Migratory Birds Research Articles

Afro-Palaearctic migrant birds rid themselves of haemoparasite infections when breeding in the temperate zone.

In migratory passerines, the prevalence and parasitaemia of blood parasites often increase towards the end of the breeding season. Consequently, post-breeding migration to winter quarters can be seen as a strategy to avoid the rising pathogen pressure during this time (migratory escape). I studied haemoparasite infections in sedge warblers (Acrocephalus schoenobaenus) inhabiting natural wetlands in southern Poland, examining the same individuals just after their arrival from wintering grounds, and again during incubation or nestling feeding. The birds were found to be infected more often immediately after arrival than during subsequent sampling. Parasitaemia also decreased significantly as the season progressed. The health status of individuals appeared to improve during the breeding season, whereas the higher level of parasitaemia just after arrival suggests that infections had occurred earlier, on the wintering grounds or during migratory stopovers.

En route activity of Chilean Elaenia, a long‐distance migratory bird in South America

En route activity of Chilean Elaenia, a long‐distance migratory bird in South America

Lack of Serological and Molecular Evidence of Duck Tembusu Virus Infection in Ducks from South Korea

The duck Tembusu virus (DTMUV), an emerging flavivirus, has led to severe neurological disorders and substantial economic losses in the duck industry throughout Asia. Considering South Korea’s increasing duck production and its strategic location along the East Asian–Australasian Flyway, this study aimed to assess the presence of DTMUV in South Korea to evaluate potential risks to the poultry industry. We performed a comprehensive serological survey of 1796 serum samples from broiler and breeder ducks collected between 2011 and 2023, alongside molecular detection tests on 51 duck flocks exhibiting suspected clinical signs of DTMUV infection. The absence of serological and molecular evidence for DTMUV or other flavivirus infections suggests that these viruses have not yet affected South Korean duck populations. These findings underscore the critical need for ongoing surveillance, given the virus’s potential to disrupt agriculture and pose public health risks. The study also emphasizes the importance of maintaining stringent biosecurity measures and conducting further research to monitor and prevent DTMUV transmission, particularly due to the possible role of migratory birds and other vectors in spreading zoonotic diseases.

Beware of hitchhiking ticks? Clarifying the variable roles of bird species in tick movement along migratory routes

Ticks are blood‐feeding parasites which act as major vectors for various pathogenic microorganisms affecting both animal and human health. Hard ticks are known to move passively (i.e. ‘hitchhike') on migratory birds as they transit between breeding and non‐breeding grounds. This potentially leads to exchange and establishment of non‐endemic tick species in novel environments. However, it is not yet clear if all migratory bird taxa play an equal role in movement of specific tick species, especially outside of medically important tick taxa. To clarify these interactions, we performed a systematic literature review regarding primary data of ticks moving on migratory birds within the African–Western Palearctic flyways. In total, 35 studies were found which showed 123 bird species from 37 families and 12 orders connected to potential movement of 30 tick species representing six genera (Amblyomma, Dermacentor, Haemaphysalis, Hyalomma, Ixodes, Rhipicephalus). Most tick species did not show high abundance for any bird species, or, if they did, only on very few. Only Ixodes ricinus and Hyalomma marginatum were estimated to be carried at above average burdens by multiple bird species. This could indicate an increased likelihood of these species to be moved during migration. Specific tick species or whole genera were only found in certain migratory seasons as expected based on their geographic distributions. Even so, species found in both migratory seasons did not differ in their estimated abundances on birds between seasons. This result could suggest that tick abundance on migrating birds is not always a direct result of geographic distribution and may suggest an understudied importance of stopover sites towards potential tick introduction or turnover. Taken together, the results presented here provide guiding information for future analyses integrating individual level variation into the current understanding of tick movement with migratory birds.

Studies on biodiversity of Nycticorax nycticorax- Linnaeus, 1758 at Manchar Lake, Sindh, Pakistan

The lake manchar is considered as one of the largest freshwater lakes in Pakistan, it’s located in district of Jamshoro. This wetland plays a substantial role in providing habitats to variety of resident and migratory birds. It provides shelter to the vast biodiversity that has daily and seasonal dependencies for all the life-support systems. Birds use this lake for drinking water, breeding, rearing young ones and social interactions. Meanwhile, birds play important role in balancing the ecosystem and food web of the ecosystem by conserving maintainable population levels of prey and predator species, and after death provide food to scavengers as well as decomposers. Birds are best pollinators, help in plant production through their services as pollinators or seed dispersers and increase forest growth, also help in environmental conservation. Considering the valuable role of wetlands and importance of avifaunal species in agriculture, food chains, ecosystem and pharmaceutics, a comprehensive study is carried out to evaluate diversity of socio-economically valuable avifaunal species at Manchar Lake. Monthly field surveys were conducted from January 2024 to October 2024, resulting in the collection of 80 specimens of Nycticorax nycticorax. Minor variation was recorded in body parameters including body weight, size of beak, body length, wingspan, limbs length, length of tail feathers, and width of web. Nycticorax nycticorax Weight of body 302±1.53 Length of beak 72± 1.20 Length of Wingspan 190±3.22 Length of limbs 787±140.5 Length of tail feathers 314±3.12 limbs Length of body 21.5±0.95. Nycticorax nycticorax was recorded to be the predatory bird, and their occurrence was abundant in the lake premises. The highest prevalence of recorded species occurred in January, February, and March, with the lowest richness observed in June and July. The study concluded that Manchar Lake is experiencing significant pollution due to runoff from agricultural fields, residential areas, and other sources. This pollution, combined with factors such as massive hunting, climatic changes, seasonal fluctuations, and decreasing food resources, has led to a decline in bird populations at the lake

Climate Change and Its Impacts on Saker (Falco cherrug) and Peregrine (Falco peregrinus) Falcons: How the Changes Will Affect Their Migration, Diet, Offspring, and Conservation Efforts

Climate change is considered as a real danger to many birds including raptors such as the Saker falcons (Falco cherrug) and Peregrine falcons (Falco peregrinus). This article answers the question of how climate change shifts the migration, feeding, and breeding habits of these raptors. These migratory birds keep facing disturbances in their yearly cycle due to recent changes in temperature, precipitation patterns, and pollution. This results in changes in the migration points, as they travel for longer or shorter distances, especially to make their nestlings, and changes in their prey availability, affecting their migration pattern. Also, air pollution affected them significantly, where mercury (Hg) and lead (Pb) levels in their feathers were significantly high. Fortunately, it has not affected their general health yet. As for their reproduction success, it was interrupted, making it necessary to take conservation initiatives and tactics to save these species amid climate-induced alterations by analyzing ecological interconnections and evolutionary mechanisms. The findings highlight the necessity of mitigating climate change effects on migrating raptors to guarantee their survival rate is high and satisfy ecological system equilibrium.

Non‐breeding home range and habitat use by European Pied Flycatcher (Ficedula hypoleuca) in northwest Liberia: apparent resilience to forest degradation?

Identifying population drivers of migratory birds requires knowledge of species' ecology throughout their annual cycle. For most Afro‐Palaearctic migratory species, little is known about non‐breeding habitat use, despite extensive land use change in non‐breeding areas of sub‐Saharan Africa being a key factor implicated in population decline. We radio‐tracked 54 Pied Flycatchers Ficedula hypoleuca at two sites of differing levels of forest disturbance, in Liberia, western Africa, over three non‐breeding seasons to determine home range size and site fidelity, and describe habitat and tree species preference within home ranges. We found high territory fidelity both within and between years, and a preference for well‐wooded landscapes. We found that Pied Flycatcher presence was positively associated with large and mature trees, and areas with a higher density of trees. Pied Flycatchers preferred several tree species that were uncommon within home ranges, and several non‐native tree species likely to support a high invertebrate abundance. Pied Flycatchers preferentially selected areas burnt in the same or previous winter, possibly related to enhanced food resources associated with vegetation regrowth following burning. We also found no significant difference in home range size between sites and similar habitat associations despite differences in habitat disturbance. This suggests that human‐modified habitats may remain suitable for Pied Flycatchers, as long as they retain moderate tree cover, especially larger, taller and more mature trees, whether native or non‐native.

Migratory birds have a distinct haemosporidian community and are temporally decoupled from vector abundance at a stopover site.

Migratory animals likely play an important role in the geographic spread of parasites. In fact, a common assumption is that parasites are potentially transmitted by migratory animals at temporary stopover sites along migratory routes, yet very few studies have assessed whether transmission at stopover sites can or does occur. We investigated the potential for a group of vector-transmitted parasites, the avian haemosporidians, to be transmitted during migratory stopover periods at Rushton Woods Preserve in Pennsylvania, USA. Using an analysis of 1454 sampled avian hosts, we found that while a core group of abundant haemosporidians was shared between local breeding birds and passing migrants, the parasite community of migratory birds at Rushton was distinct from that of local breeding birds and showed similarity to a previously sampled boreal forest haemosporidian community. Haemosporidians that were unique to passing migratory birds were associated with sampling sites in North America with cooler summer temperatures than haemosporidians that are transmitted at Rushton, suggesting that the transmission of these parasites may be restricted to high-latitude regions outside of our temperate stopover site. We also found that the abundance of mosquitoes in our study region is offset from that of migratory bird abundance during avian migratory periods, with the peak period of bird migration occurring during periods of low mosquito activity. Collectively, these findings suggest that although abundant haemosporidians are possibly transmitted between local and passing migratory birds, a combination of biotic and abiotic factors may constrain haemosporidian transmission during avian stopover at our study site.

The underlying causes of differential migration: assumptions, hypotheses, and predictions.

Mechanisms governing the migratory decisions of birds have long fascinated ecologists and sparked considerable debate. Identifying factors responsible for variation in migration distance, also known as differential migration, has been a popular approach to understanding the mechanisms underlying migratory behaviour more generally. However, research progress has been slowed by the continued testing of overlapping, non-mechanistic, and circular predictions among a small set of historically entrenched hypotheses. We highlight the body size hypothesis and suggest that the predictions commonly tested have impeded progress because body size relationships with migration distance are predictions made by several distinct hypotheses with contrasting mechanisms. The cost of migration itself has not been adequately accounted for in most hypotheses, and we propose two flight efficiency hypotheses with time- and energy-minimizing mechanisms that allow individuals to mitigate the risks inherent to longer migrations. We also advance two conceptual versions of the social dominance hypothesis based on two distinct underlying mechanisms related to distance minimization and food maximization that will help clarify the role of competition in driving migratory decisions. Overall, we describe and refine 12 mechanistic hypotheses proposed to explain differential migration (along with several other special-case hypotheses), seven of which have underlying mechanisms related to food limitation as past research has identified this to be an important driver of differential migration. We also thoroughly reviewed 145 publications to assess the amount of support for 10 critical assumptions underlying alternative hypotheses for differential migration in birds. Our review reveals that surprisingly few studies explicitly evaluate assumptions within a differential migration context. Generating and testing strong predictions and critical assumptions underlying mechanisms of alternative hypotheses will improve our ability to differentiate among these explanations of differential migration. Additionally, future intraspecific progress will be greatest if investigators continue to focus on mechanisms underlying variation in migration distance within rather than among demographic classes, as previous research has found differing mechanisms to be responsible for differential migration among demographic classes. Interspecifically, a thorough comparative analysis that seeks to explain variation in migration distance among species would broaden both our understanding of the mechanisms regulating current differential migration patterns and those that led to the evolution of migration more generally. Collectively, we provide a framework that, together with advances in animal-borne tracking and other technology, can be used to advance our understanding of the causes of differential migration distance, and migratory decisions more generally.

The highly pathogenic avian influenza H5N8 sublineage 2.3.4.4b virus: A critical analysis of genetic steadiness based on full HA gene sequencing in Egypt

The highly pathogenic avian influenza virus (HPAIV) continues to be a significant threat to the poultry industry despite the implementation of vaccination programs. The main goal of this study was to explore the incidence of avian influenza viruses (AIVs) and the stability of the hemagglutinating (HA) gene sequence. For this drive, oropharyngeal swabs (n=425) were collected from various wild and domesticated bird species from 13 provinces in Egypt from 2019 to 2021. Viral isolation in specific pathogen-free chicken embryos revealed positive HA activity in 9.88% (n=32) of the wild and 36.37% (n=64) of domesticated species. Only eight H5N8 avian influenza viruses were delivered (4/each category) in mixed infection with Newcastle disease virus (NDV). Clinically, domesticated examined birds exhibited clinical findings suggesting avian influenza, but AIVs were delivered from both apparently healthy and sick wild birds. A/chicken-cobb/Egypt/55/2019(H5N8) sequence generated in this study has been submitted to GenBank under the accession number ON724339, and its in vivo pathogenicity was evaluated in four-week-old chickens, which revealed 90% mortality and typical clinical findings of HPAIV. Based on the full HA gene sequence, the strain has a Furin-sensitive cleavage site in the HA protein, which is an HPAIV. It has been clustered in clade 2.3.4.4b within AIVs from 2016 to 2023 and coexistence of genetically stable viruses 2016-2019 with 99.8-100% similarity. The existing strain is fully identical to three strains: A/green-winged teal/Egypt/877/2016(H5N8), A/northern shoveler/Egypt/MB-D-816OP/2016(H5N8), and A/duck/Egypt/N13736E/2017 (H5N8), with the only point of mutation at position 284 (G284E). In our analysis, the majority of H5NX AIV strains detected in Egypt since 2016 possessed 156T. As a result, there is evidence suggesting that H5N8 has been introduced sequentially through the migration of European wild birds along the Black Sea–Mediterranean and East Asia–West Africa flyways. This raises the possibility of future adaptation to mammals due to spillover from avian-origin strains, especially in native aquatic birds such as geese and ducks.

Reassortants of the Highly Pathogenic Influenza Virus A/H5N1 Causing Mass Swan Mortality in Kazakhstan from 2023 to 2024

In the winter of 2023/2024, the mass death of swans was observed on Lake Karakol on the eastern coast of the Caspian Sea. From 21 December 2023 to 25 January 2024, 1132 swan corpses (Cygnus olor, Cygnus cygnus) were collected and disposed of on the coast by veterinary services and ecologists. Biological samples were collected from 18 birds for analysis at different dates of the epizootic. It was found that the influenza outbreak was associated with a high concentration of migrating birds at Lake Karakol as a result of a sharp cold snap in the northern regions. At different dates of the epizootic, three avian influenza A/H5N1 viruses of clade 2.3.4.4.b were isolated from dead birds and identified as highly pathogenic viruses (HPAIs) based on the amino acid sequence of the hemagglutinin multi-base proteolytic cleavage site (PLREKRRRKR/G). A phylogenetic analysis showed that the viruses isolated from the swans had reassortations in the PB2, PB1, and NP genes between highly pathogenic (HP) and low-pathogenic (LP) avian influenza viruses. Avian influenza viruses A/Cygnus cygnus/Karakol lake/01/2024(H5N1) and A/Mute swan/Karakol lake/02/2024(H5N1) isolated on 10 January 2024 received PB2, PB1, and NP from LPAIV, while A/Mute swan/Mangystau/9809/2023(H5N1) isolated on 26 December 2023 received PB1 and NP from LPAIV, indicating that the H5N1 viruses in this study are new reassortants. All viruses showed amino acid substitutions in the PB2, PB1, NP, and NS1 segments, which are critical for enhanced virulence or adaptation in mammals. An analysis of the genomes of the isolated viruses showed that bird deaths during different periods of the epizootic were caused by different reassortant viruses. Kazakhstan is located at the crossroads of several migratory routes of migratory birds, and the possible participation of wild birds in the introduction of various pathogens into the regions of Kazakhstan requires further study.

Learning and Social Influence on Bird Migration

Learning and Social Influence on Bird Migration

Comparing winter distribution and harvest rates of transmitter‐marked and banded‐only mallards in western Tennessee

AbstractThe miniaturization of Global Positioning Systems (GPS) transmitters is providing insights into the ecology and management of migratory bird species at biologically‐relevant spatial scales. However, transmitters and their attachment methods could bias inferred behaviors, demographic rates, and resulting management decisions. We evaluated the effects of external harness‐style GPS transmitters by comparing direct harvest rates, winter dispersal distances, and subsequent harvest distributions of mallards (Anas platyrhynchos) equipped with GPS transmitters (n = 443) to a tarsal banded‐only control group (n = 1,123) captured in western Tennessee during winters 2019–2022. We found that transmitter‐marked mallards had similar harvest rates, winter dispersal distances, and harvest distributions as banded‐only mallards. Time between capture and harvest predicted dispersal distances but there was no effect of marker type. Specifically, the average time from capture to harvest was 30 (SE = 2) and 31 (SE = 3) days for banded‐only and transmitter‐marked mallards, respectively. Harvest rate () was only 2.2% greater for transmitter‐marked mallards compared to banded‐only mallards overall, but GPS transmitters affected harvest susceptibility of juveniles ( = 14.5%). Based on harvest rates and dispersal distances between transmitter‐marked and banded‐only cohorts, we suggest 7‐ to 10‐day data censoring periods may be warranted, especially for juveniles, as mallards acclimate to GPS transmitters. Overall, we concluded that modern harness‐style GPS transmitters provided reliable information of wintering mallard space use, movements, and harvest mortality and can be used to inform ecology and management of wintering mallards and other dabbling ducks. Future studies should evaluate effects of harness‐style GPS transmitters for other species and during different portions of dabbling ducks' life cycle, such as migration or nesting, when they may experience greater adverse effects.

Global Dynamics of Bird Migration: Trends, Mechanisms and Conservation Challenges

Global bird migration is a complex phenomenon influenced by a multitude of factors, including climate change, habitat loss, and human activities. This paper explores the trends in migratory patterns observed over recent decades, highlighting shifts in timing, routes, and species distributions Bird migrations are behavioural occurrences, exemplifying intricate spatiotemporal tactics to optimise living expenses while enhancing fitness. Birds express a range of migratory patterns, from highly predictable obligate migration, to less predictable nomadic and fugitive migrations. Despite significant advancements in bird migration studies, still certain essential gaps remain. Due to technological advancement, bird migration studies have uncovered significant insights into the behavioural, cognitive, physiological, and evolutionary underpinnings. The seasonal variability of bird populations presents an intriguing phenomenon for avid observers to discern their origins, migratory routes, and return patterns. Among the remarkable migrations executed by several species of fish, animals, and insects, birds exemplify the highest degree of mobility among all living forms on Earth. This paper gives reasons for all Bird migration strategies with a view toward the preservation of Bird ecosystems and assurance of Environmental sustainability.

Review of Lyme Borreliosis in Africa—An Emerging Threat in Africa

Lyme borreliosis (LB) is more common in the Northern Hemisphere. It is endemic mainly in North America, where the vectors are Ixodes scapularis and Ixodes pacificus, and in Eurasia, where the vectors are Ixodes ricinus and Ixodes persulcatus. Both tick-borne diseases and LB are influenced by climate change. Africa and South America are crossed by the equator and are situated in both the Northern and Southern Hemispheres. In Africa, the LB is present on the Mediterranean and the Indian Ocean coasts. Borrelia lusitaniae is prevalent in countries bordering the Mediterranean Sea, such as Tunisia, Morocco, Algeria, and Egypt. Ticks were detected in the Ixodes Ricinus, which are carried by migratory birds and the Ixodes inopinatus and captured by the Psammodromus algirus lizards. The Borreliae Lyme Group (LG) and, in particular, Borrelia garinii, have been reported in countries bordering the Indian Ocean, such as Kenya, Tanzania, and Mozambique, transported by migratory birds from North African countries, where the vector was identified as Hyalomma rufipes ticks. This review aims to document the presence of Borreliae LG and LB in Africa.

Using mercury and lead stable isotopes to assess mercury, lead, and trace metal source contributions to Great Salt Lake, Utah, USA

Great Salt Lake is a critical habitat for migratory birds that is threatened by elevated metal concentrations, including mercury (Hg) and lead (Pb), and is subject to severe hydrologic changes, such as declining lake level. When assessing metal profiles recorded in Great Salt Lake sediment, a large data gap exists regarding the sources of metals within the system, which is complicated by various source inputs to the lake and complex biogeochemistry. Here, we leverage Hg and Pb stable isotopes to track relative changes in metal source contributions to Great Salt Lake over time. Mercury and Pb concentrations increase in sediments deposited after 1920 and peak between 1965 and 1995, following closure of several local smelters and the onset of increased emission controls. The nominal associations above are confirmed via Hg stable isotopes in pre-1920 background sediments, which reflect atmospheric inputs from regional and global origin, whereas Hg and Pb stable isotopes together indicate that elevated metal concentrations in mid-late 20th century sediments reflect increased mining/smelting inputs. The observed minimal rebound towards pre-1920 Pb isotope signatures in 21st century sediments indicates that mining/smelting inputs, though reduced, remain a primary source of Pb to Great Salt Lake. In contrast, the more pronounced rebound of Hg stable isotope signatures to pre-1920 values indicate a greater contribution of atmospheric inputs of regional/global origin to current Hg inputs, though Hg concentrations are ~10 times greater than pre-1920 background values due to global increases in atmospheric Hg concentrations or possibly slow recovery from local contamination. The importance of regional/global Hg sources to the system suggests that reductions in Hg bioaccumulation in the open water food webs of Great Salt Lake are more dependent on national and global reductions in Hg emissions and management strategies to limit methylmercury production within system. This work highlights the utility of using coupled Hg and Pb stable isotope values to assess trace metal pollution sources and pathways in aquatic systems.

Evaluation of methods to estimate nocturnal bird migration activity: C comparison of radar and nocturnal flight call monitoring in the American West

Evaluation of methods to estimate nocturnal bird migration activity: C comparison of radar and nocturnal flight call monitoring in the American West

Virulence and Antimicrobial Resistance Patterns of Salmonella spp. Recovered From Migratory and Captive Wild Birds.

Salmonella spp., especially those are resistant to extended-spectrum β-lactamase (ESBL), are considered as major concern to global health due to their emergence and dissemination. The aim of this study was to investigate the virulence and antimicrobial resistance (AMR) profile of Salmonella spp. from migratory and captive wild birds. A total 262 faecal samples were collected, and the identification of Salmonella spp. was carried out using a standard culture and PCR as well as molecular detection of virulence and AMR genes. The overall prevalence of Salmonella was determined to be 30.92% (95% CI = 25.63-36.75). Migratory birds exhibited highest prevalence (38.10%), whereas wild birds in captivity showed a lower prevalence (23.40%). The agfA gene was detected at a higher rate at 24.69%. Salmonella spp. exhibited 100% resistance to tetracycline, followed by 58% ampicillin and 46% streptomycin. In addition, there was a resistance rate to ceftriaxone of 17% and to colistin sulphate of 25%. Interestingly, levofloxacin alone displayed 100% sensitivity across all isolates, while ciprofloxacin and azithromycin showed 73% and 64% sensitivity, respectively. The MAR index was 0.25 and 0.42, and 74.07% of all isolates showed multidrug resistance (MDR). It was shown that migratory and captive wild birds contained ESBL genes blaTEM (94.34% and 49.06%) and blaSHV (13.33% and 10%), respectively. Genes responsible for sulphonamide (sul1) resistance were detected in 13.33% and 79% of wild and migratory birds, respectively. Salmonella has been found in captive wild and migratory birds and could act as reservoirs for the transmission of MDR and ESBL bacteria.

Migratory birds can extract positional information from magnetic inclination and magnetic declination alone.

Migratory birds are able to navigate over great distances with remarkable accuracy. The mechanism they use to achieve this feat is thought to involve two distinct steps: locating their position (the 'map') and heading towards the direction determined (the 'compass'). For decades, this map-and-compass concept has shaped our perception of navigation in animals, although the nature of the map remains debated. However, some recent studies suggest the involvement of the Earth's magnetic field in the map step. Here, we tested whether migratory songbirds, Eurasian reed warblers (Acrocephalus scirpaceus), can determine their position based on two magnetic field components that are also associated with direction finding, i.e. magnetic inclination and magnetic declination. During a virtual magnetic displacement experiment, the birds were exposed to altered magnetic inclination and magnetic declination values that would indicate a displacement from their natural migratory corridor, but the total intensity of the field remained unchanged, creating a spatial mismatch between these components. The response was a change in the birds' migratory direction consistent with a compensatory re-orientation. This suggests that birds can extract positional as well as directional information from these cues, even when they are in conflict with another component of the magnetic field. It remains to be seen whether birds use the total intensity of Earth's magnetic field for navigation.

Gut microbiota and antibiotic resistance genes in endangered migratory Scaly-sided merganser (Mergus squamatus) in northeast China

Studying the diversity of gut microbiota and antibiotic resistance genes (ARGs) in endangered migratory birds, as well as their responses to different environments, can reflect the health status of migratory birds and the ecological risk of ARG transmission. The globally endangered Scaly-sided merganser (Mergus squamatus) is a typical migratory bird, yet the diversity of its intestinal microbiota and ARGs has not been reported. In this study, fecal samples were collected from two major riparian foraging areas utilized by M. squamatus in the Changbai Mountains of China: the Lushui River and the Manjiang River. The gut microbiota and ARG composition were characterized using 16S rRNA amplicon and metagenomic sequencing. The results indicated that the relative abundance of gut microbiota in the two habitats differed significantly, but the core flora was similar. Moreover, the relative abundance of pathogenic bacteria was high, suggesting that M. squamatus faces a high risk of disease. A total of 382 ARGs were identified, which were primarily resistant to multidrug, tetracycline, macrolides-lincosamides-streptogramins, and mupirocin. MsbA, abcA, rpoB2, and tetT were the most abundant shared ARGs between the two sites. The findings demonstrate that habitat influences the diversity of gut microbiota and ARGs in the endangered migratory M. squamatus. This species could serve as a reservoir for pathogenic bacteria and ARGs. Therefore, monitoring the diversity of gut microbiota and ARGs in M. squamatus across different habitats is essential for a comprehensive assessment of its health status and the ecological risk of ARG transmission in the future.