Merging Metagenomics and Spatial Epidemiology To Understand the Distribution of Antimicrobial Resistance Genes from Enterobacteriaceae in Wild Owls.

Antimicrobial resistance (AMR) is a well-documented phenomenon in bacteria from many natural ecosystems, including wild animals. However, the specific determinants and spatial distribution of resistant bacteria and antimicrobial resistance genes (ARGs) in the environment remain incompletely understood. In particular, information regarding the importance of anthropogenic sources of AMR relative to that of other biological and ecological influences is lacking. We conducted a cross-sectional study of AMR in great horned owls (Bubo virginianus) and barred owls (Strix varia) admitted to a rehabilitation center in the midwestern United States. A combination of selective culture enrichment and shotgun metagenomic sequencing was used to identify ARGs from Enterobacteriaceae Overall, the prevalence of AMR was comparable to that in past studies of resistant Enterobacteriaceae in raptors, with acquired ARGs being identified in 23% of samples. Multimodel regression analyses identified seasonality and owl age to be important predictors of the likelihood of the presence of ARGs, with birds sampled during warmer months being more likely to harbor ARGs than those sampled during cooler months and with birds in their hatch year being more likely to harbor ß-lactam ARGs than adults. Beyond host-specific determinants, ARG-positive owls were also more likely to be recovered from areas of high agricultural land cover. Spatial clustering analyses identified a significant high-risk cluster of tetracycline resistance gene-positive owls in the southern sampling range, but this could not be explained by any predictor variables. Taken together, these results highlight the complex distribution of AMR in natural environments and suggest that both biological and anthropogenic factors play important roles in determining the emergence and persistence of AMR in wildlife.IMPORTANCE Antimicrobial resistance (AMR) is a multifaceted problem that poses a worldwide threat to human and animal health. Recent reports suggest that wildlife may play an important role in the emergence, dissemination, and persistence of AMR. As such, there have been calls for better integration of wildlife into current research on AMR, including the use of wild animals as biosentinels of AMR contamination in the environment. A One Health approach can be used to gain a better understanding of all AMR sources and pathways, particularly those at the human-animal-environment interface. Our study focuses on this interface in order to assess the effect of human-impacted landscapes on AMR in a wild animal. This work highlights the value of wildlife rehabilitation centers for environmental AMR surveillance and demonstrates how metagenomic sequencing within a spatial epidemiology framework can be used to address questions surrounding AMR complexity in natural ecosystems.

Animal sources for zoonotic transmission of psittacosis: a systematic review.

BACKGROUND: Human psittacosis, caused by Chlamydia (C.) psittaci, is likely underdiagnosed and underreported, since tests for C. psittaci are often not included in routine microbiological diagnostics. Source tracing traditionally focuses on psittacine pet birds, but recently other animal species have been gaining more attention as possible sources for human psittacosis. This review aims to provide an overview of all suspected animal sources of human psittacosis cases reported in the international literature. In addition, for each animal species the strength of evidence for zoonotic transmission was estimated. METHODS: A systematic literature search was conducted using four databases (Pubmed, Embase, Scopus and Proquest). Articles were included when there was mention of at least one human case of psittacosis and a possible animal source. Investigators independently extracted data from the included articles and estimated strength of evidence for zoonotic transmission, based on a self-developed scoring system taking into account number of human cases, epidemiological evidence and laboratory test results in human, animals, and the environment. RESULTS: Eighty articles were included, which provided information on 136 different situations of possible zoonotic transmission. The maximum score for zoonotic transmission was highest for turkeys, followed by ducks, owls, and the category 'other poultry'. Articles reporting about zoonotic transmission from unspecified birds, psittaciformes and columbiformes provided a relatively low strength of evidence. A genotypical match between human and animal samples was reported twenty-eight times, including transmission from chickens, turkeys, guinea fowl, peafowl, pigeons, ducks, geese, songbirds, parrot-like birds and owls. CONCLUSIONS: Strong evidence exists for zoonotic transmission from turkeys, chickens and ducks, in addition to the more traditionally reported parrot-like animal sources. Based on our scoring system, the evidence was generally stronger for poultry than for parrot-like birds. Psittaciformes should not be disregarded as an important source of human psittacosis, still clinicians and public health officials should include poultry and birds species other than parrots in medical history and source tracing.

Movement ecology and sex are linked to barn owl microbial community composition.

The behavioural ecology of host species is likely to affect their microbial communities, because host sex, diet, physiology, and movement behaviour could all potentially influence their microbiota. We studied a wild population of barn owls (Tyto alba) and collected data on their microbiota, movement, diet, size, coloration, and reproduction. The composition of bacterial species differed by the sex of the host and female owls had more diverse bacterial communities than their male counterparts. The abundance of two families of bacteria, Actinomycetaceae and Lactobacillaceae, also varied between the sexes, potentially as a result of sex differences in hormones and immunological function, as has previously been found with Lactobacillaceae in the microbiota of mice. Male and female owls did not differ in the prey they brought to the nest, which suggests that dietary differences are unlikely to underlie the differences in their microbiota. The movement behaviour of the owls was associated with the host microbiota in both males and females because owls that moved further from their nest each day had more diverse bacterial communities than owls that stayed closer to their nests. This novel result suggests that the movement ecology of hosts can impact their microbiota, potentially on the basis of their differential encounters with new bacterial species as the hosts move and forage across the landscape. Overall, we found that many aspects of the microbial community are correlated with the behavioural ecology of the host and that data on the microbiota can aid in generating new hypotheses about host behaviour.

Epicoccum nigrum-induced respiratory infection in a wild Eurasian scops owl (Otus scops).

A wild adult Eurasian scops owl (Otus scops), which was unable to fly, was rescued. Physical examination revealed a sticky exudate around the glottis. Heterophilic leukocytosis was identified through complete blood count, and radiography revealed a marked elevated density of posterior air sacs and inner cavities in both sides of the humerus and femur. Fungal cultures of samples taken from the owl suggested a respiratory fungal infection. Through molecular typing, the fungus was identified as Epicoccum nigrum. The owl was treated with oral itraconazole and broad-spectrum antibiotics. After one month, the inner cavities of pneumatic bones were slightly distinguishable by radiography and the owl started to fly well. Two months later, the air sac and all pneumatic bones displayed normal appearance.

Wild owls colonized by international clones of extended-spectrum ß-lactamase (CTX-M)-producing Escherichia coli and Salmonella Infantis in the Southern Cone of America.

Extended-spectrum ß-lactamases (ESBLs)-producing Enterobacteriaceae have been classified as critical priority pathogens by the World Health Organization (WHO). We have conducted a microbiological and genomic surveillance study, in order to investigate the occurrence and features of antibiotic-resistant bacteria in wild birds admitted to a wildlife rescue and rehabilitation centre in Chile. This study reports for the first time the occurrence of highly virulent ESBL-producing Escherichia coli and Salmonella enterica serovar Infantis in wild owls inhabiting the Southern Cone of America. Genomic analysis revealed a wide resistome (for antibiotics, heavy metals and disinfectants) among international lineages of E. coli belonging to ST345 and ST2705, and S. Infantis ST32, producing CTX-M-8 or CTX-M-65 ESBLs. On the other hand, wide virulome was associated with a highly virulent behaviour in the Galleria mellonella infection model. Worryingly, all these lineages have been previously reported in humans, supporting that wide resistome and virulome could be contributing to rapid adaptation and dissemination of these clones at the human-animal-environment interface. In summary, wild owls can constitute environmental reservoirs of international clones of ESBL (CTX-M)-producing E. coli and S. Infantis carrying a wide resistome and virulome, in the Southern Cone of America, with potential risks to human, animal and environmental health.

Kocuria tytonicola, new bacteria from the preen glands of American barn owls (Tyto furcata).

Although birds are hosts to a large number of microorganisms, microbes have rarely been found in avian oil glands. Here, we report on two strains of a new bacterial species from the preen oil of American barn owls (Tyto furcata). Phenotypic as well as genotypic methods placed the isolates to the genus Kocuria. Strains are non-fastidious, non-lipophilic Gram-positive cocci and can be unambiguously discriminated from their closest relative Kocuria rhizophila DSM 11926T. In phylogenetic trees, the owl bacteria formed a distinct cluster which was clearly separated from all other known Kocuria species. The same conclusion was drawn from MALDI-TOF MS analyses. Once again, the new bacterial strains were very similar to one another, but exhibited substantial differences when compared to the most closely related species. Besides, the results of the biochemical tests, optimum growth conditions and pigmentation differed from closely related Kocuria spp. Finally, ANIb values of less than 87% provided striking evidence that the isolates recovered from American barn owls represent a hitherto undescribed species, for which we propose the name Kocuria tytonicola sp. nov. The type strain is 489T (DSM 104133T=LMG 29945T, taxonumber TA00340).

Kocuria tytonis sp. nov., isolated from the uropygial gland of an American barn owl (Tyto furcata).

Avian uropygial glands have received increasing attention in recent years, but little is known about micro-organisms in uropygial glands. In this study, we isolated a strain of Gram-stain-positive, non-motile, non-spore-forming cocci, designated 442T, from the uropygial gland of an American barn owl (Tyto furcata) and characterized it using a polyphasic approach. 16S rRNA gene sequence analysis placed the isolate in the genus Kocuria. The G+C content was 70.8 mol%, the major menaquinone was MK-7(H2) and the predominant cellular fatty acids were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C15 : 0. Phylogenetic analyses based on the 16S rRNA gene identified Kocuria rhizophila DSM 11926T (99.6 % similarity), Kocuria salsicia DSM 24776T (98.7 %), Kocuria varians DSM 20033T (98.3 %) and Kocuria marina DSM 16420T (98.3 %) as the most closely related species. However, average nucleotide identity values below 86 % indicated that the isolate differed from all species hitherto described. Chemotaxonomic analyses and whole-cell protein profiles corroborated these findings. Accordingly, the isolate is considered to be a member of a novel species, for which the name Kocuria tytonis sp. nov. is proposed. The type strain is 442T (=DSM 104130T=LMG 29944T).

Biofilm formation and multidrug-resistant Aeromonas spp. from wild animals.

OBJECTIVES: The 'One Health' concept recognises that the health of humans, animals and the environment are interconnected. Therefore, knowledge on the behaviour of micro-organisms from the most diverse environmental niches is important to prevent the emergence and dissemination of antimicrobial resistance. Wild animals are known to carry antimicrobial-resistant micro-organisms with potential public health impact. However, no data are available on the behaviour of sessile bacteria from wild animals, although antimicrobial resistance is amplified in biofilms. This study characterised the ciprofloxacin susceptibility and the adhesion and biofilm formation abilities of 14 distinct Aeromonas spp. (8 Aeromonas salmonicida, 3 Aeromonas eucrenophila, 2 Aeromonas bestiarum and 1 Aeromonas veronii) isolated from wild animals and already characterised as resistant to ß-lactam antibiotics. METHODS: The ciprofloxacin MIC was determined according to CLSI guidelines. A biofilm formation assay was performed by a modified microtitre plate method. Bacterial surface hydrophobicity was assessed by sessile drop contact angle measurement. RESULTS: All Aeromonas spp. strains were resistant to ciprofloxacin (MICs of 6-60µg/mL) and had hydrophilic surfaces (range 2-37mJ/m2). These strains were able to adhere and form biofilms with distinct magnitudes. Biofilm exposure to 10×MIC of ciprofloxacin only caused low to moderate biofilm removal. CONCLUSIONS: This study shows that the strains tested are of potential public health concern and emphasises that wild animals are potential reservoirs of multidrug-resistant strains. In fact, Aeromonas spp. are consistently considered opportunistic pathogens. Moreover, bacterial ability to form biofilms increases antimicrobial resistance and the propensity to cause persistent infections.

Identification of a Novel Renal Coccidian (Apicomplexa: Eimeriidae) from the Great-Horned Owl ( Bubo virginianus ), USA.

We diagnosed renal coccidiosis in two of five Great-horned Owls ( Bubo virginianus ) examined in eastern Tennessee, US, 2007-13. Histopathologic examination of the kidneys revealed multifocal mild-to-moderate dilation and epithelial hyperplasia of collecting ducts. Renal collecting duct epithelial cells contained intracytoplasmic microgametocytes, macrogametocytes, and sporulating and sporulated oocysts. Renal coccidiosis in affected birds did not result in significant inflammation. Sequence analysis of the amplified partial 18S short subunit ribosomal RNA coding region from examination of formalin fixed tissue by using PCR disclosed a 93% identity to Eimeria reichenowi in GenBank, suggesting a novel Eimeria sp.

Infecção por pox vírus e Aspergillus fumigatus em Bubo virginianus (Coruja jacurutu) / Avipoxvirus infecction in Bubo virginianus (great horned owl)

Este trabalho descreve um caso de infecção mista por pox vírus e Aspergillus fumigatus em Bubo virginianus (coruja jacurutu). A ave, um macho adulto, foi encaminhada ao Núcleo de Reabilitação da Fauna Silvestre do Instituto de Biologia da Universidade Federal de Pelotas (NURFS/CETAS/UFPEL). Apresentava bom estado corporal, estava ativa, porém com incapacidade de voo. Após três dias apresentou lesões crostosas e de aspecto verrucoso na superfície dorsal das patas. Havia, também, nódulos de mesmo aspecto na pálpebra esquerda e na cera. A ave morreu após 15 dias de sua chegada ao NURFS e foi necropsiada no Laboratório Regional de Diagnóstico da Faculdade de Veterinária da Universidade Federal de Pelotas (LRD/UFPel). Histologicamente, as lesões verrucosas caracterizavam-se por hiperplasia do epitélio e nas células das camadas basal, espinhosa, granular e córnea havia corpúsculos de inclusão intracitoplasmáticos do tipo Bollinger. Na microscopia eletrônica foram visualizadas partículas virais características de pox vírus, incluindo Bubo virginianus como um hospedeiro do vírus. Havia, ainda, infiltrado inflamatório de células mononucleares e focos de colônias bacterianas na derme. Nos pulmões havia congestão e presença de granulomas com hifas fúngicas, que pela técnica de Grocott, apresentaram ramificação dicotômica compatível com Aspergillus spp., identificado na cultura como A. fumigatus. O diagnóstico de infecção por avipoxvirus pode contribuir para estudos relacionados com a ocorrência desta doença nas populações de vida livre e como informação auxiliar para o manejo e conservação desta espécie. Sugere-se, ainda, a inclusão do uso de raios-X nos protocolos de centros de reabilitação como o diagnostico de aspergilose em aves rapinantes com bom estado corporal, porém incapazes de voar.(AU)

This paper describes a case of mixed infection by pox virus and Aspergillus fumigatus in Bubo virginianus (Owl Jacurutu). An adult male Bubo virginianus was referred to the Núcleo de Reabilitação da Fauna Silvestre, Instituto de Biologia, Universidade Federal de Pelotas (NURFS/CETAS/UFPEL). The owl was active and had a good body condition but with flight disability. After three days of their admission at NURFS the owl developed crusty and verrucous lesions at the dorsal surface of their feet. Also it had nodes on the left eyelid and cera with the same aspect. The owl died 15 days after its arrival. Necropsy and histopatological examination were carried out. The warty lesions had hyperplasia of the epithelium and intracytoplasmic Bollinger-like inclusion bodies in the basal, spinal, granulosa layer and cornea. Viral particles characteristic of pox viruses were shown by electron microscopy. This case includes Bubo virginianus as a host of the avipoxvirus. There were also a mononuclear inflammatory cell infiltrate and bacterial colonies in the dermis. In the lugs, there was congestion and presence of granulomas with intralesional fungal hyphae. With the Grocott stain those structures showed dichotomous branching which was later identified in mycological culture as characteristic for A. fumigates. The diagnosis of avipoxvirus infection can contribute to studies related to the occurrence of this disease in free-living populations and as auxiliary information for the management and conservation of this raptor species. It is also suggested to include the use of X-rays in rehabilitation center protocols as screening test to diagnose aspergillosis in birds of prey with good body condition but inability to fly.(AU)

Toxigenic Corynebacterium ulcerans isolated from a wild bird (ural owl) and its feed (shrew-moles): comparison of molecular types with human isolates.

BACKGROUND: Corynebacterium ulcerans is a pathogen causing diphtheria-like illness to humans. In contrast to diphtheria by Corynebacterium diphtheriae circulating mostly among humans, C. ulcerans infection is zoonotic. The present study aimed to clarify how a zoonotic pathogen C. ulcerans circulates among wild birds and animals. RESULTS: By screening 380 birds, a single strain of toxigenic C. ulcerans was isolated from a carnivorous bird, ural owl (Strix uralensis). The bacterium was also isolated from two individuals of Japanese shrew-mole (Urotrichus talpoides), a food preference of the owl. Analysis by ribotyping showed that the owl and mole isolates were classified in a group, suggesting that C. ulcerans can be transmissible among wild birds and their prey animals. Moreover, our isolates were found to belong to a group of previously reported C. ulcerans isolates from dogs and a cat, which are known to serve as sources for human infection. CONCLUSION: The findings suggest that the shrew-mole may be a potential reservoir of a zoonotic pathogen C. ulcerans.

A new helical crossed-fibre structure of ß-keratin in flight feathers and its biomechanical implications.

The feather aerofoil is unequalled in nature. It is comprised of a central rachis, serial paired branches or barbs, from which arise further branches, the barbules. Barbs and barbules arise from the significantly thinner lateral walls (the epicortex) of the rachis and barbs respectively, as opposed to the thicker dorsal and ventral walls (the cortex). We hypothesized a microstructural design of the epicortex that would resist the vertical or shearing stresses. The microstructures of the cortex and epicortex of the rachis and barbs were investigated in several bird species by microbe-assisted selective disassembly and conventional methods via scanning electron microscopy. We report, preeminent of the finds, a novel system of crossed fibres (ranging from ∼100-800 nm in diameter), oppositely oriented in alternate layers of the epicortex in the rachis and barbs. It represents the first cross-fibre microstructure, not only for the feather but in keratin per se. The cortex of the barbs is comprised of syncitial barbule cells, definitive structural units shown in the rachidial cortex in a related study. The structural connection between the cortex of the rachis and barbs appears uninterrupted. A new model on feather microstructure incorporating the findings here and in the related study is presented. The helical fibre system found in the integument of a diverse range of invertebrates and vertebrates has been implicated in profound functional strategies, perhaps none more so potentially than in the aerofoil microstructure of the feather here, which is central to one of the marvels of nature, bird flight.

[Monitoring the natural foci of tularemia on Wrangel Island].

Long-term annual monitoring of the natural foci of tularemia was first made on Wrangel Island. The objects of the investigation were pellets of birds-myophages, blood samples from rodents, and excrements from carnivorous mammals. A total of 2626 biological samples were examined in the period 2002 to 2011. A serological test was ascertained to be the most effective method for the detection of tularemia epizooties; polymerase chain reaction should be used as an additional technique to examine blood samples, as well as rodent tubular bone debris taken from the pellets. Tularemia epizooties were registered in the populations of two species of lemmings every year, except in 2003. An intensive diffuse tularemia epizooty was first detected in this area, which emerged in 2019, peaked by spring 2011, and covered most of the island. The antigen of tularemia pathogen was identified in 43.46% of the samples under examination,which is a high quantitative indicator of the intensity of an epizootic process. The fact that positive samples are annually found in the same areas of the island suggests that the causative agent is steadily and long preserved in the parasitic system. The availability of stable and active natural tularemia foci on Wrangel Island calls for preventive measures, particularly vaccination of risk groups coming to the island to conduct researches.

Chelex-based DNA isolation procedure for the identification of microbial communities of eggshell surfaces.

Microbial communities present on eggshell surfaces of wild birds are weakly studied, especially their influence on embryo infection and, thus, egg viability. Bacterial density of wild bird eggshells is very low, and most DNA extraction protocols are frequently unsuccessful. We have efficiently adapted a chelex-based DNA isolation method for 16S ribosomal gene amplification from the total communities of eggshell surfaces from six avian species.

Salmonella enterica isolated from wildlife at two Ohio rehabilitation centers.

Between May and September 2004, fecal samples from various wildlife species admitted to two rehabilitation centers in Ohio were cultured for Salmonella enterica and Escherichia coli O157:H7. Eight of 71 (11%) samples, including specimens from three opossums (Didelphis virginiana), two gray squirrels (Sciurus carolinensis), a woodchuck (Marmota monax), a Harris hawk (Parabuteo unicinctus), and a screech owl (Otus asio) tested positive for Salmonella serovars Braenderup, Senftenberg, Oranienburg, and Kentucky. The Salmonella Oranienburg isolates were indistinguishable by pulsed-field gel electrophoresis. Most isolates were susceptible to commonly used antibiotics; however, the Salmonella Kentucky isolate was resistant to multiple beta-lactam antibiotics (amoxicillin/clavulanic acid and ampicillin), cefoxitin, and ceftiofur, a third-generation cephalosporin. Escherichia coli O157:H7 was not isolated from any sample. Transmission of Salmonella from wildlife may occur between animals at rehabilitation centers.

Isolation of Salmonella Enteritidis phage type 21b from a Eurasian eagle-owl (Bubo bubo).

A case of fatal salmonellosis in a Eurasian eagle-owl (Bubo bubo) from Bursa Province (northwestern Turkey) is described. The organs of the bird were examined histopathologically and microbiologically. Macroscopic and microscopic findings were consistent with a Salmonella infection. Salmonella enterica subspecies enterica serovar Enteritidis (S. Enteritidis) phage type (PT) 21b was isolated from the liver and spleen in pure culture and from the intestine. The isolate was susceptible to amoxycillin/clavulanic acid, ampicillin, chloramphenicol, gentamicin, kanamycin, tetracycline, and trimethoprim/sulphamethoxazole. This is the first report of an isolation of salmonellae from a wild bird species from Turkey and the first time S. Enteritidis PT21b has been reported from Turkey.

[Natural foci of tularemia on the Wrangel island].

The subjects of the study were snowy owl castings (611 samples), polar fox litters (148 samples), and water samples of outdoor tundra water reservoirs. Tularemia antigen was sought in the castings and litters by the antibody neutralization test. The water was examined by bioassays. Tularemia antigen was annually detected in the study samples. Epizootically active autonomous natural foci of tundra-type tularemia were ascertained to continue to exist on the Wrangel island. The major vectors of the causative agent of tularemia were two types of lemmings (Siberian lemming and Vinogradov's one). The availability of epizootically active natural foci determines the need for vaccination against tularemia of persons who are long engaged in researches who are epidemiologically a risk group.

Outbreaks of salmonellosis at elementary schools associated with dissection of owl pellets.

Salmonella enterica serotype Typhimurium outbreaks occurred at two elementary schools after science club students dissected owl pellets. Forty primary cases were identified (26 culture-confirmed). At the first school, pellets were dissected on a cafeteria table, concurrent with after-school child care in the cafeteria. Subsequently, the table was not sanitized before use by after-school care students for snack, or before the next school lunch. At the second school, pellets were dissected in a dedicated science room, and fewer cases occurred. Pellets in both outbreaks originated from a single captive barred owl. The outbreak pulsed-field gel electrophoresis subtype of S. Typhimurium was isolated from the owl's pellets and feces, and from four frozen chicks from a batch used to feed the owl.