Captive Environment Research Articles

Influence of captive breeding environment on the locomotor performance and metabolism of the threatened Alcatraz Snouted Treefrog, Ololygon alcatraz

AbstractEx situ conservation is a complementary strategy to in situ efforts and is vital for safeguarding endangered species through maintenance and breeding in captivity with potential for reintroductions into natural environments. However, it is crucial to recognize that prolonged captivity can lead to diminished abilities of organisms over generations. Factors linked to the impact of phenotypic plasticity during development, such as restricted movement, may affect organism performance during ex situ conservation efforts, potentially making reintroduction into the wild unfeasible. Consequently, it is imperative to analyze physiological differences between captive‐bred and wild individuals. Therefore, this study investigates how captivity influences locomotor performance, morphology, and metabolic capacities of adults and juveniles of the threatened treefrog Ololygon alcatraz, in comparison to natural populations. We obtained proportional measurements of individuals and assessed their locomotor performance through jumping exercise. We also measured the metabolic capacities of the frogs by examining the activity of enzymes involved in energetic metabolic pathways in their skeletal muscle fibers. We found that wild adult frogs had larger limbs, greater jumping abilities, and a more glycolytic profile, while captive adult frogs had smaller limbs and increased aerobic enzyme activity compared to their wild counterparts. These differences probably arise from phenotypic plasticity in ontogenetic development that differs between captive and natural environments, as juveniles do not show such differences. These results highlight the need for innovative strategies in managing captive O. alcatraz populations, which will aid in their successful translocation to the wild and strengthen ex situ conservation efforts.

Gut Microbiome Diversity and Composition in Captive Siberian Tigers (Panthera tigris altaica): The Influence of Diet, Health Status, and Captivity on Microbial Communities

The gut microbiome is essential for the health of carnivorous mammals, including the endangered Siberian tiger (Panthera tigris altaica). However, limited research exists on the gut microbiome of captive Siberian tigers, especially regarding how diet and health status influence microbial diversity. This study addresses this gap by investigating the gut microbiome diversity and composition of six captive-born Siberian tigers housed at the Baekdudaegan National Arboretum in South Korea, using 16S rRNA gene sequencing. The study aimed to examine how diet and health status influence microbial communities, providing baseline data for managing captive tigers. Alpha diversity analysis revealed significant variation in microbial richness and evenness, with Tigers 2 and 6 exhibiting the highest microbial diversity and Tiger 3 the lowest, likely due to its surgical history and limited diet. Beta diversity analysis showed distinct microbial community structures influenced by diet and health. Taxonomic profiling identified Firmicutes and Bacteroidota as the dominant phyla, with Clostridium sensu stricto more prevalent in healthier tigers, while Escherichia-Shigella and Proteobacteria were abundant in tigers with lower diversity, suggesting dysbiosis. Comparisons with other tiger species confirm that diet, health, and captivity significantly shape the gut microbiome. These findings highlight the need for personalized health management in captive environments.

A pictorial key to the adult and larval nasal mites (Halarachnidae) of marine mammals.

Mites in the family Halarachnidae are common endoparasites infesting the nasal tissues of a variety of marine mammals. These mites are easily transmissible and compromise the health of their hosts, especially in captive environments. While these mites are noted by marine mammal caretakers, they may easily be misidentified due to repeated revisions to halarachnid mite taxonomy and reclassification of misidentified specimens. Species identification currently requires multiple taxonomic keys, knowledge of revisions to species classifications through time, and training in acarology, which is impractical for marine mammal clinicians. Therefore, to summarize the known taxonomy and aid in future identification of halarachnid mites, we present a pictorial key composed of illustrations based on existing literature and images obtained by scanning electron microscopy (SEM) and high-resolution light microscopy (LM). Illustrations are organized into flow charts for the identification of both adult and larval stages. Dorsal shield silhouettes are also provided to facilitate the identification of adults. We hope that this key be used to simplify future taxonomic research, provide a standard for species identification, and aid in the diagnosis of halarachnid infestations in captive and rehabilitated marine mammal populations.

From wild to captive: Understanding the main nutritional diseases of sharks in public aquariums.

The establishment of a well-adapted and accurate feeding regimen is a fundamental determining factor in the maintenance of shark species in captivity. Replicating the natural diet in captivity is commonly accepted and recommended. Given the diverse nutritional composition of prey, supplementation may become necessary. The captive environment poses unique challenges, making sharks susceptible to an array of health issues, including numerous diseases. Mitigating these risks demands detailed husbandry practices, an appropriate physical environment and a balanced diet. Supplementation, encompassing vitamins and minerals, becomes imperative for the provision of essential nutrients. This complexity has rendered the formulation of an adapted feeding plan for aquarists exceptionally challenging. The scarcity of information in these species adds to the issue, mandating extrapolation from various shark groups and to species with analogous characteristics. This literature review concentrates predominantly on benthic and pelagic shark species prevalent in contemporary aquariums. The central argument posits that dietary choices in captivity rely on factors such as availability, quality and consistency of supply. The advocated approach highlights the importance of a balanced, diverse feeding that closely mirrors natural diets. It is then crucial to emphasize that these are general guidelines, and the specific dietary requisites may diverge between shark species. Collaborating with experts in marine biology, shark husbandry and veterinary care is imperative for the formulation and perpetuation of an adapted diet for captive sharks.

Continuing challenges of elephant captivity: the captive environment, health issues, and welfare implications

Although the well-being of elephants in captivity is of paramount importance, the confinement of these long-lived, highly intelligent, and socially complex animals continues to present significant challenges. Here, we provide an overview of the current state of elephant confinement (primarily in the West) by examining captive facilities, improvements, and continuing problems, and the clinical/behavioral/neural issues that remain. Specifically, we examine quantitative and qualitative aspects of the enclosed space, sociocognitive factors, dietary differences, and health/welfare concerns (e.g., stereotypies, physical health, nutrition, reproduction, life expectancy). The challenges of the captive environment become especially salient when juxtaposed next to the complex, multifaceted characteristics of the elephant’s natural environment. Despite the best efforts of some facilities to improve the captive environment, serious welfare challenges remain. Such confinement issues thus raise important welfare and ethical concerns with regards to captive elephant well-being.

Decoding Octopus Skin Mucus: Impact of Aquarium-Maintenance and Senescence on the Proteome Profile of the Common Octopus (Octopus vulgaris).

The common octopus (Octopus vulgaris) is an excellent candidate for aquaculture diversification, due to its biological traits and high market demand. To ensure a high-quality product while maintaining welfare in captive environments, it is crucial to develop non-invasive methods for testing health biomarkers. Proteins found in skin mucus offer a non-invasive approach to monitoring octopus welfare. This study compares the protein profiles in the skin mucus of wild, aquarium-maintained, and senescent specimens to identify welfare biomarkers. A tandem mass tag (TMT) coupled with an Orbitrap Eclipse Tribrid mass spectrometer was used to create a reference dataset from octopus skin mucus, identifying 1496 non-redundant protein groups. Although similar profiles were observed, differences in relative abundances led to the identification of potential biomarkers, including caspase-3-like, protocadherin 4, deleted in malignant brain tumors, thioredoxin, papilin, annexin, cofilin and mucin-4 proteins. Some of these proteins also revealed potential as bioactive peptides. This investigation provides the most extensive analysis of the skin mucus proteome in the common octopus and is the first to explore how aquarium maintenance and senescence alter the mucus proteome. This research highlights the potential of skin mucus protein/peptides as non-invasive monitoring biomarkers in cultured animals.

Viral metagenomic analysis reveals potential biological hazards in non‐human primates in a zoo

AbstractPathogens have been documented to be transmissible between humans and non‐human primates (NHPs), with NHPs demonstrating susceptibility to human viruses. Conducting surveillance for viruses in NHPs to identify potential zoonotic agents that may emerge or pose a high risk of spillover remains a critical strategy for preparing for and responding to future zoonotic events. This study employed viral metagenomic analysis on nine randomly selected NHPs from the Zoo in China to detect potential pathogens within captive environments. The analysis identified the presence of picornavirus Encephalomyocarditis virus (EMCV), poxvirus (BeAn 58,058 virus, BAV), and retroviruses (human endogenous retrovirus, HERV and baboon endogenous virus, BaEV). These viruses exhibited significant genetic homology to established viral strains, with EMCV demonstrating close relatedness to a strain previously detected in the United States, and BAV beling newly identified in NHPs. The study suggests that zoo rodents, particularly rats, serve as the primary reservoirs for the viruses, thereby posing a potential threat to public health. Therefore, this underscores the imperative to enhance rodent control measures within zoological institutions and provides strategic recommendations for mitigating interspecies viral transmission.

Freshwater Mussel Viromes Increase Rapidly in Diversity and Abundance When Hosts Are Released from Captivity into the Wild.

Freshwater mussels (order: Unionida) are highly imperiled globally and are increasingly the focus of captive propagation efforts to protect and restore wild populations. The Upper Tennessee River Basin (UTRB) in Virginia is a freshwater biodiversity hotspot hosting at least 45 of North America's ~300 species of freshwater mussels, including 21 threatened and endangered species listed under the U.S. Endangered Species Act. Recent studies have documented that viruses and other microbes have contributed to freshwater mussel population declines in the UTRB. We conducted a multi-year longitudinal study of captive-reared hatchery mussels released to restoration sites throughout the UTRB to evaluate their viromes and compare them to captive hatchery environments. We documented 681 viruses from 27 families. The hatchery mussels had significantly less viruses than those deployed to wild sites, with only 20 viruses unique to the hatchery mussels. After the hatchery mussels were released into the wild, their number of viruses initially spiked and then increased steadily over time, with 451 viruses in total unique to the mussels in the wild. We found Clinch densovirus 1 (CDNV-1), a virus previously associated with mass mortality events in the Clinch River, in all samples, but the wild site mussels consistently had significantly higher CDNV-1 levels than those held in the hatchery. Our data document substantial differences between the viruses in the mussels in the hatchery and wild environments and rapid virome shifts after the mussels are released to the wild sites. These findings indicate that mussel release programs might benefit from acclimatization periods or other measures to mitigate the potential negative effects of rapid exposure to infectious agents found in natural environments.

Assessment of Captive Environment for Oriental Small-Clawed Otters (Aonyx cinereus) in Otter Cafés in Japan.

This study investigates the captive environments of oriental small-clawed otter (OSO; Aonyx cinereus) cafés in Japan, aiming to identify discrepancies with established welfare guidelines. Improved management of these commercial facilities could raise awareness about the difficulties of keeping OSOs as pets and enhance their welfare. Utilizing the role of commercial facilities in public outreach, we consider that the rigorous implementation of proper care practices in these establishments could help mitigate the increasing demand for OSOs domestically and contribute to the conservation of the OSO. In this study, we focused on the critical aspects of the captive environment necessary to maintain the psychological well-being of OSOs and evaluated the captive environments of OSOs housed in animal cafés for OSO welfare using non-invasive methods. Based on zoo husbandry standards, it was found that there were deficiencies in aquatic environments and solitary housing conditions; however, the enrichment tools aligned with the guidelines. The results suggest that deviations from the recommended elements in the environment of OSOs in captivity are associated with a tendency of these OSOs to develop various diseases. It is deemed necessary to amend the regulations governing animal-handling businesses to include welfare criteria, and it is considered essential for each establishment to operate only after ensuring sufficient welfare for the OSOs.

What influences feather care and unipedal resting in flamingos? Adding evidence to clarify behavioural anecdotes

Flamingos (Phoenicopteriformes) are relatively well studied species of bird, both in the wild and in captive environments. Arguably, the two most famous anecdotes surrounding flamingo behaviour concerns their time spent on one leg (what is this related to?) and time spent preening (is it more than other species of waterbird?). We conducted an observational study at WWT Slimbridge Wetland Centre on five species of flamingos to test whether empirical evidence supported these anecdotes. We coupled this observational study with a global meta-analysis of published data on waterbird preening behaviour to allow a comparison of flamingos with other large waterbird taxa (Anseriformes, Ciconiiformes, Gruiformes, and Pelecaniformes). Analysis using zero-inflated generalised linear models indicated that flamingo unipedal behaviour was more common inside housing and on water. Preening effort varied markedly between flamingo species, but we detected no influence of any of the weather variables that were tested. Furthermore, our meta-analysis of waterbird behaviour indicated an interaction between latitude and season, whereby birds spent more time preening at higher latitudes during the non-breeding season, but the opposite trend was detected during the breeding season. Contrary to the popular perception, we found no evidence that flamingos spend more time preening than other waterbirds; indeed, our analysis indicated that, among the five waterbird orders assessed, Pelecaniformes preened the most. However, waterbird preening effort was higher for captive populations (across all species) relative to their free-living counterparts. Our study provides new insight into long-held perceptions of the behaviour of flamingos and other waterbirds.

Survey of severe acute respiratory syndrome coronavirus 2 in captive and free-ranging wildlife from Spain

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), considered a zoonotic agent of wildlife origin, can infect various animal species, including wildlife in free-range and captive environments. Detecting susceptible species and potential reservoirs is crucial for preventing the transmission, spread, genetic evolution, and further emergence of viral variants that are major threats to global health. This study aimed to detect exposure or acute infection by SARS-CoV-2 in 420 animals from 40 different wildlife species, including terrestrial and aquatic mammals, from different regions of Spain during the 2020–2023 coronavirus disease 19 (COVID-19) pandemic. In total, 8/137 animals were positive for SARS-CoV-2 antibodies against the receptor binding domain and/or viral nucleoprotein according to independent ELISAs. However, only one ELISA-positive sample of a captive bottlenose dolphin (Tursiops truncatus) tested positive for SARS-CoV-2 neutralizing antibodies with a low titre (SNT50 38.15) according to a virus neutralization test. Cetaceans are expected to have a high risk of infection with SARS-CoV-2 according to early predictive studies due to the similarity of their angiotensin converting enzyme 2 cell receptor to that of humans. Moreover, of 283 animals analysed for SARS-CoV-2 RNA using RT-qPCR, none tested positive. Our results reinforce the importance of considering cetaceans at risk for SARS-CoV-2 infection and support taking preventive biosecurity measures when interacting with them, especially in the presence of individuals with suspected or confirmed COVID-19. Although most animals in this study tested negative for acute infection or viral exposure, ongoing surveillance of wildlife species and potentially susceptible animals is important to prevent future spillover events and detect potential novel reservoirs.

Life-history of the spiny butterfly ray, Gymnura altavela (Chondrichthyes: Myliobatiformes), kept under human care in a marine aquarium.

The Rio de Janeiro Marine Aquarium (AquaRio) is the first to successfully maintain and reproduce the spiny butterfly ray (Gymnura altavela), providing unique information about the species' biology. Seven rays were kept in captivity between 2018 and 2023, two captured on the southeastern coast of Brazil and five born in the aquarium. The applied abiotic conditions and nutrition allowed for the survival, growth, and reproduction of these individuals. Growth parameters (asymptotic disk width-DW∞ and growth coefficient-k) were estimated based on the von Bertalanffy model using the Fabens method for males and females separately. The best models estimated DW∞ = 106.47 cm and k = 0.396 for males and DW∞ = 172.2 cm and k = 0.190 for females. Sexual dimorphism was corroborated, with females reaching larger sizes and presenting slower growth rates than males. The estimated k values were higher than those estimated for rays of similar size to G. altavela in the natural environment, probably due to the constant water temperature (around 25.5°C), food abundance, low population density, reduced predation rates, and high water quality in the captive environment. A comparison of the captivity findings with other studies on G. altavela age and growth in the Atlantic and Mediterranean indicates a broad phenotypic plasticity regarding growth. Three G. altavela reproductions were recorded, with size at birth appearing to be a key factor for pup's survival. Behavioral pattern observations associated with reproduction are also described, encompassing chasing and copulation, whereas the species' internal morphology is described through coelomic cavity ultrasound scanning.

Influence of temperature on hatching success of skipjack tuna (Katsuwonus pelamis): Implications for spawning availability of warm habitats.

Exploring the effects of water temperature on egg development in skipjack tuna (Katsuwonus pelamis) has substantial implications for evaluations of wild spawning habitats. In the present study, we examined the hatching success and duration as a function of temperature from 21 to 33°C under captive environments. A high hatching rate of over 50% between 23 and 31°C was observed, with the shortest hatching duration at 31°C. Because the egg period is vulnerable to predators, a shortened hatching duration with warming water would be ecologically advantageous for K. pelamis, as its main spawning grounds are located in tropical areas.

Evaluating the impact of captive ancestry on the growth and survival of Delta Smelt in a captive environment

Delta Smelt Hypomesus transpacificus, is an endangered fish endemic to the California San Francisco Bay-Delta, USA. Extreme declines of the wild Delta Smelt population have prompted use of cultured fish to supplement the wild population since 2021 to prevent the extinction of the species. However, evidence of adaptation to captivity in the conservation hatchery has raised concerns about the use of captive-bred fish for supplementation and how these fish may differ from wild Delta Smelt. We conducted a study over two consecutive years to investigate the effects of varying levels of captive ancestry on the growth and survival of cultured Delta Smelt from two different domestication index (DI) groups, capturing high DI and low DI values. Fish growth and survival were monitored in the hatchery from larval to adult life-stages to determine differences between DI groups. Our findings indicate that DI can have a significant influence as we observed reduced growth and survival of low DI fish at multiple life-stages. The results suggest that the DI of released hatchery-reared Delta Smelt may affect the performance of their offspring in the natural environment. Further studies might be necessary to develop a better management strategy on the released fish to enhance the conservation efforts.

Global Overview of Environmental Enrichment Studies: What Has Been Done and Future Directions.

(1) Background: Environmental enrichment (EE) is a management principle aimed at meeting the needs of animals under human care by identifying and providing essential environmental stimuli to contribute to the integrity of their psychological and physiological well-being. Studies on EE have been carried out worldwide, but consolidated information on how it has been used, who it has been used for, how it has been evaluated, and what gaps still exist in the subject is scarce in the scientific literature. This study assessed, employing a systematic review, the global scenario of research into EE in animals kept under human care over the last 17 years, answering the above-mentioned questions. (2) Methods: A search for EE papers was carried out in the Web of Science and Scopus databases from January 2005 to December 2021, resulting in 2002 articles from which information was extracted. (3) Results: Results showed an increase in the number of articles published on EE, especially in farms, but studies in laboratory environments continue to be more frequent. Mammals and birds are the most studied animal groups. Cognitive enrichment is the least utilised by researchers. The number of publications by researchers from countries in the southern hemisphere is low. (4) Conclusions: Although the technique of EE is being widely used, it is still focused on certain groups of animals in certain captive environments and carried out mainly in the northern hemisphere of the planet. Therefore, the gaps pointed out here need to be filled by future studies.

Consequences of domestication in eastern oyster: Insights from whole genomic analyses.

Selective breeding for production traits has yielded relatively rapid successes with high-fecundity aquaculture species. Discovering the genetic changes associated with selection is an important goal for understanding adaptation and can also facilitate better predictions about the likely fitness of selected strains if they escape aquaculture farms. Here, we hypothesize domestication as a genetic change induced by inadvertent selection in culture. Our premise is that standardized culture protocols generate parallel domestication effects across independent strains. Using eastern oyster as a model and a newly developed 600K SNP array, this study tested for parallel domestication effects in multiple independent selection lines compared with their progenitor wild populations. A single contrast was made between pooled selected strains (1-17 generations in culture) and all wild progenitor samples combined. Population structure analysis indicated rank order levels of differentiation as [wild - wild] < [wild - cultured] < [cultured - cultured]. A genome scan for parallel adaptation to the captive environment applied two methodologically distinct outlier tests to the wild versus selected strain contrast and identified a total of 1174 candidate SNPs. Contrasting wild versus selected strains revealed the early evolutionary consequences of domestication in terms of genomic differentiation, standing genetic diversity, effective population size, relatedness, runs of homozygosity profiles, and genome-wide linkage disequilibrium patterns. Random Forest was used to identify 37 outlier SNPs that had the greatest discriminatory power between bulked wild and selected oysters. The outlier SNPs were in genes enriched for cytoskeletal functions, hinting at possible traits under inadvertent selection during larval culture or pediveliger setting at high density. This study documents rapid genomic changes stemming from hatchery-based cultivation of eastern oysters, identifies candidate loci responding to domestication in parallel among independent aquaculture strains, and provides potentially useful genomic resources for monitoring interbreeding between farm and wild oysters.

Metabarcoding analysis provides insight into the link between prey and plant intake in a large alpine cat carnivore, the snow leopard.

Species of the family Felidae are thought to be obligate carnivores. However, detection of plants in their faeces raises questions about the role of plants in their diet. This is particularly true for the snow leopard (Panthera uncia). Our study aimed to comprehensively identify the prey and plants consumed by snow leopards. We applied DNA metabarcoding methods on 90 faecal samples of snow leopards collected in Kyrgyzstan, employing one vertebrate and four plant markers. We found that argali (Ovis ammon) was detected only from male snow leopards. Myricaraia sp. was the most consumed among 77 plant operational taxonomic units found in snow leopard samples. It frequently appeared in samples lacking any prey animal DNA, indicating that snow leopards might have consumed this plant especially when their digestive tracts were empty. We also observed differences in the patterns of plant consumption between male and female snow leopards. Our comprehensive overview of prey and plants detected in the faeces of snow leopards and other sympatric mammals will help in formulating hypotheses and guiding future research to understand the adaptive significance of plant-eating behaviour in felids. This knowledge supports the enhancement of their captive environments and the conservation planning of their natural habitats.

Response to food restriction, but not social information use, varies seasonally in captive cardueline finches.

For songbirds, temperate winters can impose severe conditions on songbirds that threaten survival, including shorter days and often lower temperature and food availability. One well-studied mechanism by which songbirds cope with such conditions is seasonal acclimatization of thermal metabolic traits, with strong evidence for both preparative and responsive changes in thermogenic capacity (i.e., the ability to generate heat) to low winter temperature. However, a bird's ability to cope with seasonal extremes or unpredictable events is likely dependent on a combination of behavioral and physiological traits that function to maintain allostatic balance. The ability to cope with reduced food availability may be an important component of organismal response to temperate winters in songbirds. Here we compare responses to experimentally reduced food availability at different times of year in captive red crossbills (Loxia curvirostra) and pine siskins (Spinus pinus) - two species that cope with variable food resources and live in cold places - to investigate seasonal changes in the organismal response to food availability. Further, red crossbills are known to use social information to improve response to reduced food availability, so we also examine whether use of social information in this context varies seasonally in this species. We find that pine siskins and red crossbills lose less body mass during time-restricted feedings in late winter compared to summer, and that red crossbills further benefit from social information gathered from observing other food restricted red crossbills in both seasons. Observed changes in body mass were only partially explained by seasonal differences in food intake. Our results demonstrate seasonal acclimation to food stress and social information use across seasons in a controlled captive environment and highlight the importance of considering diverse physiological systems (e.g., thermogenic, metabolic, digestive, etc) to understand organismal responses to environmental challenges.

Comparative Analysis of How the Fecal Microbiota of Green-Winged Saltator (Saltator similis) Diverge among Animals Living in Captivity and in Wild Habitats.

The microbiota's alteration is an adaptive mechanism observed in wild animals facing high selection pressure, especially in captive environments. The objective of this study is to compare and predict the potential impact of habitat on the fecal bacterial community of Saltator similis, a songbird species that is a victim of illegal trafficking, living in two distinct habitats: wild and captivity. Nine wild and nine captive S. similis were sampled, and total bacterial DNA was obtained from the feces. Each DNA sample was employed to the amplification of the V4 region of the 16S rDNA following high-throughput sequencing. The most predominant phyla in all songbirds, irrespective of habitat, were Firmicutes, Bacteroidota, Proteobacteria, and Actinobacteriota. Interestingly, a microbiota profile (phylogenetic and abundance relationship) related to habitat was identified. The genera "Candidatus Arthromitus", Acinetobacter, Kocuria, and Paracoccus were exclusively identified in animals living in captivity, which can be a potential biomarker associated with birds in captive environments. This study presents the first description of the fecal bacterial community composition of S. similis living two different lifestyles. Finally, our results suggest that the lifestyle of S. similis birds significantly impacts the composition of the fecal microbiota. The animals living in captivity showed dysbiosis in the microbiota, with some bacteria genera being indicated as biological markers of environmental behavior. Thus, the present research provides a new concept of life quality measure for songbirds.

Maintaining the native gut microbiota of bharal (Pseudois nayaur) is crucial in ex situ conservation.

As wildlife protection continue to strengthen, research on the gut microbiota of wildlife is increasing. Carrying out conservation and research on endangered species in the Qinghai Tibet Plateau plays an important role in global biodiversity conservation. This study utilized 16S rRNA sequencing of fecal samples to investigate the composition, function, and changes of the gut microbiota of bharal in different environments, seasons, and genders. The results showed that Firmicutes and Bacteroidota were the dominant phyla and UCG-005, Bacteroides, UCG-010 were the dominant genera of bharal. In the wild, the abundance of Firmicutes increased which was conducive to the decomposition and utilization of cellulose, hemicellulose, and carbohydrate. Due to the variety of food types and nutrition in different seasons, the composition and function of gut microbiota were obviously different between genders. Compared with zoo, higher alpha diversity, a more complex gut microbiota network structure, and stronger metabolic function were conducive bharal to adapting to the wild environment. In the zoo, captive bharals were fed foods rich in high fat and protein, which increased the abundance of Bacteroidota and reduced the alpha diversity of gut microbiota. A fixed diet unified the gut microbiota between genders of bharal. It is very important to pay attention to the impact of captive environments and maintain the native gut microbiota of wildlife.