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Global warming is one of the primary drivers of habitat loss and population decline in numerous species, including birds, amphibians and marine life. Avian embryos exhibit ectothermic phenotypes during most of their incubation period and are also vulnerable to rising temperatures when parents cannot cool the nests. This vulnerability stems from their unique respiratory mechanisms, which utilize eggshell pores to exchange respiratory gases. The number of pores is fixed at oviposition, and embryos may experience hypoxia during later developmental stages, especially when exposed to elevated ambient/incubation temperatures. Our preliminary study on zebra finch (Taeniopygia guttata castanotis) embryos, where we covered 30% of the shell surface with beeswax and incubated at high (38.9°C) temperature, revealed that half of the individuals that failed to hatch had developed oedema in the hind neck region. This study shows that such physical anomalies occur during incubation prior to death. We found that embryos with oedema had a higher head-to-body ratio, independent of their relative brain mass. Furthermore, oedema formation was correlated with darker-coloured hearts, suggesting reduced blood oxygenation in these embryos. These results highlight the physiological challenges embryos face under suboptimal incubation conditions. This article is part of the theme issue 'The biology of the avian respiratory system'. [ABSTRACT FROM AUTHOR]

Avian vocalizations are produced by precisely coordinated motion of the respiratory, syringeal and upper vocal tract systems. Syringeal muscles are controlled with unprecedented resolution, down to independent control of individual muscle fibres. However, we currently lack an anatomical description of syrinx muscles at single fibre resolution. Here, we combined a micron-resolution synchrotron X-ray CT scan of the zebra finch syrinx with micro-dissections of independent specimens to resolve syrinx muscle morphology at individual muscle fibre level. We define two new, previously unknown muscles and update the fibre trajectories and attachment sites of three previously described muscles. Our new insights into the fine anatomy of syrinx muscles show that not one, but both avian vocal folds can be directly controlled by contracting syrinx muscles. Thus, our data reveal novel anatomical complexity with consequences for the biomechanics and motor control of sound production. This article is part of the theme issue 'The biology of the avian respiratory system'. [ABSTRACT FROM AUTHOR]

The common avian origin of many zoonotic infections and epidemics warrants investigation into the mechanism of respiratory surface protection in reservoir species such as birds. Our recent molecular investigations on the evolution and pulmonary expression of an ancient family of proteins, the C-type lectins, have revealed unique molecular adaptations in the surfactant proteins avian SP-A1 (aSP-A1), aSP-A2 and aSP-C coupled with the loss of surfactant protein-D (SP-D) in the avian lineage. As surfactant proteins are members of the collectin family, a subgroup of the C-type lectins, an in silico search for related non-surfactant collectin proteins (Collectin-10 (CL-10) and Collectin-11 (CL-11)) in the NCBI genome database was conducted to understand their evolution in the avian lineage. In addition, both CL-10 and CL-11 gene expression in the lungs and other organs of zebra finches and turkeys was confirmed by PCR. These PCR-confirmed zebra finch and turkey CL-10 and CL-11 sequences were compared with sequenced and in silico-predicted vertebrate homologues to develop a phylogenetic tree. Compared with avian surfactant proteins, CL-10 and CL-11 are highly conserved among vertebrates, suggesting a critical role in development and innate immune protection. The conservation of CL-11 EPN and collagen domain motifs may compensate to some extent for the loss of SP-D in the avian lineage. This article is part of the theme issue 'The biology of the avian respiratory system'. [ABSTRACT FROM AUTHOR]

The avian respiratory system has been an area of biological interest for centuries, with zebra finches (Taeniopygia castanotis) emerging in recent decades as a primary avian model organism popularized across numerous disciplines. The pulmonary system of birds is unique in that air moves unidirectionally through the gas-exchanging lung, and previous works have suggested anatomical constraints within the bronchial network that may be coupled to the inspiratory valving mechanism in Aves. We used µCT-based segmented models to visualize and describe the morphology of the zebra finch lower respiratory system and to examine intra- and interspecific differences of the bronchial tree with the phylogenetically and ecologically different African grey parrot (Psittacus erithacus). Here, we show that zebra finches have highly variable lung and air sac morphology within individuals but generally do not diverge from the anatomical bauplan previously described for passerines. Additionally the parabronchi in the zebra finch lung are arranged into isolated segments between secondary bronchi, which has not been described and may be coupled with airflow patterns in this species. Both zebra finches and African grey parrots show constrained interostial distances and robust, caudally directed third ventrobronchi that may play an unexplored role in the unidirectional airflow patterns of birds. This article is part of the theme issue 'Biology of the avian respiratory system: development, evolutionary morphology, function and clinical considerations'. [ABSTRACT FROM AUTHOR]

In this review, we evaluate the differences between the pulmonary anatomy of birds and other sauropsids, specifically those traits that make the avian respiratory system distinct: a fully decoupled and immobilized, isovolumetric gas-exchanging lung separated from compliant ventilatory air sacs by a horizontal septum. Imaging data, three-dimensional digital anatomical models and dissection images from a red-tailed hawk (Buteo jamaicensis), common ostrich (Struthio camelus), barred owl (Strix varia), African grey parrot (Psittacus erithacus) and zebra finch (Taeniopygia castanotis) are used to demonstrate the anatomical variation seen in the pulmonary air sacs, diverticula and the horizontal septum. We address the current state of knowledge regarding the avian respiratory system and the myriad areas that require further study, including the comparative and quantitative ecomorphology of the bronchial tree and air sacs, the non-ventilatory functions of the sacs and diverticula, the fluid dynamics and anatomical mechanisms underlying unidirectional airflow, post-cranial skeletal pneumaticity, and how all of these factors impact reconstructions of respiratory tissues in extinct archosaurs, particularly ornithodirans (i.e. pterosaurs + non-avian dinosaurs). Specifically, we argue that without evidence for the horizontal septum, a fully avian lung should not be reconstructed in non-avian ornithodirans, despite the presence of post-cranial skeletal pneumaticity. This article is part of the theme issue 'The biology of the avian respiratory system'. [ABSTRACT FROM AUTHOR]

Sensory experience during development has lasting effects on perception and neural processing. Exposing juvenile animals to artificial stimuli influences the tuning and functional organization of the auditory cortex, but less is known about how the rich acoustical environments experienced by vocal communicators affect the processing of complex vocalizations. Here, we show that in zebra finches (Taeniopygia guttata), a colonial-breeding songbird species, exposure to a naturalistic social-acoustical environment during development has a profound impact on auditory perceptual behavior and on cortical-level auditory responses to conspecific song. Compared to birds raised by pairs in acoustic isolation, male and female birds raised in a breeding colony were better in an operant discrimination task at recognizing conspecific songs with and without masking colony noise. Neurons in colony-reared birds had higher average firing rates, selectivity, and discriminability, especially in the narrow-spiking, putatively inhibitory neurons of a higher-order auditory area, the caudomedial nidopallium (NCM). Neurons in colony-reared birds were also less correlated in their tuning, more efficient at encoding the spectro-temporal structure of conspecific song, and better at filtering out masking noise. These results suggest that the auditory cortex adapts to noisy, complex acoustical environments by strengthening inhibitory circuitry, functionally decoupling excitatory neurons while maintaining overall excitatory-inhibitory balance. [ABSTRACT FROM AUTHOR]

Neurogenesis is an active process of creating new neurons in the neurogenic zone. It is influenced by many factors, including the circadian system, which is synchronized by light. Neurogenesis in laboratory rodents peaks at night, and the rodents are nocturnal, contrary to humans that are active during the day. Here, we studied whether proliferation and apoptosis exhibit a daily rhythm in the brain of the diurnal songbird zebra finch (Taeniopygia guttata) and whether the cell proliferation peaks during the dark phase of the day, as in rodents. We injected the birds with the cell proliferation marker 5-ethynyl-2´-deoxyuridine (EdU; thymidine analog), quantified the number of dividing cells in the neurogenic ventricular zone (VZ), and measured mRNA expression of clock genes as well as genes indicating cell proliferation or apoptosis. First, we confirmed the daily rhythms of the clock genes. Next we found that proliferation along the whole VZ did not exhibit a daily rhythm. However, proliferation in the central ventral part of the VZ, i.e. "the hot-spot" area, showed a daily rhythm of proliferation. The highest number of newborn cells was detected in the dark phase of the day. The relative expression of the apoptotic genes caspase 3, Bcl-2, and Bax as well as the proliferating cell nuclear antigen (PCNA) did not show any rhythm. In summary, our results show that cell proliferation in the "hot-spot" region of the VZ in diurnal songbirds shows rhythmic activity over a period of 24 h and that the maximum cell proliferation occurs in the passive phase. This study may have implications for understanding the mechanisms underlying the daily regulation of brain cell proliferation in different species. [ABSTRACT FROM AUTHOR]

Social and sensory experiences across the lifespan can shape social interactions; however, experience-dependent plasticity is widely studied within discrete life stages. In the socially monogamous zebra finch, in which females use learned vocal signals to identify individuals and form long-lasting pair bonds, developmental exposure to song is key for females to show species-typical song perception and preferences. Although adult mating experience can still lead to pair-bonding and song preference learning even in birds with limited previous song exposure ("song-naive"), whether similarities in adult behavioral plasticity between normally reared and song-naive females reflect convergent patterns of neural activity is unknown. We investigated this using expression of a marker of neural activity and plasticity [phosphorylated S6 (pS6)] in mated normally reared and song-naive females in response to song from either their mate, a neighbor, or an unfamiliar male. We found that, in portions of a secondary auditory region (the caudomedial nidopallium, NCM) and in dopaminergic neurons of the caudal ventral tegmental area, hearing the mate's song significantly increased pS6 expression in females from both rearing conditions. In contrast, within other NCM subregions, song identity drove different patterns of pS6 expression depending on the rearing condition. These data suggest that developmental experiences can have long-lasting impacts on the neural signatures of behaviors acquired in adulthood and that socially driven behavioral plasticity in adults may arise through both shared and divergent neural circuits depending on an individual's developmental experiences. NEW & NOTEWORTHY: Social and sensory experiences across the lifespan can shape social interactions. Female zebra finches form long-lasting social bonds with a male mate and preferences for his song; however, few studies have investigated how neural responses to the mate's song compare to responses to familiar or unfamiliar songs. We found multiple regions that differentially respond to the song of the mate, and, in some of these regions, responses were modulated by the female's previous auditory experience. [ABSTRACT FROM AUTHOR]

Delta-opioid receptors (δ-ORs) are known to be involved in associative learning and modulating motivational states. We wanted to study if they were also involved in naturally-occurring reinforcement learning behaviors such as vocal learning, using the zebra finch model system. Zebra finches learn to vocalize early in development and song learning in males is affected by factors such as the social environment and internal reward, both of which are modulated by endogenous opioids. Pairs of juvenile male siblings (35-day-old) were systemically administered a δ-OR-selective antagonist naltrindole or vehicle (controls) for a period of 10 days. The acoustic structure of songs differed across treated and control groups at adulthood (120 days). Naltrindole-treated birds had a significantly lower pitch, mean frequency, and frequency modulation than controls, whereas there was no difference in the number of songs in naltrindole-treated and control siblings. Since the opioid and dopaminergic systems interact, we decided to study whether blocking δ-ORs during the sensitive period led to changes in dopaminoceptive neurons in Area X, a song control nucleus in the basal ganglia. Interestingly, compared with controls, naltrindole-treated birds had higher numbers of DARPP-32-positive medium spiny neurons and potentially excitatory synapses in Area X. We show that manipulating δ-OR signaling during the learning phase resulted in alterations in the acoustic features of song and had long term effects on dopaminergic targets within the basal ganglia in adulthood. Our results suggest that endogenous opioids regulate the development of cognitive processes and the underlying neural circuitry during the sensitive period for learning. [ABSTRACT FROM AUTHOR]

The accurate and reliable performance of learned vocalizations (e.g., speech and birdsong) modulates the efficacy of communication in humans and songbirds. Consequently, it is critical to understand the factors that regulate the performance of learned vocalizations. Across taxa, neural circuits underlying motor learning and control are replete with perineuronal nets (PNNs), and we analyzed how PNNs in vocal motor circuitry regulate the performance of learned song in zebra finches. We report that developmental increases in PNN expression in vocal circuitry are associated with developmental increases in song stereotypy. We also document that enzymatically degrading PNNs in the motor nucleus HVC acutely altered song structure (changes in syllable sequencing and production). Collectively, our data reveal a causal contribution of PNNs to the performance of learned behaviors and, given the parallels in the regulation of birdsong and speech, suggest that PNNs in motor circuitry could modulate speech performance. Manipulating perineuronal nets (PNNs) in the motor nucleus HVC of zebra finches alters the structure of vocalizations acquired during development, highlighting a causal contribution of PNNs in motor circuitry to the performance of learned behaviors. [ABSTRACT FROM AUTHOR]

The amniote pallium, a vital component of the forebrain, exhibits considerable evolutionary divergence across species and mediates diverse functions, including sensory processing, memory formation, and learning. However, the relationships among pallial subregions in different species remain poorly characterized, particularly regarding the identification of homologous neurons and their transcriptional signatures. In this study, we utilized singlenucleus RNA sequencing to examine over 130  000 nuclei from the macaque (Macaca fascicularis) neocortex, complemented by datasets from humans (Homo sapiens), mice (Mus musculus), zebra finches (Taeniopygia guttata), turtles (Chrysemys picta bellii), and lizards (Pogona vitticeps), enabling comprehensive cross-species comparison. Results revealed transcriptomic conservation and species-specific distinctions within the amniote pallium. Notable similarities were observed among cell subtypes, particularly within PVALB+ inhibitory neurons, which exhibited species-preferred subtypes. Furthermore, correlations between pallial subregions and several transcription factor candidates were identified, including RARB, DLX2, STAT6, NR3C1, and THRB, with potential regulatory roles in gene expression in mammalian pallial neurons compared to their avian and reptilian counterparts. These results highlight the conserved nature of inhibitory neurons, remarkable regional divergence of excitatory neurons, and species-specific gene expression and regulation in amniote pallial neurons. Collectively, these findings provide valuable insights into the evolutionary dynamics of the amniote pallium. [ABSTRACT FROM AUTHOR]

Despite the wide use of zebra finches as an animal model to study vocal learning and production, little is known about impacts on their welfare caused by routine experimental manipulations such as changing their social context. Here we conduct a post-hoc analysis of singing rate, an indicator of positive welfare, to gain insights into stress caused by social isolation, a common experimental manipulation. We find that isolation in an unfamiliar environment reduces singing rate for several days, indicating the presence of an acute stressor. However, we find no such decrease when social isolation is caused by either removal of a social companion or by transfer to a familiar environment. Furthermore, during repeated brief periods of isolation, singing rate remains high when isolation is induced by removal of social companions, but it fails to recover from a suppressed state when isolation is induced by recurrent transfer to an unknown environment. These findings suggest that stress from social isolation is negligible compared to stress caused by environmental changes and that frequent short visits of an unfamiliar environment are detrimental rather than beneficial. Together, these insights can serve to refine experimental studies and design paradigms maximizing the birds' wellbeing and vocal output. [ABSTRACT FROM AUTHOR]

The acquisition of an acoustic template is a fundamental component of vocal imitation learning, which is used to refine innate vocalizations and develop a species-specific song. In the absence of a model, birds fail to develop species typical songs. In zebra finches (Taeniopygia guttata), tutored birds produce songs with a stereotyped sequence of distinct acoustic elements, or notes, which form the song motif. Songs of untutored individuals feature atypical acoustic and temporal structure. Here we studied songs and associated respiratory patterns of tutored and untutored male zebra finches to investigate whether similar acoustic notes influence the sequence of song elements. A subgroup of animals developed songs with multiple acoustically similar notes that are produced with alike respiratory motor gestures. These birds also showed increased syntactic variability in their adult motif. Sequence variability tended to occur near song elements which showed high similarity in acoustic structure and underlying respiratory motor gestures. The duration and depth of the inspirations preceding the syllables where syntactic variation occurred did not allow prediction of the following sequence of notes, suggesting that the varying duration and air requirement of the following expiratory pulse is not predictively encoded in the motor program. This study provides a novel method for calculation of motor/acoustic similarity, and the results of this study suggest that the note is a fundamental acoustic unit in the organization of the motif and could play a role in the neural code for song syntax. [ABSTRACT FROM AUTHOR]

The diversity of germ cell developmental strategies has been well documented across many vertebrate clades. However, much of our understanding of avian primordial germ cell (PGC) specification and differentiation has derived from only one species, the chicken (Gallus gallus). Of the three major classes of birds, chickens belong to Galloanserae, representing less than 4% of species, while nearly 95% of extant bird species belong to Neoaves. This represents a significant gap in our knowledge of germ cell development across avian species, hampering efforts to adapt genome editing and reproductive technologies developed in chicken to other birds. We therefore applied single-cell RNA sequencing to investigate inter-species differences in germ cell development between chicken and zebra finch (Taeniopygia castanotis), a Neoaves songbird species and a common model of vocal learning. Analysis of early embryonic male and female gonads revealed the presence of two distinct early germ cell types in zebra finch and only one in chicken. Both germ cell types expressed zebra finch Germline Restricted Chromosome (GRC) genes, present only in songbirds among birds. One of the zebra finch germ cell types expressed the canonical PGC markers, as did chicken, but with expression differences in several signaling pathways and biological processes. The second zebra finch germ cell cluster was marked by proliferation and fate determination markers, indicating beginning of differentiation. Notably, these two zebra finch germ cell populations were present in both male and female zebra finch gonads as early as HH25. Using additional chicken developmental stages, similar germ cell heterogeneity was identified in the more developed gonads of females, but not males. Overall, our study demonstrates a substantial heterochrony in zebra finch germ cell development compared to chicken, indicating a richer diversity of avian germ cell developmental strategies than previously known. [Display omitted] • Comparative scRNAseq of avian gonads shows differences in germ cell (GC) development. • After migration, chicken GCs are all NANOG+, while zebra finch GCs are NANOG + or FOXL2L+. • Zebra finch GC clusters mirror gene expression profiles of later chicken female GCs. • Both male and female zebra finch GCs show early differentiation, unlike chicken GCs. • Germline Restricted Chromosome genes are dynamically expressed in zebra finch GCs. [ABSTRACT FROM AUTHOR]

Harsh early environmental conditions can exert delayed, long‐lasting effects on phenotypes, including reproductive traits such as sexual signals. Indeed, adverse early conditions can accelerate development, increasing oxidative stress that may, in turn, impact adult sexual signals. Among signals, colorations produced by red ketocarotenoids seem to depend on mitochondrial functioning. Hence, they could reveal individual cell respiration efficiency. It has been hypothesized that these traits are unfalsifiable "index" signals of condition due to their deep connection to individual metabolism. Since mitochondrial dysfunction is frequently linked to aging, red ketocarotenoid‐based ornaments could also be good signals of a critical fitness component: longevity. We tested this red color per longevity correlation in captive zebra finches. In addition, we experimentally decreased the synthesis of glutathione (a critical intracellular antioxidant) during the first days of the birds' life to resemble harsh early environmental conditions (e.g., undernutrition). Longevity was recorded until the death of the last bird (almost 9 years). Males, but not females, exhibiting a redder bill in early adulthood lived longer than males with paler bills, which agrees with some precedent studies. However, such bill redness—longevity connection was absent among males with inhibited glutathione synthesis. These findings may suggest that environmental factors can alter the reliability of red ketocarotenoid‐based sexual signals, making them less unfalsifiable than believed. Summary: Red colorations produced by carotenoids are supposedly be linked to mitochondria function, and probably longevity.We found that the positive link between such coloration and longevity can be distorted by early oxidative stress in an avian species. [ABSTRACT FROM AUTHOR]

Simple Summary: Birds are social creatures, and identifying their sexes is essential for their breeders to provide for their welfare and for breeding, especially since many species lack visible sexual dimorphism. Molecular genetic sexing using real-time PCR (qPCR) is one of the most reliable methods for sex determination in monomorphic birds. This study aimed to demonstrate the effectiveness of qPCR in sexing Neognathae birds using minimally invasive oral swab samples. By analyzing five conserved Z-specific genes (CHRNA6, DDX4, VPS13A, LPAR1, and TMEM161B), this study successfully sexed paired male and female samples obtained from 17 bird species across six orders. At least one of these genes was effective in determining sex in all tested species. These findings establish qPCR using oral swab samples as a practical and less invasive method for avian sex determination, with potential applications in molecular biology and conservation. Future studies should evaluate its use across additional species and refine the technique for improved accuracy and ease of use. Birds are inherently social creatures that rely on pairing to enhance their well-being. Since many bird species lack obvious physical differences between females and males, sex identification is essential for ensuring their welfare. Additionally, early determination of the sexes of birds is crucial for their breeders, especially considering that most companion birds do not display clear sexual characteristics. Molecular genetic sexing has been demonstrated to be the most reliable method for determining the sexes of monomorphic birds. The objective of the present study was to demonstrate rapid, effective, and precise identification of sex in birds through quantitative real-time PCR (qPCR) using samples obtained via a minimally invasive technique (oral swabs). This qPCR method assesses variations in gene copy numbers within conserved Z-specific genes such as CHRNA6, DDX4, VPS13A, LPAR1, and TMEM161B, which are absent from the W chromosome. A total of 34 samples were included in this study from the following 17 bird species: domestic pigeon (Columba livia domestica), domestic chicken (Gallus gallus domesticus), domestic goose (Anser anser f domesticus), domestic duck (Anas platyrhynchos domesticus), Mute swan (Cygnus olor), Budgerigar (Melopsittacus undulatus), Lovebird (Agapornis roseicollis), Cockatiel (Nymphicus hollandicus), Red-rumped parrot (Psephotus haematonotus), Rose-ringed parakeet (Psittacula krameri), African grey parrot (Psittacus erithacus), domestic Canary (Serinus canaria forma domestica), Goldfinch (Carduelis carduelis major), Gouldian Finch (Chloebia gouldiae), Red Siskin (Carduelis cucullata), Australian Zebra Finch (Taeniopygia castanotis), and Common buzzard (Buteo buteo). The results proved that the CHRNA6, DDX4, VPS13A, LPAR1, and TMEM161B genes can reveal the sexes in the Neognath birds tested. [ABSTRACT FROM AUTHOR]

Zebra finches undergo a gradual refinement of their vocalizations, transitioning from variable juvenile songs to the stereotyped song of adulthood. To investigate the neural mechanisms underlying song crystallization—a critical phase in this developmental process—we performed intracellular recordings in HVC (a premotor nucleus essential for song learning and production) of juvenile birds. We then compared these recordings to previously published electrophysiological data from adult birds. We found that HVC projection neurons in juvenile zebra finches during the song crystallization phase exhibited more variable spiking patterns compared to the precise bursting observed in adult HVC projection neurons. Additionally, subthreshold membrane potential fluctuations in juvenile neurons exhibited longer durations and larger amplitude excitatory postsynaptic potentials. These distinct temporal dynamics in HVC during song crystallization likely play a crucial role in the fine-tuning processes that shape the precise timing and structure of the mature zebra finch song. [ABSTRACT FROM AUTHOR]

Chromosomal inversions have been identified in many natural populations and can be responsible for novel traits and rapid adaptation. In zebra finch, a large region on the Z chromosome has been subject to multiple inversions, which have pleiotropic effects on multiple traits but especially on sperm phenotypes, such as midpiece and flagellum length. To understand the effect, the Z inversion has on these traits, we examined testis and liver transcriptomes of young males at different maturation times. We compared gene expression differences among three inversion karyotypes: AA, B*B* and AB*, where B* denotes the inverted regions on Z with respect to A. In testis, 794 differentially expressed genes were found and most of them were located on chromosome Z. They were functionally enriched for sperm‐related traits. We also identified clusters of co‐expressed genes that matched with the inversion‐related sperm phenotypes. In liver, there were some enriched functions and some overrepresentation on chromosome Z with similar location as in testis. In both tissues, the overrepresented genes were located near the distal end of Z but also in the middle of the chromosome. For the heterokaryotype, we observed several genes with one allele being dominantly expressed, similar to expression patterns in one or the other homokaryotype. This was confirmed with SNPs for three genes, and interestingly one gene, DMGDH, had allele‐specific expression originating mainly from one inversion haplotype in the testis, yet both inversion haplotypes were expressed equally in the liver. This karyotype‐specific difference in tissue‐specific expression suggests a pleiotropic effect of the inversion and thus suggests a mechanism for divergent phenotypic effects resulting from an inversion. [ABSTRACT FROM AUTHOR]

This experiment investigated the effects of an ecologically relevant level of dim light at night (dLAN) on behavior, physiology and fat metabolism associated gene expressions in central and peripheral tissues of adult male zebra finches that were hatched and raised in 12:12 h LD cycle (Ev, day = 150 ± 5 lx; Ev, night = 0 lx) at 22 ± 2 °C temperature. Half of the birds (n = 8) were maintained on LD cycle and temperature, as before (control), to the other half of birds the 12 h dark period was dimly illuminated at ~ 5 lx (dim light at night, dLAN; Ev, day = 150 ± 5 lx; Ev, night = ~ 5 lx) for 6 weeks. The exposure to dLAN altered the 24 h activity and feeding patterns with enhanced activity and feeding at night. Birds under dLAN fattened and gained weight, and had higher night glucose levels. Concurrently, a negative effect of dLAN was found on mRNA expression of ppar-alpha and cd36 genes involved in the fat metabolism in the hypothalamus, intestine, liver and muscle. These results suggest a more global effect of dLAN exposure on obesity and perhaps long-term health risks due to obesity-related complications to diurnal animals including humans inhabiting an urbanized environment. [ABSTRACT FROM AUTHOR]

Background/Objectives: Transcriptome assembly and functional annotation are essential in understanding gene expression and biological function. Nevertheless, many existing pipelines lack the flexibility to integrate both short- and long-read sequencing data or fail to provide a complete, customizable workflow for transcriptome analysis, particularly for non-model organisms. Methods: We present TrAnnoScope, a transcriptome analysis pipeline designed to process Illumina short-read and PacBio long-read data. The pipeline provides a complete, customizable workflow to generate high-quality, full-length (FL) transcripts with broad functional annotation. Its modular design allows users to adapt specific analysis steps for other sequencing platforms or data types. The pipeline encompasses steps from quality control to functional annotation, employing tools and established databases such as SwissProt, Pfam, Gene Ontology (GO), the Kyoto Encyclopedia of Genes and Genomes (KEGG), and Eukaryotic Orthologous Groups (KOG). As a case study, TrAnnoScope was applied to RNA-Seq and Iso-Seq data from zebra finch brain, ovary, and testis tissue. Results: The zebra finch transcriptome generated by TrAnnoScope from the brain, ovary, and testis tissue demonstrated strong alignment with the reference genome (99.63%), and it was found that 93.95% of the matched protein sequences in the zebra finch proteome were captured as nearly complete. Functional annotation provided matches to known protein databases and assigned relevant functional terms to the majority of the transcripts. Conclusions: TrAnnoScope successfully integrates short and long sequencing technologies to generate transcriptomes with minimal user input. Its modularity and ease of use make it a valuable tool for researchers analyzing complex datasets, particularly for non-model organisms. [ABSTRACT FROM AUTHOR]

The nucleus HVC within the avian song system produces crystalized instructions which lead to precise, learned vocalization in zebra finches (Taeniopygia guttata). This paper proposes a model of the HVC neural network based on the physiological properties of individual HVC neurons, their synaptic interactions calibrated by experimental measurements, as well as the synaptic signal into this region which triggers song production. This neural network model comprises of two major neural populations in this area: neurons projecting to the nucleus RA and interneurons. Each single neuron model of HVCRA is constructed with conductance-based ion currents of fast Na+ and K+ and a leak channel, while the interneuron model includes extra transient Ca2+ current and hyperpolarization-activated inward current. The synaptic dynamics is formed with simulated delivered neurotransmitter pulses from presynaptic cells and neurotransmitter receptor opening rates of postsynaptic neurons. We show that this network model qualitatively exhibits observed electrophysiological behaviors of neurons independent or in the network, as well as the importance of bidirectional interactions between the HVCRA neuron and the HVCI neuron. We also simulate the pulse input from A11 neuron group to HVC. This signal successfully suppresses the interneuron, which leads to sequential firing of projection neurons that matches measured burst onset, duration, and spike quantities during the zebra finch motif. The result provides a biophysically based model characterizing the dynamics and functions of the HVC neural network as a song motor, and offers a reference for synaptic coupling strength in the avian brain. [ABSTRACT FROM AUTHOR]

Rare de novo heterozygous loss-of-function SETBP1 variants lead to a neurodevelopmental disorder characterized by speech deficits, indicating a potential involvement of SETBP1 in human speech. However, the expression pattern of SETBP1 in brain regions associated with vocal learning remains poorly understood, along with the underlying molecular mechanisms linking it to vocal production. In this study, we examined SETBP1 expression in the brain of male zebra finches, a well-established model for studying vocal production learning. We demonstrated that zebra finch SETBP1 exhibits a greater number of exons and isoforms compared to its human counterpart. We characterized a SETBP1 antibody and showed that SETBP1 colocalized with FoxP1, FoxP2, and Parvalbumin in key song nuclei. Moreover, SETBP1 expression in neurons in Area X is significantly higher in zebra finches singing alone, than those singing courtship song to a female, or non-singers. Importantly, we found a distinctive neuronal protein expression of SETBP1 and FoxP2 in Area X only in zebra finches singing alone, but not in the other conditions. We demonstrated SETBP1´s regulatory role on FoxP2 promoter activity in vitro. Taken together, these findings provide compelling evidence for SETBP1 expression in brain regions to be crucial for vocal learning and its modulation by singing behavior. [ABSTRACT FROM AUTHOR]

Heat shock proteins (HSPs) are essential to cellular protection against heat stress. However, the causes of inter-individual variation in HSP regulation remain unclear. This study aimed to test the impact of early-life conditions on the HSP response to heat in zebra finches. In this arid-adapted bird, incubating parents emit "heat-calls" at high temperatures, which adaptively alter offspring's phenotypes. Embryos were exposed to heat-calls or control-calls, and at 13 days post-hatch nestlings were separated into two different experiments to test responses to either chronic nest temperature ("in-nest" experiment) or an acute "heat-challenge". Blood samples were collected to measure levels of heat shock cognate 70, heat shock protein 90α, corticosterone and the heterophil-to-lymphocyte (H/L) ratio. In the in-nest experiment, both HSPs were upregulated in response to increasing nest temperatures only in control-calls nestlings (HSC70: p = 0.010, HSP90α: p = 0.050), which also had a marginally higher H/L ratio overall than heat-call birds (p = 0.066). These results point to a higher heat sensitivity in control-call nestlings. Furthermore, comparing across experiments, only the H/L ratio differed, being higher in heat-challenged than in in-nest nestlings (p = 0.009). Overall, this study shows for the first time that a prenatal acoustic signal of heat affects the nestling HSP response to postnatal temperature. [ABSTRACT FROM AUTHOR]

Simple Summary: In most animals, the genome does not undergo radical changes during ontogenesis. However, in some species, a programmed loss of a portion of the genome has been identified, such as the elimination of entire chromosomes during meiosis in passerine birds; this chromosome is termed the germline-restricted chromosome (GRC). The discovery of the GRC in 1998 in the zebra finch opened new avenues for understanding the phenomenon of DNA elimination. It is now known that the GRC is predominantly maternally inherited, as this chromosome is lost in males at the end of meiosis. In spermatocytes, the GRC univalent forms a distinct chromatin domain at the nuclear periphery. In the present study, immunocytochemistry showed that the components of the proteinaceous scaffold of the prophase I GRC and other chromosomes most likely load asynchronously. This is possibly due to unique aspects of chromatin conformation and transcriptional silencing in the GRC domain, where repressive chromatin marks are present, while transcriptional markers are absent. Nonetheless, some studies indicate gene expression in the GRC of several species. In this study, the molecular machinery of meiotic repair and recombination was found to be functional, as RPA and RAD51 proteins (involved in double-strand break processing) were detected at certain GRC sites. Notably, some RPA foci in the GRC univalent showed telomeric localization. It is in these chromosomal regions that female GRC homologs recombine. The observed meiotic phenomena associated with the GRC make this chromosome unique and a target for further research. Among eukaryotes, there are many examples of partial genome elimination during ontogenesis. A striking example of this phenomenon is the loss of entire avian chromosomes during meiosis, called a germline-restricted chromosome (GRC). The GRC is absent in somatic tissues but present in germ cells. It has been established that a prophase I male GRC is usually represented by a univalent surrounded by heterochromatin. In the present study, an immunocytochemical analysis of zebra finch spermatocytes was performed to focus on some details of this chromosome's organization. For the first time, it was shown that a prophase I GRC contains the HORMAD1 protein, which participates in the formation of a full axial element. This GRC axial element has signs of a delay of core protein loading, probably owing to peculiarities of meiotic silencing of chromatin. The presence of repressive marks (H3K9me3 and H3K27me3) and the lack of RNA polymerase II, typically associated with active transcription, indicate transcriptional inactivation in the GRC body, despite the known activity of some genes of the GRC. Nevertheless, RPA and RAD51 proteins were found at some GRC sites, indicating the formation and repair of double-strand breaks on this chromosome. Our results provide new insights into the meiotic behavior and structure of a GRC. [ABSTRACT FROM AUTHOR]

In group-living animals, chronic juvenile social isolation stress (SIS) can profoundly affect behavior and neuroendocrine regulation. However, its impact on social behavior in avian species, particularly regarding sexspecific neural circuit differences, remains underexplored. This study focused on zebra finches, a species known for its social clustering and cognitive abilities, to elucidate these influences. Results indicated that SIS significantly increased plasma corticosterone levels in females but not in males, suggesting a heightened stress response and susceptibility in females. Additionally, SIS disrupted sociality and flocking behavior in both sexes, with more severe impairments in social recognition observed in females. Mesotocin (MT) levels in the lateral septum of both sexes and in the ventromedial hypothalamus of females were found to mediate the SIS effect, while vasotocin (VT) levels within the social behavior network remained unchanged. Pharmacological interventions confirmed the critical role of MT in reversing SIS-induced impairments in sociality, flocking behavior, and social recognition, particularly in females. These findings highlight unique nucleus- and sex-dependent variations in MT and VT regulation, providing novel insights into the mechanisms governing avian social behavior. This study advances our understanding of the independent evolutionary pathways of neural circuits and neuroendocrine systems that modulate social behaviors across different taxonomic groups. [ABSTRACT FROM AUTHOR]

Cerebral laterality is a widespread phenomenon across animals and refers to the specialization of the left and right hemispheres of the brain for perceptual, cognitive and behavioural tasks. Behavioural laterality occurs in several contexts, including foraging, mate selection, predator detection and tool manufacture. Behavioural laterality during nest building, however, has rarely been addressed. We conducted two experiments to examine (1) whether behavioural laterality occurs during nest building, (2) whether laterality correlates with nest-building speed, (3) whether laterality during nest building is repeatable, and (4) whether nest-building experience influences laterality. In Experiment 1, we scored individual laterality indices for 58 zebra finch (Taeniopygia guttata) males, the nest-building sex in this species, based on which eye he used to view then select the first 25 pieces of nest material. We calculated correlations between laterality strength and nest-building duration. In Experiment 2, to test the repeatability of laterality during nest building, we measured laterality for 20 males across five nests built by each male. Individuals varied both in the direction and the strength of behavioural laterality of material selection during nest building. Overall, however, males were not consistent in their laterality across the five nests. We found no correlation between laterality strength and nest-building duration in either experiment. Finally, we found evidence for building experience influencing the behavioural laterality of individuals: more building experience results in more predictable behavioural laterality during nest-material selection. [ABSTRACT FROM AUTHOR]

Developmental environmental stressors can have instructive effects on an organism's phenotype. This developmental plasticity can prepare organisms for potentially stressful future environments, circumventing detrimental effects on fitness. However, the physiological mechanisms underlying such adaptive plasticity are understudied, especially in vertebrates. We hypothesized that captive male zebra finches (Taeniopygia castanotis) exposed to a mild heat conditioning during development would acquire a persisting thermotolerance, and exhibit increased heat‐shock protein (HSP) levels associated with a decrease in oxidative damage when exposed to a high‐intensity stressor in adulthood. To test this, we exposed male finches to a prolonged mild heat conditioning (38°C) or control (22°C) treatment as juveniles. Then in a 2 × 2 factorial manner, these finches were exposed to a high heat stressor (42°C) or control (22°C) treatment as adults. Following the adult treatment, we collected testes and liver tissue and measured HSP70, HSP90, and HSP60 protein levels. In the testes, finches exhibited lower levels of HSP90 and HSP60 when exposed to the high heat stressor in adulthood if they were exposed to the mild heat conditioning as juveniles. In the liver, finches exposed to the high heat stressor in adulthood had reduced HSP90 and HSP60 levels, regardless of whether they were conditioned as juveniles. In some cases, elevated testes HSP60 levels were associated with increased liver oxidative damage and diminishment of a condition‐dependent trait, indicating potential stress‐induced tradeoffs. Our results indicate that a mild conditioning during development can have persisting effects on HSP expression and acquired thermotolerance. Research Highlights: Our results indicate that a mild heat conditioning during development can induce an increase in thermotolerance that persists into adulthood, and results in variation in testes and liver heat‐shock protein expression in response to heat stress. [ABSTRACT FROM AUTHOR]

In recent decades, the compositions of preen oil and feathers have been studied to achieve insights into the chemistry of avian odours, which play a significant role in birds' social behaviour. Fewer studies are available regarding volatiles originating from other sources, such as faeces, eggs or a bird's whole body. The aims of this study were (i) to identify odour-active and further volatile compounds in zebra finch whole body odour and (ii) to semi-quantify selected volatiles and use the information to evaluate two different adsorbents for their suitability for whole body odour sampling. Volatiles from the headspace above zebra finches were sampled using an open loop system equipped with either activated charcoal or Tenax® TA. Samples were analysed by olfactory-guided approaches as well as gas chromatography–mass spectrometry. Using activated charcoal as sorbent, 26 odour-active and 73 further volatile compounds were detected, whereas with Tenax® TA 27 odour-active and 81 further volatile compounds were detected. In total, 104 compounds were (tentatively) identified, of which 22 had not been identified previously in zebra finch odour and 12 had not been described in any birds. Hints towards a chemical sex signature became evident for qualitative but not for quantitative differences. With the exception of some compounds, notably carboxylic acids and alkanes, relative peak areas obtained with the two adsorbent types were comparable. The approach described herein is proposed for future studies aiming to determine volatiles emitted by birds when, for example, parent birds are approaching the nest. [ABSTRACT FROM AUTHOR]

Summary Wakefulness and sleep have often been treated as distinct and global brain states. However, an emerging body of evidence on the local regulation of sleep stages challenges this conventional view. Apart from unihemispheric sleep, the current data that support local variations of neural oscillations during sleep are focused on the homeostatic regulation of local sleep, i.e., the role preceding awake activity. Here, to examine local differences in brain activity during natural sleep, we recorded the electroencephalogram and the local field potential across multiple sites within the avian pallium of zebra finches without perturbing the previous awake state. We scored the sleep stages independently in each pallial site and found that the sleep stages are not pallium‐wide phenomena but rather deviate widely across electrode sites. Importantly, deeper electrode sites had a dominant role in defining the temporal aspects of sleep state congruence. Altogether, these findings show that local regulation of sleep oscillations also occurs in the avian brain without prior awake recruitment of specific pallial circuits and in the absence of mammalian cortical neural architecture. [ABSTRACT FROM AUTHOR]

Sensory cues such as vocalizations contain important social information. Processing social features of vocalizations (e.g., vocalizer identity, emotional state) necessitates unpacking the complex sound streams in song or speech; this depends on circuits in pallial cortex. But whether and how this information is then transferred to limbic and hypothalamic regions remains a mystery. Here, using gregarious, vocal songbirds (female Zebra finches), we identify a prominent influence of the auditory pallium on one specific node of the Social Behavior Network, the lateral ventromedial nucleus of the hypothalamus (VMHl). Electrophysiological recordings revealed that social and non-social auditory stimuli elicited stimulus-specific spike trains that permitted stimulus differentiation in a large majority of VMHl single units, while transient disruption of auditory pallium elevated immediate early gene activity in VMHl. Descending functional connections such as these may be critical for the range of vertebrate species that rely on nuanced communication signals to guide social decision-making. A study in songbirds using site-directed pharmacology, immediate early gene labeling, and awake electrophysiology reveals a link between regions of the pallium critical for auditory processing and a specific node of the Social Behavior Network [ABSTRACT FROM AUTHOR]

Germline de novo mutations (DNMs) provide the raw material for evolution. The DNM rate varies considerably between species, sexes and chromosomes. Here, we identify DNMs in the zebra finch (Taeniopygia guttata) across 16 parent-offspring trios using two genome assemblies of different quality. Using an independent genotyping assay, we validate 82% of the 150 candidate DNMs. DNM rates are consistent between both assemblies, with estimates of 6.14 × 10–9 and 6.36 × 10–9 per site per generation. We observe a strong paternal bias in DNM rates (male-to-female ratio ɑ ≈ 4), but this bias is in transition mutations only, leading to a transition-to-transversion ratio of 3.18 and 3.57. Finally, we find that DNMs tend to be randomly distributed across chromosomes, not associated with recombination hotspots or genic regions. However, the sex chromosome chrZ shows a roughly fourfold increased DNM rate compared to autosomes, which is more than the expected increase due to chrZ spending two-thirds of its time in males. Overall, our results further enhance our understanding of DNMs in passerine songbirds. Germline de novo mutations (DNMs) in zebra finches were identified across 16 trios, with an estimated DNM rate of 6 × 10−9 per site per generation. A paternal bias in transition mutations was observed, with a higher DNM rate on the sex chromosome Z. [ABSTRACT FROM AUTHOR]

Primordial germ cells (PGCs) in avian species exhibit unique developmental features, including the ability to migrate through the bloodstream and colonize the gonads, allowing their isolation at various developmental stages. Several methods have been developed for the isolation of avian PGCs, including density gradient centrifugation, size-dependent separation, and magnetic-activated cell sorting (MACS) or fluorescence-activated cell sorting (FACS) using a stage-specific embryonic antigen-1 (SSEA-1) antibody. However, these methods present limitations in terms of efficiency and applicability across development stages. In particular, the specificity of SSEA-1 decreases in later developmental stages. Furthermore, surface markers that can be utilized for isolating or utilizing PGCs are lacking for wild birds, including zebra finches, and endangered avian species. To address this, we used single-cell RNA sequencing (scRNA-seq) to uncover novel PGC-specific surface markers in chicken and zebra finch. We screened for genes that were primarily expressed in the PGC population within the gonadal cells. Analyses of gene expression patterns and levels based on scRNA-seq, coupled with validation by RT-PCR, identified NEGR1 and SLC34A2 as novel PGC-specific surface markers in chickens and ESYT3 in zebra finches. Notably, these newly identified genes exhibited sustained expression not only during later developmental stages but also in reproductive tissues. [ABSTRACT FROM AUTHOR]

At certain intensities and durations, environmental stressors during development can result in changes in physiology that prepare organisms for future stressful conditions. Such plasticity can allow organisms to maintain good condition when confronted with a poor environment, potentially conferring an advantage in fitness. However, the physiological changes underlying these adaptive phenotypic adjustments are understudied. Using captive male zebra finches (Taeniopygia castanotis), we tested whether exposure to a prolonged mild stressor during development would adaptively modify their antioxidant enzyme expression, reducing oxidative damage when exposed to a high-intensity stressor in adulthood and allowing the maintenance of a secondary sexual trait. To do this, we exposed juvenile finches to either a prolonged mild heat stressor treatment (38°C) or a control temperature treatment (22°C). As adults, these finches were then exposed to either an acute high-intensity heat stressor treatment (42°C) or control temperature treatment (22°C). The beak color of males—a sexually selected trait—was quantified, as were oxidative stress parameters in the testes and liver tissues. We saw that the mild-heat-conditioned males had beaks with higher saturation and lower brightness at baseline in adulthood but that the changes in beak color in response to the high heat stressor varied. After exposure to the high heat stressor as adults, finches had higher levels of superoxide dismutase 1 and 2 in the testes and lower levels of lipid damage in the liver if they were also exposed to the mild heat conditioning as juveniles, indicating an adaptive phenotypic change. [ABSTRACT FROM AUTHOR]

Climate resilience, a focus of many recent studies, has been examined from ecological, physiological, and evolutionary perspectives. However, sampling biases toward adults, males, and certain species have made establishing the link between environmental change and population-level change problematic. Here, we used data from four laboratory studies, in which we administered pre- and postnatal stressors, such as suboptimal incubation temperature, heat stress, and food restriction, to zebra finches. We then quantified hatching success, posthatch survival, and reproductive success, to parameterize age-structured population dynamics models with the goal of estimating the effect of the stressors on relative population growth rates. Using the same model structure, we tested the hypothesis that early life stages influence population growth rate more than later life stages. Our models suggested that stressful events during embryonic development, such as suboptimal incubation temperatures and reduced gas exchange for the embryos, have a greater total impact on population growth than posthatch stressors, such as heat stress and food restriction. However, among life history traits, differences in hatching success and sex ratio of offspring in response to stressors changed population growth rates more than differences in any other demographic rate estimates. These results suggest that when predicting population resilience against climate change, it is critical to account for effects of climate change on all life stages, including early stages of life, and to incorporate individuals' physiology and stress tolerance that likely influence future stress responses, reproduction, and survival. [ABSTRACT FROM AUTHOR]

The environmental risk assessment (ERA) of plant protection products (PPPs) is commonly conducted for a number of standard laboratory species, though its scope includes all species, especially those that are vulnerable or endangered. This begs the question of how the eco-physiological and life history traits of those data-rich species compare to those of less documented species. This paper investigates the utility of a database of such traits, the Add-my-Pet collection of Dynamic Energy Budget theory, for the ERA of North American birds. We identified 72 bird species in the collection that have a federal listing status or are otherwise of interest for the ERA of PPPs and compared their eco-physiological and life history traits in relation to body size, feeding guild, and taxonomic identity to those of 446 terrestrial Holarctic birds, as well as those of standard lab species, notably the northern bobwhite, mallard, and zebra finch. The properties of standard lab species generally align with those of a similar taxonomy and size, with the notable exception of the relatively high reproductive capacity of the northern bobwhite and mallard due to the unique properties of laboratory study data. In addition, taxonomy appears to be a better predictor of eco-physiological traits than feeding guild. We conclude that, to identify representative species for the ERA of PPPs, more traits need to be included, such as those directly linked to the likelihood of exposure and those related to reproductive behavior. [ABSTRACT FROM AUTHOR]

Our understanding of bird song, a model system for animal communication and the neurobiology of learning, depends critically on making reliable, validated comparisons between the complex multidimensional syllables that are used in songs. However, most assessments of song similarity are based on human inspection of spectrograms, or computational methods developed from human intuitions. Using a novel automated operant conditioning system, we collected a large corpus of zebra finches' (Taeniopygia guttata) decisions about song syllable similarity. We use this dataset to compare and externally validate similarity algorithms in widely-used publicly available software (Raven, Sound Analysis Pro, Luscinia). Although these methods all perform better than chance, they do not closely emulate the avian assessments. We then introduce a novel deep learning method that can produce perceptual similarity judgements trained on such avian decisions. We find that this new method outperforms the established methods in accuracy and more closely approaches the avian assessments. Inconsistent (hence ambiguous) decisions are a common occurrence in animal behavioural data; we show that a modification of the deep learning training that accommodates these leads to the strongest performance. We argue this approach is the best way to validate methods to compare song similarity, that our dataset can be used to validate novel methods, and that the general approach can easily be extended to other species. Author summary: How do birds hear the differences between their songs? This fascinating question carries implications, since the study of bird song, a model system for the neurobiology of learning and animal communication, depends critically on our ability to assess the similarity of songs. Traditionally, researchers compare sounds by human assessment, or use computational methods based on human intuitions about similarity. However, neither approach is connected to birds' own perception of sound similarity. Here, using a novel automated operant conditioning system, we recorded many thousands of acoustic judgments of similarity from zebra finches, and used this perceptual decision data for the first time to train a deep learning system. The trained system outperforms other computational methods for the task of making the same judgments as birds. This algorithm to compare song similarity, together with the potential of extending the general approach to other species, places the study of bird song on a firmer footing. [ABSTRACT FROM AUTHOR]

Macronutrients play a vital role in host immunity and can influence host–pathogen dynamics, potentially through dietary effects on gut microbiota. To increase our understanding of how dietary macronutrients affect physiology and gut microbiota and investigate whether feeding behaviour is influenced by an immune threat, we conducted two experiments. First, we determined whether zebra finches (Taeniopygia guttata) exhibit shifts in physiology and gut microbiota when fed diets differing in macronutrient ratios. We found the type and amount of diet consumed affected gut microbiota alpha diversity, where microbial richness and Shannon diversity increased with caloric intake in birds fed a high‐fat diet and decreased with caloric intake in birds fed a high protein diet. Diet macronutrient content did not affect physiological metrics, but lower caloric intake was associated with higher complement activity. In our second experiment, we simulated an infection in birds using the bacterial endotoxin lipopolysaccharide (LPS) and quantified feeding behaviour in immune challenged and control individuals, as well as birds housed near either a control pair (no immune threat), or birds housed near a pair given an immune challenge with LPS (social cue of heightened infection risk). We also examined whether social cues of infection alter physiological responses relevant to responding to an immune threat, an effect that could be mediated through shifts in feeding behaviour. LPS induced a reduction in caloric intake driven by a decrease in protein, but not fat consumption. No evidence was found for socially induced shifts in feeding behaviour, physiology or gut microbiota. Our findings carry implications for host health, as sickness‐induced anorexia and diet‐induced shifts in the microbiome could shape host–pathogen interactions. [ABSTRACT FROM AUTHOR]

Memory-guided motor shaping is necessary for sensorimotor learning. Vocal learning, such as speech development in human babies and song learning in bird juveniles, begins with the formation of an auditory template by hearing adult voices followed by vocally matching to the memorized template using auditory feedback. In zebra finches, the widely used songbird model system, only males develop individually unique stereotyped songs. The production of normal songs relies on auditory experience of tutor's songs (commonly their father's songs) during a critical period in development that consists of orchestrated auditory and sensorimotor phases. "Auditory templates" of tutor songs are thought to form in the brain to guide later vocal learning, while formation of "motor templates" of own song has been suggested to be necessary for the maintenance of stereotyped adult songs. Where these templates are formed in the brain and how they interact with other brain areas to guide song learning, presumably with template-matching error correction, remains to be clarified. Here, we review and discuss studies on auditory and motor templates in the avian brain. We suggest that distinct auditory and motor template systems exist that switch their functions during development. [ABSTRACT FROM AUTHOR]

Acoustic signalling is crucial in affecting movements and in social interactions. In species with dynamic social structures, such as multi-level societies, acoustic signals can provide a key mechanism allowing individuals to identify and find or avoid each other and to exchange information. Yet, if the spacing between individuals regularly exceeds the maximum signalling range, the relation between movements and signals becomes more complex. As the best-studied songbird in captivity, the zebra finch (Taeniopygia castanotis) is a species with individually distinct songs that are audible over just a few metres and a widely ranging dynamic multi-level social organization in the wild, raising questions on the actual role of its song in social cohesion and coordination. Here, we provide an overview of birdsong in social organizations (networks) and use the ecology of the zebra finch and male song to discuss how singing can facilitate social cohesion and coordination in species where the signal range is very short. We raise the question of the extent to which zebra finches are a representative species to understand the function of song in communication, and we broaden current views on the function of birdsong and its individual signature. This article is part of the theme issue 'The power of sound: unravelling how acoustic communication shapes group dynamics'. [ABSTRACT FROM AUTHOR]

The genome organization of woodpeckers has several distinctive features e.g., an uncommon accumulation of repetitive sequences, enlarged Z chromosomes, and atypical diploid numbers. Despite the large diversity of species, there is a paucity of detailed cytogenomic studies for this group and we thus aimed to rectify this. Genome organization patterns and hence evolutionary change in the microchromosome formation of four species (Colaptes campestris, Veniliornis spilogaster, Melanerpes candidus, and Picumnus nebulosus) was established through fluorescence in situ hybridization using bacterial artificial chromosomes originally derived from Gallus gallus and Taeniopygia guttata. Findings suggest that P. nebulosus (2n = 110), which was described for the first time, had the most basal karyotype among species of Picidae studied here, and probably arose as a result of fissions of avian ancestral macrochromosomes. We defined a new chromosomal number for V. spilogaster (2n = 88) and demonstrated microchromosomal rearrangements involving C. campestris plus a single, unique hitherto undescribed rearrangement in V. spilogaster. This comprised an inversion after a fusion involving the ancestral microchromosome 12 (homologous to chicken microchromosome 12). We also determined that the low diploid number of M. candidus is related to microchromosome fusions. Woodpeckers thus exhibit significantly rearranged karyotypes compared to the putative ancestral karyotype. [ABSTRACT FROM AUTHOR]

Our understanding of human brain function can be greatly aided by studying analogous brain structures in other organisms. One brain structure with neurochemical and anatomical homology throughout vertebrate species is the locus coeruleus (LC), a small collection of norepinephrine (NE)-containing neurons in the brainstem that project throughout the central nervous system. The LC is involved in nearly every aspect of brain function, including arousal and learning, which has been extensively examined in rats and nonhuman primates using single-unit recordings. Recent work has expanded into putative LC single-unit electrophysiological recordings in a nonmodel species, the zebra finch. Given the importance of correctly identifying analogous structures as research efforts expand to other vertebrates, we suggest adoption of consensus anatomical and electrophysiological guidelines for identifying LC neurons across species when evaluating brainstem single-unit spiking or calcium imaging. Such consensus criteria will allow for confident cross-species understanding of the roles of the LC in brain function and behavior. [ABSTRACT FROM AUTHOR]

This article presents two case studies of zebra finches that exhibited unusual symptoms. The first bird had infertility and swelling around the eyes, with abnormalities found in the oviduct and periocular skin. The second bird had oviductal prolapse, periocular dermatitis, and osteomyelitis. The cause of the symptoms in both cases was not definitively determined, but mycobacterium was found in the second bird. These findings emphasize the need for further research on the causes and impacts of these symptoms in zebra finches. [Extracted from the article]

Developmental plasticity allows organisms to increase the fit between their phenotype and their early-life environment. The extent to which such plasticity also enhances adult fitness is not well understood, however, particularly when early-life and adult environments differ substantially. Using a cross-factorial design that manipulated diet at two life stages, we examined predictions of major hypotheses—silver spoon, environmental matching, and thrifty phenotype—concerning the joint impacts of early-life and adult diets on adult morphology/display traits, survival, and reproductive allocation. Overall, results aligned with the silver spoon hypothesis, which makes several predictions based on the premise that development in poor-quality environments constrains adult performance. Males reared and bred on a low-protein diet had lower adult survivorship than other male treatment groups; females' survivorship was higher than males' and not impacted by early diet. Measures of allocation to reproduction primarily reflected breeding diet, but where natal diet impacted reproduction, results supported the silver spoon. Both sexes showed reduced expression of display traits when reared on a low-protein diet. Results accord with other studies in supporting the relevance of the silver spoon hypothesis to birds and point to significant ramifications of sex differences in early-life viability selection on the applicability/strength of silver spoon effects. [ABSTRACT FROM AUTHOR]

Neophobia, an aversive response to novelty, is a behavior with critical ecological and evolutionary relevance for wild populations because it directly influences animals' ability to adapt to new environments and exploit novel resources. Neophobia has been described in a wide variety of different animal species from arachnids to zebra finches. Because of this widespread prevalence and ecological importance, the number of neophobia studies has continued to increase over time. However, many neophobia studies (as well as many animal behavior studies more generally) suffer from one or more of what we have deemed the "seven deadly sins" of neophobia experimental design. These "sins" include: (1) animals that are not habituated to the testing environment, (2) problems with novel stimulus selection, (3) non-standardized motivation, (4) pseudoreplication, (5) lack of sufficient controls, (6) fixed treatment order, and (7) using arbitrary thresholds for data analysis. We discuss each of these potential issues in turn and make recommendations for how to avoid them in future behavior research. More consistency in how neophobia studies are designed would facilitate comparisons across different populations and species and allow researchers to better understand whether neophobia can help explain animals' responses to human-altered landscapes and the ability to survive in the Anthropocene. [ABSTRACT FROM AUTHOR]

The nucleus HVC within the avian song system produces crystalized instructions which lead to precise, learned vocalization in zebra finches (Taeniopygia guttata). This paper proposes a model of the HVC neural network based on the physiological properties of individual HVC neurons, their synaptic interactions calibrated by experimental measurements, as well as the synaptic signal into this region which triggers song production. This neural network model comprises of two major neural populations in this area: neurons projecting to the nucleus RA and interneurons. Each single neuron model of HVCRA is constructed with conductance-based ion currents of fast Na+ and K+ and a leak channel, while the interneuron model includes extra transient Ca2+ current and hyperpolarization-activated inward current. The synaptic dynamics is formed with simulated delivered neurotransmitter pulses from presynaptic cells and neurotransmitter receptor opening rates of postsynaptic neurons. We show that this network model qualitatively exhibits observed electrophysiological behaviors of neurons independent or in the network, as well as the importance of bidirectional interactions between the HVCRA neuron and the HVCI neuron. We also simulate the pulse input from A11 neuron group to HVC. This signal successfully suppresses the interneuron, which leads to sequential firing of projection neurons that matches measured burst onset, duration, and spike quantities during the zebra finch motif. The result provides a biophysically based model characterizing the dynamics and functions of the HVC neural network as a song motor, and offers a reference for synaptic coupling strength in the avian brain.