Passerine Research Articles

Exploring the Prevalence and Resistance of Campylobacter in Urban Bird Populations.

The increasing urbanization of ecosystems has had a significant impact on wildlife over the last few years. Species that find an unlimited supply of food and shelter in urban areas have thrived under human presence. Wild birds have been identified as amplifying hosts and reservoirs of Campylobacter worldwide, but the information about its transmission and epidemiology is still limited. This study assessed the prevalence of Campylobacter in 137 urban birds admitted at a wildlife rescue center, with 18.8% of individuals showing positive. C. jejuni was the most frequent species (82.6%), followed by C. coli and C. lari (4.3% each). The order Passeriformes (33.3%) showed significant higher presence of Campylobacter when compared to orders Columbiformes (0%) and Ciconiiformes (17.6%), as well as in samples collected during the summer season (31.9%), from omnivorous species (36.8%) and young individuals (26.8%). Globally, Campylobacter displayed a remarkable resistance to ciprofloxacin (70.6%), tetracycline (64.7%), and nalidixic acid (52.9%). In contrast, resistance to streptomycin was low (5.8%), and all the isolates showed susceptibility to erythromycin and gentamycin. The results underline the importance of urban birds as reservoirs of thermophilic antimicrobial-resistant Campylobacter and contribute to enhancing the knowledge of its distribution in urban and peri-urban ecosystems.

Anaplasma phagocytophilum in urban and peri-urban passerine birds in Ile-de-France

Wild animals in general, birds in particular, play a key role in transporting ticks and propagating tick-borne pathogens. Several studies have confirmed the infection of birds with Anaplasma phagocytophilum, with overall prevalence varying widely from country to country and/or study to study. This zoonotic bacterium, transmitted mainly by ticks of the genus Ixodes, is responsible for granulocytic anaplasmosis in humans (HGA) and domestic animals (cats, dogs, horses). The disease is also called tick-borne fever (TBF) in ruminants. Extremely rare in the USA, TBF is very common in Europe, where it causes economic losses in livestock. Conversely, HGA is well established in the USA whereas only a few less severe cases have been observed in Europe. Current typing techniques support the existence of multiple variants with differences in virulence/pathogenicity and tropism for certain tick and host species. However, epidemiological cycles remain difficult to characterize in Europe. Several studies describe a cycle apparently involving only birds in Europe, but no such study has been conducted in mainland France. Our objectives were to search for A. phagocytophilum in passerine birds in the Ile-de-France region and to explore their diversity using groEL and ankA gene typing and multilocus sequence typing (MLST). Various tissues (spleen, liver, and skin) were collected from cadavers of 680 passerines between March and December 2021. The presence of A. phagocytophilum was detected by qPCR Taqman targeting the msp2 gene. Three blackbirds (Turdus merula) were found positive, representing detection rates of 0.4 % in all birds tested and 3.3 % in blackbirds. The higher frequency of detection in blackbirds could be at least partially explained by their lifestyle, as they feed on the ground. Analysis of the results of groEL and ankA typing and MLST from positive blackbirds support the hypothesis that the avian A. phagocytophilum strains in Ile-de-France are distinct from those found in mammals, and that they form their own cluster in Europe.

Do birds select the plastics debris used for nest construction? A case study in a Mediterranean agricultural landscape

Plastic pollution is becoming a global problem due to its ubiquitous occurrence and the impacts detected for many species. However, the research about plastics in nests of terrestrial bird species has remained relatively overlooked in comparison to those devoted to marine ecosystems. Here we study the occurrence and patterns of use of anthropogenic material in nests of two passerine birds, the Eurasian magpie (Pica pica) and the European serin (Serinus serinus), breeding in an orange tree cultivation in Mediterranean Spain. Our results show that both species use extensively plastic debris as nest material; almost 71% of the European serin nests and 96% of nests of Eurasian magpies contained plastic debris. Furthermore, by analyzing the plastic debris availability in the agricultural landscape surveyed we confirmed a selection pattern in the two species. Thus, both species preferably select plastic filaments over other plastic debris. The Eurasian magpie does not select plastic based on size or color but the European serin avoid black plastics prefer smaller fragments in comparison to the average size available. Moreover, we suggest the apparent similarity of plastic filaments with the natural materials typically used by these species, as well as how they use the plastic in their nests could influence their selection behavior. More studies focused on terrestrial birds inhabiting human modified habitats could offer a deeper approach to how plastic debris interacts with wildlife in different ways.

Macroevolution of the plant-hummingbird pollination system.

Plant-hummingbird interactions are considered a classic example of coevolution, a process in which mutually dependent species influence each other's evolution. Plants depend on hummingbirds for pollination, whereas hummingbirds rely on nectar for food. As a step towards understanding coevolution, this review focuses on the macroevolutionary consequences of plant-hummingbird interactions, a relatively underexplored area in the current literature. We synthesize prior studies, illustrating the origins and dynamics of hummingbird pollination across different angiosperm clades previously pollinated by insects (mostly bees), bats, and passerine birds. In some cases, the crown age of hummingbirds pre-dates the plants they pollinate. In other cases, plant groups transitioned to hummingbird pollination early in the establishment of this bird group in the Americas, with the build-up of both diversities coinciding temporally, and hence suggesting co-diversification. Determining what triggers shifts to and away from hummingbird pollination remains a major open challenge. The impact of hummingbirds on plant diversification is complex, with many tropical plant lineages experiencing increased diversification after acquiring flowers that attract hummingbirds, and others experiencing no change or even a decrease in diversification rates. This mixed evidence suggests that other extrinsic or intrinsic factors, such as local climate and isolation, are important covariables driving the diversification of plants adapted to hummingbird pollination. To guide future studies, we discuss the mechanisms and contexts under which hummingbirds, as a clade and as individual species (e.g. traits, foraging behaviour, degree of specialization), could influence plant evolution. We conclude by commenting on how macroevolutionary signals of the mutualism could relate to coevolution, highlighting the unbalanced focus on the plant side of the interaction, and advocating for the use of species-level interaction data in macroevolutionary studies.

Assessment of biometrics and stress indicators of the adult Village Weaver birds (Ploceus cucullatus) during breeding and post-breeding seasons in Jos, Nigeria

In this era of climate change, some biological conservationists' concerns are based on seasonal studies that highlight how wild birds' physiological fitness are interconnected with the immediate environment to avoid population decline. We investigated how seasonal biometrics correlated to stress parameters of the adult Village Weavers (Ploceus cucullatus) during breeding and post-breeding seasons of the Weaver birds in Amurum Forest Reserve. Specifically, we explored the following objectives: (i) the seasonal number of birds captured; (ii) whether seasonal baseline corticosterone (CORT), packed cell volume (PCV), and heterophil to lymphocytes ratio (H:L) were sex-dependent; (iii) whether H:L ratio varied with baseline (CORT); (iv) whether phenotypic condition (post-breeding moult) and brood patch varied with baseline (CORT) and H:L ratio; and (v) how body biometrics co-varied birds’ seasonal baseline (CORT), (PCV) and (H:L) ratio. Trapping of birds (May–November) coincided with breeding and post-breeding seasons. The birds (n = 53 males, 39 females) were ringed, morphologically assessed (body mass, wing length, moult, brood patch) and blood collected from their brachial vein was used to assess CORT, PCV and H:L ratio. Although our results indicated more male birds trapped during breeding, the multiple analyses of variance (MANOVA) indicated that the seasonal temperature of the trapping sites correlated (P < 0.05) significantly to baseline (CORT). The general linear mixed model analyses (GLMMs) indicated that the baseline (CORT) also correlated significantly to H:L ratio of the male and female birds. However, PCV correlated significantly to body size of the birds (wing length) and not body mass. Haematological parameters such as the baseline CORT and the H:L ratio as indicators of stress in wild birds. Hence, there is the possibility that the Village Weaver birds suffered from seasonally induced stress under the constrained effect of environmental temperature. Hence, future studies should investigate whether the effect observed is also attributable to other passerine species.

Molecular identification and phylogenetic analysis of the mitogenome in endangered giant nuthatch Sitta magna (Passeriformes, Sittidae)

The Giant Nuthatch Sitta magna (family Sittidae) is a passerine bird, the quantification of the number of habitats and species on a global scale remains low. Most species are restricted to low elevations in southwest China, eastern Myanmar, and northern Thailand. To characterize the mitochondrial genome sequence of S. magna and its phylogenetic relationships with other members within the genus Sitta, the mitochondrial genome of S. magna was sequenced using the whole genome shotgun method. The sequencing results showed that the mitochondrial genome was 16,829 bp long and consisted of 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), 2 ribosomal RNA genes (rRNAs), and one control region (D-loop). All tRNAs were predicted to form a typical clover secondary structure. Among the 13 PCGs, only the start codon in COI was ATC, the start codon by the remaining 12 PCGs was ATG, and the stop codons were TAG, TAA, AGG, AGA, and TA. Bayesian inference and maximum likelihood phylogenetic analysis of the sequences of 17 species generated consistent well-supported phylogenies. The family Polioptilidae and the family Troglodytidae were closely related, and the family Sittidae was confined to a single branch. The genus Sitta in the family Sittidae was mainly clustered into three branches. Our findings provide new mitochondrial genomic data that could be used for phylogenetic and taxonomic studies; our results also certificate into the phylogenetic relationships within the genus Sitta ((S. himalayensi+(S. nagaensis + S. europaea))+(S. villosa + S. yunnanensis))+(S. carolinensis + S. magna).

Urbanization alters the geographic patterns of passerine plumage color in China

Urbanization has altered natural landscapes and serves as an environmental filter that selects species with specific traits. Coloration is an important trait associated with biotic interactions and thermoregulation, enabling species’ survival and reproductive success. However, few studies have focused on how species coloration changes in response to urbanization. Here, we used 547 passerine bird species from 42 cities and their corresponding non-urban communities in China to test whether urban species are darker and if they have duller plumage colors than their non-urban counterparts. Furthermore, we examined whether and how urbanization influences avian plumage color homogenization and the extent to which urbanization has altered the strength of the color–latitude geographic pattern in passerine birds across China. We found a 3.2% loss in the coloration space of birds after urbanization, although there were no significant differences in the individual dimensions of colorfulness and lightness between urban and non-urban birds. Avian communities in cities exhibited more plumage color homogenization than those in non-urban communities. There were significant latitudinal gradients in plumage colorfulness and lightness in non-urban communities, but these correlations were weaker in urban communities. Non-urban communities that were more colorful and lighter tended to be duller and darker in urban environments, and vice versa. Our results provide national-scale evidence that urbanization has led to reduced color diversity, increased color-based community similarity, and altered geographic patterns of avian plumage color gradients in China. These findings provide new insights into how rapid human-induced environmental changes have affected animal coloration during the Anthropocene.

Isospora and Lankesterella Parasites (Eimeriidae, Apicomplexa) of Passeriform Birds in Europe: Infection Rates, Phylogeny, and Pathogenicity.

Wild birds are common hosts to numerous intracellular parasites such as single-celled eukaryotes of the family Eimeriidae (order Eucoccidiorida, phylum Apicomplexa). We investigated the infection rates, phylogeny, and pathogenicity of Isospora and Lankesterella parasites in wild and captive passerine birds. Blood and tissue samples of 815 wild and 15 deceased captive birds from Europe were tested using polymerase chain reaction and partial sequencing of the mitochondrial cytochrome b and cytochrome c oxidase I and the nuclear 18S rRNA gene. The infection rate for Lankesterella in wild birds was 10.7% compared to 5.8% for Isospora. Chromogenic in situ hybridization with probes targeting the parasites' 18S rRNA was employed to identify the parasites' presence in multiple organs, and hematoxylin-eosin staining was performed to visualize the parasite stages and assess associated lesions. Isospora parasites were mainly identified in the intestine, spleen, and liver. Extraintestinal tissue stages of Isospora were accompanied by predominantly lymphohistiocytic inflammation of varying severity. Lankesterella was most frequently detected in the spleen, lung, and brain; however, infected birds presented only a low parasite burden without associated pathological changes. These findings contribute to our understanding of Isospora and Lankesterella parasites in wild birds.

Diversity, richness, and evenness of birds in Rana Resort Forest, District Kasur, Punjab, Pakistan.

This research was carried out to determine avian diversity in the Rana Resort Forest from June to August 2023. A total of 655 birds were observed; these birds belonged to 36 different species from 11 orders; 27 families and 36 genera were found in the forest. The observed avian species that belong to the Muscicapidae family had the highest number of species, while Strigidae had the lowest number of species. The highest numbers of the order Passeriformes were recorded. Among the bird species observed, 33 were residents, 1 was a winter visitor, and 2 were summer breeders. The species diversity, richness, and evenness indices are 3.5238, 5.3973, and 0.10492, respectively. According to the index results, the Rana Resort Forest is a diverse area, but the species are not evenly distributed due to some of the threats observed during the study, such as habitat destruction, poverty, and unawareness.

Genes and gene networks underlying spatial cognition in food-caching chickadees

Substantial progress has been made in understanding the genetic architecture of phenotypes involved in a variety of evolutionary processes. Behavioral genetics remains, however, among the least understood. We explore the genetic architecture of spatial cognitive abilities in a wild passerine bird, the mountain chickadee (Poecile gambeli). Mountain chickadees cache thousands of seeds in the fall and require specialized spatial memory to recover these caches throughout the winter. We previously showed that variation in spatial cognition has a direct effect on fitness and has a genetic basis. It remains unknown which specific genes and developmental pathways are particularly important for shaping spatial cognition. To further dissect the genetic basis of spatial cognitive abilities, we combine experimental quantification of spatial cognition in wild chickadees with whole-genome sequencing of 162 individuals, a new chromosome-scale reference genome, and species-specific gene annotation. We have identified a set of genes and developmental pathways that play a key role in creating variation in spatial cognition and found that the mechanism shaping cognitive variation is consistent with selection against mildly deleterious non-coding mutations. Although some candidate genes were organized into connected gene networks, about half do not have shared regulation, highlighting that multiple independent developmental or physiological mechanisms contribute to variation in spatial cognitive abilities. A large proportion of the candidate genes we found are associated with synaptic plasticity, an intriguing result that leads to the hypothesis that certain genetic variants create antagonism between behavioral plasticity and long-term memory, each providing distinct benefits depending on ecological context.

Toxic to the touch: The makings of lethal mantles in pitohui birds and poison dart frogs.

How do chemically defended animals resist their own toxins? This intriguing question on the concept of autotoxicity is at the heart of how species interactions evolve. In this issue of Molecular Ecology (Molecular Ecology, 2024, 33), Bodawatta and colleagues report on how Papua New Guinean birds coopted deadly neurotoxins to create lethal mantles that protect against predators and parasites. Combining chemical screening of the plumage of a diverse collection of passerine birds with genome sequencing, the researchers unlocked a deeper understanding of how some birds sequester deadly batrachotoxin (BTX) from their food without poisoning themselves. They identified that birds impervious to BTX bear amino acid substitutions in the toxin-binding site of the voltage-gated sodium channel Nav1.4, whose function is essential for proper contraction and relaxation of vertebrate muscles. Comparative genetic and molecular docking analyses show that several of the substitutions associated with insensitivity to BTX may have become prevalent among toxic birds through positive selection. Intriguingly, poison dart frogs that also co-opted BTX in their lethal mantles were found to harbour similar toxin insensitivity substitutions in their Nav1.4 channels. Taken together, this sets up a powerful model system for studying the mechanisms behind convergent molecular evolution and how it may drive biological diversity.

New data on the nesting sites selection and breeding success of three bird species in the riparian vegetation of Northwest African rivers

Many avian species partition feeding and breeding resources to avoid competition for nesting and food elements. This competition frequently leads to the segregation of space and time use among cohabiting species. The breeding requirements of coexisting species and drivers of segregation are poorly understood in passerine birds. In this study, we monitored nesting habitats, nest placement, and breeding success among two passerine birds, Hippolais polyglotta and Turdus merula, and the Columbidae species Streptopelia turtur arenicola, in rivers of the upper Moulouya (Morocco) Mountains to examine the levels of habitat partitioning, success rates, and governing factors during the breeding season. We recorded the nests, nesting sites, nest placements, and success rates of the studied species along three rivers during 2017 and 2019. Our results revealed important breeding activity in the studied birds, with 420 nests of H. polyglotta and 88 nests of T. merula, compared to 99 nests of S. t. arenicola. Nest niches were segregated between passerines and Columbidae and within passerines. Nesting sites were segregated along sections of rivers except for nests of H. polyglotta, which were shared between upstream and intermediate zones. Nest substrates were partially segregated among the three species; nests of H. polyglotta and S. t. arenicola were commonly constructed on Crataegus monogyna and Rosa canina substrates, while nests of T. merula were on Salix sp. Similarly, vertical placements of nests were segregated among birds. Breeding success rates differed among birds (94.44% in T. merula, 87.88% in H. polyglotta, and 55.56% in S. t. arenicola) due to human and natural factors. Finally, this study confirmed the first breeding case of H. polyglotta on the southern slope of the Mediterranean and provided new insight into nest niches in cohabiting passerines and Columbidae species cobred in riparian vegetation in Morocco and the entire region of North Africa. However, future investigations are required to understand the main reasons behind the selection of nesting habitats for passerine species, particularly in farmlands.

Adaptive expansion of ERVK solo-LTRs is associated with Passeriformes speciation events

Endogenous retroviruses (ERVs) are ancient retroviral remnants integrated in host genomes, and commonly deleted through unequal homologous recombination, leaving solitary long terminal repeats (solo-LTRs). This study, analysing the genomes of 362 bird species and their reptilian and mammalian outgroups, reveals an unusually higher level of solo-LTRs formation in birds, indicating evolutionary forces might have purged ERVs during evolution. Strikingly in the order Passeriformes, and especially the parvorder Passerida, endogenous retrovirus K (ERVK) solo-LTRs showed bursts of formation and recurrent accumulations coinciding with speciation events over past 22 million years. Moreover, our results indicate that the ongoing expansion of ERVK solo-LTRs in these bird species, marked by high transcriptional activity of ERVK retroviral genes in reproductive organs, caused variation of solo-LTRs between individual zebra finches. We experimentally demonstrated that cis-regulatory activity of recently evolved ERVK solo-LTRs may significantly increase the expression level of ITGA2 in the brain of zebra finches compared to chickens. These findings suggest that ERVK solo-LTRs expansion may introduce novel genomic sequences acting as cis-regulatory elements and contribute to adaptive evolution. Overall, our results underscore that the residual sequences of ancient retroviruses could influence the adaptive diversification of species by regulating host gene expression.

Trace metal transfer to passerines inhabiting wastewater treatment wetlands

Wastewater treatment wetlands are cost-effective strategies for remediating trace metals in industrial effluent. However, biogeochemical exchange between wastewater treatment wetlands and adjacent environments provides opportunities for trace metals to cycle in surrounding ecosystems. The transfer of trace metals to wildlife inhabiting treatment wetlands must be considered when evaluating wetland success. Using passerine birds as bioindicators, we conducted a multi-tissue analysis to investigate the mobilization of zinc, copper, and lead derived from wastewater to terrestrial wildlife in treatment wetlands and surrounding habitat. In addition, we evaluate the strength of relationships between metal concentrations in non-lethal (blood and feathers) and lethal (muscle and liver) sample types for estimation of toxicity risk. From July 2020 to August 2021, 177 passerines of seven species were captured at two wetlands constructed to treat industrial wastewater and two reference wetlands in the coastal plain of South Carolina. Feather, blood, liver, and muscle samples from each bird were analyzed for fourteen metals using inductively coupled plasma mass spectrometry and direct mercury analysis. Passerines inhabiting wastewater treatment wetlands accumulated higher concentrations of zinc in liver, copper in blood, and lead in feathers than passerines in reference wetlands, but neither blood nor feather concentrations were correlated with internal tissue concentrations. Of all the detected metals, only mercury in the blood showed a strong predictive relationship with mercury in internal tissues. This study indicates that trace metals derived from wastewater are bioavailable and exported to terrestrial wildlife and that passerine biomonitoring is a valuable tool for assessing metal transfer from treatment wetlands. Regular blood sampling can reveal proximate trace metal exposure but cannot predict internal body burdens for most metals.

Unveiling the avian community structure, habitat preference, and conservation concerns in the sal forest of central bangladesh

A study on avifaunal diversity was conducted in Bhawal National Park, Gazipur, Bangladesh, from November 2020 to October 2021 using direct field observation. The study area was divided into five sites based on the habitat structure. A total of 138 bird species and 1,808 individuals were directly counted, representing 17 orders and 49 families. The order Passeriformes and the family Cuculidae had the highest number of species. During the winter season, the richness, abundance, and diversity was the maximum (116 species, 1132 individuals, H= 4.151, Ds= 0.976), with resident bird surpassing migratory species. Among the five study sites, the deep forest area exhibited the greatest number of bird species (75 species, H= 3.983, Ds= 0.975) and trees were the used microhabitat for the birds (101 species, 1521 individuals, H= 4.1, Ds= 0.977). Jungle Babbler (Turdoides striata) had the maximum relative abundance and the ten most abundant species constituted 36.7% of total individuals. A total of 25 habitat generalist species was observed using more than one habitat during the study, while the rest were found in single habitat. Among all the bird species, 136 were Least Concern, one was Near Threatened, and one was Data Deficient. Based on the observation status, it was determined that the majority of bird species (97 species, 70.28%) were classified as few, while 25 species (18.11%) were as uncommon, 12 species (8.69%) as common, and 4 species (2.89%) as very common. The area was noted for its widespread use for recreational activities, and the disturbance caused by visitors lacking awareness poses a significant threat to the local bird population and biodiversity.&#x0D; Dhaka Univ. J. Biol. Sci. 33(1): 1-21, 2024 (January)

Gene expression variation in geographically diverse populations of two North American songbird species

The range distributions of many bird species cover extensive geographic distances, exposing each local population to unique ecological challenges. Understanding the molecular basis of how species adapt to diverse habitats across their geographic range is crucial for identifying populations at risk and implementing effective conservation strategies. In this study, we employed two passerine species, the black-capped chickadee (Poecile atricapillus) and the American goldfinch (Spinus tristis), which are widely distributed across North America. This study focused on examining changes in gene expression within their distinct populations inhabiting diverse habitats across various geographical locations. A comparative transcriptomic study was conducted on wild-caught birds from two geographically separate locations, Boston, Massachusetts, and Kent, Ohio, characterized by considerable annual variability in winter severity. We tested the hypothesis that populations of both species in Kent and Boston would show differential gene expression patterns in their brains in response to unique local environmental conditions. Analyzing the differentially expressed genes (DEGs) in black-capped chickadees revealed associations with neural processes such as the generation and maintenance of neurons, activity-dependent plasticity, and cognitive ability. Many of these genes were linked to brain variation in chickadee populations related to spatial cognition associated with food caching. We also compared changes in gene expression levels with coding sequence variability to explore the underlying basis of differential gene expression patterns. We tested the hypothesis that expression differences are driven by underlying genetic variation. A population genetic analysis on transcriptome data from both species revealed no highly divergent genetic variants (single nucleotide polymorphisms or SNPs) in the coding regions of genes identified as differentially expressed. However, some of the DEGs themselves were transcription factors or regulatory molecules, as were some of the genes with highly divergent SNPs. These findings suggest that the genetic architecture underlying the differential gene expression patterns is mostly regulatory rather than protein-coding changes.

Prevalence, genotypes, and infection risk factors of psittacine beak and feather disease virus and budgerigar fledgling disease virus in captive birds in Hong Kong

Psittacine beak and feather disease virus (PBFDV) and budgerigar fledgling disease virus (BFDV) are significant avian pathogens that threaten both captive and wild birds, particularly parrots, which are common hosts. This study involved sampling and testing of 516 captive birds from households, pet shops, and an animal clinic in Hong Kong for PBFDV and BFDV. The results showed that PBFDV and BFDV were present in 7.17% and 0.58% of the samples, respectively. These rates were lower than those reported in most parts of Asia. Notably, the infection rates of PBFDV in pet shops were significantly higher compared to other sources, while no BFDV-positive samples were found in pet shops. Most of the positive samples came from parrots, but PBFDV was also detected in two non-parrot species, including Swinhoe’s white-eyes (Zosterops simplex), which had not been reported previously. The ability of PBFDV to infect both psittacine and passerine birds is concerning, especially in densely populated urban areas such as Hong Kong, where captive flocks come into close contact with wildlife. Phylogenetic analysis of the Cap and Rep genes of PBFDV revealed that the strains found in Hong Kong were closely related to those in Europe and other parts of Asia, including mainland China, Thailand, Taiwan, and Saudi Arabia. These findings indicate the presence of both viruses among captive birds in Hong Kong. We recommend implementing regular surveillance for both viruses and adopting measures to prevent contact between captive and wild birds, thereby reducing the transmission of introduced diseases to native species.

Rolling with the punches—How competition shapes the morphology of small passerines on small islands

AbstractAimWallacea is a global biodiversity hotspot and Sulawesi is the largest island in this region, notable for a high proportion of endemic species. The Wakatobi archipelago, off the southeastern peninsular arm of Sulawesi, is home to several endemic bird species. Although islands are known to influence the morphology of their resident species, competitive interactions also exert strong influences on morphology. Here, we consider the contributions of both islands and competitors on two morphological traits of two bird species in a small passerine guild found on the Wakatobi islands.LocationWakatobi archipelago, Sulawesi Tenggara, Indonesia.TaxonWakatobi White‐eye (Zosterops flavissimus) and Wakatobi Sunbird (Cinnyris infrenatus).MethodsWorking with morphological measures (from netting studies), population density metrics (from transect surveys) and fundamental data from islands (area, distance from mainland and elevation), we investigated (by means of multiple linear regression) which terms best explained variation in the body size and bill size of two small passerine birds endemic to the Wakatobi islands.ResultsBoth island metrics and competitor presence/density were useful in describing the variation in body size of both bird species. However, only competitor presence/density was useful in describing variation in bill size of the birds. The best models describing variation in these traits included terms representing both interspecific and intraspecific competition.Main ConclusionsOur findings indicate that simple island metrics may be useful in predicting some of the variation in some functional traits of island species. However, in this example, simple island metrics were insufficient to explain the full variation in body size of endemic birds across the Wakatobi archipelago and were of no use in predicting the variation in their bill size. As bill morphology frequently dictates diet and feeding niche, it is a trait which may determine population divergence and speciation. If simple island metrics fail to describe such diversification, it is surely important to capture that information in other ways.

Remarkably High Repeat Content in the Genomes of Sparrows: The Importance of Genome Assembly Completeness for Transposable Element Discovery.

Transposable elements (TE) play critical roles in shaping genome evolution. Highly repetitive TE sequences are also a major source of assembly gaps making it difficult to fully understand the impact of these elements on host genomes. The increased capacity of long-read sequencing technologies to span highly repetitive regions promises to provide new insights into patterns of TE activity across diverse taxa. Here we report the generation of highly contiguous reference genomes using PacBio long-read and Omni-C technologies for three species of Passerellidae sparrow. We compared these assemblies to three chromosome-level sparrow assemblies and nine other sparrow assemblies generated using a variety of short- and long-read technologies. All long-read based assemblies were longer (range: 1.12 to 1.41 Gb) than short-read assemblies (0.91 to 1.08 Gb) and assembly length was strongly correlated with the amount of repeat content. Repeat content for Bell's sparrow (31.2% of genome) was the highest level ever reported within the order Passeriformes, which comprises over half of avian diversity. The highest levels of repeat content (79.2% to 93.7%) were found on the W chromosome relative to other regions of the genome. Finally, we show that proliferation of different TE classes varied even among species with similar levels of repeat content. These patterns support a dynamic model of TE expansion and contraction even in a clade where TEs were once thought to be fairly depauperate and static. Our work highlights how the resolution of difficult-to-assemble regions of the genome with new sequencing technologies promises to transform our understanding of avian genome evolution.

High prevalence of haemosporidian parasites in Eurasian jays

Avian haemosporidians are vector-borne parasites, infecting a great variety of birds. The order Passeriformes has the highest average infection probability; nevertheless, some common species of Passeriformes have been rather poorly studied. We investigated haemosporidians in one such species, the Eurasian jay Garrulus glandarius (Corvidae), from a forest population in Hesse, Central Germany. All individuals were infected with at least one haemosporidian genus (overall prevalence: 100%). The most common infection pattern was a mixed Haemoproteus and Leucocytozoon infection, whereas no Plasmodium infection was detected. Results on lineage diversity indicate a rather pronounced host-specificity of Haemoproteus and Leucocytozoon lineages infecting birds of the family Corvidae.