panamá / El papel de los factores históricos y locales en la determinación de la composición de especies de la avifauna de las tierras altas de Costa Rica y el oeste de Panamá

The formation of the mountain ranges of Costa Rica and western Panamá, as well as the cold climatic conditions that prevailed during the upper Pleistocene, played a crucial role in determining the bird species composition of the highlands in this region. Glacial conditions favored dispersal movements of bird species from the Andes, and from the Neartic region. Subsequent inter-glacial conditions reduced the connectivity between neotropical highlands (e.g., Talamanca-Andes), and between neotropical highlands and Neartic temperate region, isolating recently established populations from the ancestral populations, and promoting speciation. Within Costa Rica, the highland vegetation and the birds that occupied this vegetation possibly had a continuous distribution throughout all mountain ranges during glacial periods. This vegetation retreated to the summit of the mountains during inter-glacial periods, fragmenting the original continuous bird populations and forming "sky islands", which decrease in size from Talamanca mountains towards the northwestern ranges. The sizes of such islands of available habitat determine the number of highland birds present in each mountain range. Rev. Biol. Trop. 57 (Suppl. 1): 333-349. Epub 2009 November 30.

La formación de las cordilleras en Costa Rica y oeste de Panamá, así como las frías condiciones climáticas que prevalecieron durante la última parte del Pleistoceno, jugaron un papel muy importante en determinar la composición de las especies de aves en las tierras altas de esta región. Las condiciones glaciales favorecieron la dispersión de aves desde los Andes y desde la región Neártica. Las subsecuentes condiciones inter-glaciales redujeron la conectividad entre las zonas altas neotropicales (e.g., Talamanca-Andes) y entre las zonas altas neotropicales y la región templada Neártica, aislando así las poblaciones recientemente establecidas, de las poblaciones ancestrales, fomentando la especiación. Dentro de Costa Rica, la vegetación de zonas altas así como las aves que ocupaban esta vegetación, posiblemente tuvieron una distribución continua a lo largo de todas las cordilleras durante os periodos glaciales. Esta vegetación quedó restringida a la cumbre de las montañas durante los periodos inter-glaciales, fragmentando las poblaciones originales continuas de aves, lo que formó islas en las cumbres de las montañas, las cuales decrecen en tamaño desde la cordillera de Talamanca hacia las cordilleras en el noroeste del país. El tamaño de esas islas con habitat disponible determina el número de especies de aves de zonas altas presente en cada cordillera.