Search Results (645)

Convolutional neural networks (CNNs) and their application in animal husbandry have in-depth mathematical expressions, which usually revolve around how well they map input data such as images or video frames of animals to meaningful outputs like health status, behavior class, and identification. Likewise, computer vision and deep learning models are driven by CNNs to act intelligently in improving productivity and animal management for sustainable animal husbandry. In animal husbandry, CNNs play a vital role in the management and monitoring of livestock’s health and productivity due to their high-performance accuracy in analyzing images and videos. Monitoring animals’ health is important for their welfare, food abundance, safety, and economic productivity. This paper aims to comprehensively review recent advancements and applications of relevant models that are based on CNNs for livestock health monitoring, covering the detection of their various diseases and classification of their behavior, for overall management gain. We selected relevant articles with various experimental results addressing animal detection, localization, tracking, and behavioral monitoring, validating the high-performance accuracy and efficiency of CNNs. Prominent anchor-based object detection models such as R-CNN (series), YOLO (series) and SSD (series), and anchor-free object detection models such as key-point based and anchor-point based are often used, demonstrating great versatility and robustness across various tasks. From the analysis, it is evident that more significant research contributions to animal husbandry have been made by CNNs. Limited labeled data, variation in data, low-quality or noisy images, complex backgrounds, computational demand, species-specific models, high implementation cost, scalability, modeling complex behaviors, and compatibility with current farm management systems are good examples of several notable challenges when applying CNNs in animal husbandry. By continued research efforts, these challenges can be addressed for the actualization of sustainable animal husbandry. Full article

Hard ticks are vectors of a wide range of pathogens, with tick-borne bacteria being among the most frequently detected. This study presents a first approach to the identification of human-biting ticks in the Basque Country (northern Iberian Peninsula), where previous research has mainly focused on ticks from vegetation and domestic and wild animals. The aim of this study was (i) to identify tick species collected in hospitals and health centres and (ii) to determine the presence and identify of pathogenic bacteria that they may carry using PCR, RLB and sequencing methods. A total of 181 ticks were collected and grouped in pools of one, two or three specimens, resulting in 157 samples. Morphological and molecular identification of collected ticks revealed that most specimens belonged to Ixodes ricinus (88.5%). Additionally, Rhipicephalus bursa, Haemaphysalis punctata, Dermacentor reticulatus and Dermacentor marginatus were also identified. A total of 25 samples (15.9%) tested positive for DNA from the targeted pathogens. The most prevalent vector-borne bacteria were Borrelia spp. (6.4%), followed by Rickettsia spp. (5.1%), Anaplasma phagocytophilum (2.5%) and Coxiella spp. (1.9%). Species identified included B. afzelii, B. garinii, B. miyamotoi, B. valaisiana, B. burgdorferi s. s., R. monacensis, “Candidatus R. rioja”, R. helvetica and R. massiliae. This study highlights the usefulness of combining molecular diagnostics with passive surveillance of human-attached ticks as an effective tool for regional monitoring of ticks and tick-borne pathogens. Full article

Trichomitus batrachorum is a species of trichomonad that has gained attention due to its ecological importance and potential interactions with various hosts, such as amphibians (anurans) and reptiles (lizards and chelonians), where it has been recorded in the gastrointestinal tract of these vertebrates, specifically in their feces. Molecular studies have placed this flagellated protist within the Metamonada clade. Unlike parabasalids that inhabit endothermic mammals in relatively stable temperature conditions, protists associated with ectothermic reptiles are subject to significant temperature fluctuations. The ability of T. batrachorum to thrive in the variable temperatures encountered by reptiles suggests that its parasitism may remain largely unaffected by climate change. In our study, we detected and characterized T. batrachorum from the liver tissue of the lizard species Ameiva ameiva, collected in Presidente Figueiredo Municipality, Amazonas State, Brazil. The identification of T. batrachorum was confirmed by cultivation technique, light microscopy, scanning electron microscopy and transmission electron microscopy for ultrastructural analyses, and sequencing the 5.8S rDNA (region ITS1- ITS2) and 18S rRNA (ribosomal RNA) genes. One potential interpretation for this finding is that the flagellates may have migrated from the intestine to the bile duct, ultimately reaching the liver. This is the first successful characterization of T. batrachorum in the liver of a lizard, and provides a solid foundation for further research to elucidate the potential pathogenicity of this flagellate and the role of A. ameiva in the epidemiology of parabasalids in other animal species. Full article

Three isolates of a novel, rapidly growing, non-pigmented Mycobacterium species were recovered from the water and runoff of a public fountain in a rural village in central Portugal, formerly used by the local population as a source of drinking water and not accessible to animals. High-quality draft genome sequencing, in silico DNA–DNA hybridization, and phylogenetic analyses confirmed that isolates 21AC1^T, 21AC14, and 21AC21 represent a previously undescribed species within the genus Mycobacterium, forming a distinct phylogenetic lineage closely related to Mycobacterium wolinskyi, Mycobacterium goodii and Mycobacterium smegmatis. MALDI-TOF MS analysis of the type strain 21AC1^T revealed a unique spectral profile. A comprehensive polyphasic characterization was performed, including chemotaxonomic analyses of fatty acid and mycolic acid composition, as well as an extensive biochemical characterization. Their susceptibility to 12 antimicrobials was also assessed. The identification and characterization of novel nontuberculous mycobacteria species are of increasing environmental and clinical relevance, as infections by these opportunistic pathogens are on the rise globally. Based on our findings, we propose that isolates 21AC1^T, 21AC14, and 21AC21 represent a novel species, for which we propose the name Mycobacterium appelbergii sp. nov., with the type strain designated as 21AC1^T (=BCCM/ITM 501212 = DSM 113570) and the additional two strains as 21AC14 (=BCCM/ITM 501447 = DSM 118402) and 21AC21 (=BCCM/ITM 501448 = DSM 118403). Full article

Colpodella species are free-living predatory protists that prey on algae, ciliates and bodonids using myzocytosis. Colpodella species have been reported in human and animal infections. Polymerase chain reaction (PCR) using primers targeting 18S rRNA genes of Cryptosporidium and piroplasms have identified Colpodella species in arthropods, host blood and feces, demonstrating the phylogenetic closeness of Colpodella species to the apicomplexa. However, in human, animal and arthropod hosts, the life cycle stages of Colpodella are unknown. In this literature review, we provide an overview of the widespread occurrence of Colpodella species in ticks, and pathogenicity in humans and animals. We discuss methods for culture and microscopy that can aid diagnosis. Phylogenetic tree analysis of Colpodella species identified using 18S rRNA demonstrates that the Colpodella species identified in different geographic regions represent different species and strains that may impact virulence and zoonotic transmission. There is a pressing need to culture Colpodella species, and to stain cells for morphological identification. This will aid molecular investigations aimed at identifying molecular markers of Colpodella spp. facilitating transmission, survival and pathogenesis in hosts, and will determine which species and strains to prioritize for the risk of zoonotic infections to humans and for infections in animals. Full article

Body condition is a standard measure of the individual fitness and health status in many animal species and is typically estimated by calculating the body condition indices (BCIs). The present study used capture/recapture data and the BCIs to test whether the activity (number of times an individual has been recaptured) of adult T. ivanbureschi was related to individual body condition. For three consecutive seasons, we set funnel traps in a temporary pond near Sofia, Bulgaria. A ventral pattern was used for individual identification, and the linear regression of lnMass/lnSVL was used for BCI calculation. The overall recapture rate for the population was 52.52%, with males recaptured more often than females. Activity and estimated population size varied across seasons. Body condition generally decreased towards the end of the aquatic phase in all years, with females consistently maintaining higher BCIs than males. There was no relationship between mean BCI per session and population activity for either sex, but individual BCI scores were correlated with individual activity, and this relationship was independent of both sex and temperature. The results suggest that winter activity may carry energetic costs later in the season and highlight potential sex-based differences in aquatic behavior. Full article

Background/Objectives: Livestock species, particularly dairy animals, can serve as important reservoirs of E. coli, carrying antibiotic resistance and virulence genes under constant selective pressure and their spread in the environment. In this study, we performed the pathogenomic analysis of seven multidrug resistant (MDR) E. coli strains carrying efflux-associated and virulence genes from the dairy farm environment in Xinjiang Province, China. Methods: First, we processed the samples using standard microbiological techniques followed by species identification with MALDI-TOF MS. Then, we performed whole genome sequencing (WGS) on the Illumina NovaSeq PE150 platform and conducted pathogenomic analysis using multiple bioinformatics tools. Results: WGS analysis revealed that the E. coli strains harbored diverse antibiotic efflux-associated genes, including conferring resistance to fluoroquinolones, aminoglycosides, aminocoumarins, macrolides, peptides, phosphonic acid, nitroimidazole, tetracyclines, disinfectants/antiseptics, and multidrug resistance. The phylogenetic analysis classified seven E. coli strains into B1 (n = 4), C (n = 2), and F (n = 1) phylogroups. PathogenFinder predicted all E. coli strains as potential human pathogens belonging to distinct serotypes and carrying broad virulence genes (ranging from 12 to 27), including the Shiga toxin-producing gene (stx1, n = 1). However, we found that a few of the virulence genes were associated with prophages and genomic islands in the E. coli strains. Moreover, all E. coli strains carried a diverse bacterial secretion systems and biofilm-associated genes. Conclusions: The present study highlights the need for large-scale genomic surveillance of antibiotic-resistant bacteria in dairy farm environments to identify AMR reservoir spillover and pathogenic risks to humans and design targeted interventions to further stop their spread under a One Health framework. Full article

Vector-borne diseases play a significant role in veterinary health, impacting both wild and domestic animals and posing a major constraint on the development of animal husbandry worldwide. The current study aimed to highlight some of the factors involved in the appearance and dissemination of these emerging and re-emerging diseases, as well as the prevalence rate of certain species of pathogens, in cattle throughout Europe. Considering the complexity of vector–host systems, ticks can be mentioned as the first and most common vector involved in the transmission of pathogens in cattle. The highest prevalence was reported for two vector species: Ixodes ricinus and Haemaphysalis punctata. Another factor that contributes to the rapid identification of these diseases is the employed diagnostic method; thus, the most frequently employed techniques in Europe are: PCR, ELISA, and phylogenetic analysis of sequences. The prevalence of tick-borne infections in cattle is continuously increasing. The most frequent associations are Anaplasma spp., Babesia spp., Theileria spp., and Borrelia burgdorferi. Overall, this study highlights a rising occurrence and prevalence of vector-borne diseases in European cattle, underscoring the need for thorough monitoring of farms and vector hotspots—ideally within a “One Health” framework. Full article

External otitis is one of the most common conditions in dogs to be presented to the veterinarian. Moreover, the disorder is often challenging to manage. The range and role of microorganisms involved in the pathogenesis are currently not fully understood. Therefore, the condition has been studied using third-generation sequencing (Oxford Nanopore Technology) to gain a more complete picture of the pathogens involved. Throughout the metagenome assembly of a sample from the ear canal of an 11-year-old female Yorkshire terrier suffering from chronic external otitis, a genome of Lawsonella clevelandensis was compiled. To our knowledge, this result is the first of its type of animal origin. The outcome of the assembly is a single circular chromosome with a length of 1,909,339 bp and 1727 predicted genes. One open reading frame associated with antimicrobial resistance could have been identified. Comparing all available genomes, the species can be associated with three main genome clusters. The finding contributes to the extending knowledge bank about this often-overlooked pathogen and raises attention to the role of nanopore sequencing by the identification and characterization of microorganisms that are difficult to culture. Full article

To perform reliable animal re-identification, most available algorithms require standardised animal poses. However, this lack of versatility prevents widespread application of these algorithms in behavioural research and commercial environments. To circumvent this, we incorporated information about the orientation and behaviour of the animals in an embedding-based algorithm to re-identify Holstein-Friesian cattle. After all, the orientation and behaviour of an animal determine which body parts of an animal are visible from the camera’s perspective. We evaluated our approach using a dataset with more than 11,000 instance segments of Holstein-Friesian cattle, but our methodology is readily generalisable to different animal species. Our results show that incorporation of informative metadata parameters in the re-identification procedure increases the rank-1 re-identification accuracy from 0.822 to 0.894, corresponding to a 40% reduction in the number of incorrectly identified animals. Full article

The proliferation of toxigenic fungi in food and the subsequent production of mycotoxins constitute a significant concern in the fields of public health and consumer protection. This review highlights recent strategies and emerging methods aimed at preventing fungal growth and mycotoxin contamination in food matrices as opposed to traditional approaches such as chemical fungicides, which may leave toxic residues and pose risks to human and animal health as well as the environment. The novel methodologies discussed include the use of plant-derived compounds such as essential oils, classified as Generally Recognized as Safe (GRAS), polyphenols, lactic acid bacteria, cold plasma technologies, nanoparticles (particularly metal nanoparticles such as silver or zinc nanoparticles), magnetic materials, and ionizing radiation. Among these, essential oils, polyphenols, and lactic acid bacteria offer eco-friendly and non-toxic alternatives to conventional fungicides while demonstrating strong antimicrobial and antifungal properties; essential oils and polyphenols also possess antioxidant activity. Cold plasma and ionizing radiation enable rapid, non-thermal, and chemical-free decontamination processes. Nanoparticles and magnetic materials contribute advantages such as enhanced stability, controlled release, and ease of separation. Furthermore, this review explores recent advancements in the application of artificial intelligence, particularly machine learning methods, for the identification and classification of fungal species as well as for predicting the growth of toxigenic fungi and subsequent mycotoxin production in food products and culture media. Full article

Fine nematodes of the family Capillariidae parasitize various organs and tissues in fish, amphibians, reptiles, avians, and mammals. Currently classified into more than 20 genera, these nematodes are primarily distinguished based on the caudal structures of male worms. Morphological and molecular analyses were conducted on 15 mammal-parasitic species belonging to the genera Aonchotheca (A. putorii, A. suzukii n. sp., A. suis n. comb. (syn. Capillaria suis), A. riukiuensis, and A. bilobata), Pearsonema (P. neoplica n. sp., P. feliscati, P. iharai n. sp., and P. toriii n. sp.), Liniscus (L. himizu), Calodium (C. hepaticum), Echinocoleus (E. yokoyamae n. sp.), and Eucoleus (E. kaneshiroi n. sp., E. aerophilus, and Eucoleus sp.), using specimens from various wild and domestic animals in Japan and brown rats in Indonesia. As demonstrated in this study, nearly complete SSU rDNA sequencing is a powerful tool for differentiating closely related species and clarifying the phylogenetic relationships among morphologically similar capillariid worms. Additionally, most capillariid worms detected in dogs and cats are suspected to be shared with their respective wildlife reservoir mammals. Therefore, molecular characterization, combined with the microscopic observation of these parasites in wildlife mammals, provides a robust framework for accurate species identification, reliable classification, and epidemiological assessment. Full article

This review examines the impact of heat stress (HS) on carcass traits, meat quality, and nutritional composition in monogastric animals, specifically poultry and swine, and evaluates targeted nutritional strategies for mitigation. With rising global temperatures and intensified heat waves, HS has emerged as a key threat to animal welfare, production efficiency, and meat quality. Physiological disturbances induced by HS, including oxidative stress, protein denaturation, mitochondrial dysfunction, and hormonal imbalances, contribute to reduced carcass yield, muscle degradation, and inferior sensory attributes such as tenderness, juiciness, and flavour. HS also diminishes the nutritional value of meat by depleting essential amino acids, polyunsaturated fatty acids, and antioxidant micronutrients. This review highlights nutritional interventions, including antioxidant supplementation (e.g., vitamin E, selenium, polyphenols), osmolytes (e.g., betaine, taurine), probiotics, prebiotics, and optimised energy-to-protein ratios, as promising tools to enhance thermotolerance and meat quality. Emerging feed additives such as phytochemicals also show potential for protecting muscle integrity and improving oxidative stability. Given species-specific responses and production system variability, integrating these dietary approaches with stage-specific management is essential for resilience under climate stress. Future research should focus on the precision nutrition, biomarker identification, and validation of synergistic nutritional strategies that safeguard performance and meat quality in monogastric production systems. Full article

With the first evidence of the association between bats and influenza A viruses, various studies have begun to emerge to understand this interesting and important association among bats conservation, animal health, and public health. This study aimed to verify the presence of anti-influenza A vipothesrus antibodies, as well as the molecular identification of these viruses in bats distributed in forest fragments located in southeastern Mexico. Blood samples were obtained from 600 bats belonging to 24 different species, using an enzyme immunoassay to detect antibodies against the nucleoprotein antigen of the avian influenza A virus. Likewise, oropharyngeal swabs, rectal swabs and organs were taken for quantitative reverse transcription PCR (qRT-PCR) of these viruses. A total of six bats (1%) tested positive either by serology or molecular methods, not both simultaneously. Although this suggests a very low prevalence of influenza A viruses in Mexican bats, it is the first study to address this association and, following the precautionary principle, we consider it necessary to establish systematic monitoring of the presence of influenza A in bats, since they are known to harbor infectious agents with zoonotic potential. Furthermore, it is possible that the association of influenza A viruses circulating in Latin American bats has an important co-evolutionary component with some bat species with exclusive distribution in the American continent. Full article

The study aimed to identify Cryptosporidium infection in hospitalized patients in Western Romania. Stool samples were collected from 175 patients, both male and female, aged between 2 months and 88 years, residing in urban and rural areas. The identification of Cryptosporidium was performed using a qualitative chromatographic rapid test, supplemented by the modified Ziehl–Neelsen method described by Henricksen and Pohlenz. Cryptosporidium spp. were identified through PCR analysis and Sanger sequencing. To assess potential risk factors for cryptosporidiosis, a questionnaire was administered to the study participants. Laboratory test results revealed a cryptosporidiosis occurrence of 7.42%, with a significantly higher occurrence observed in urban areas (p < 0.05). Two species were identified, C. parvum and C. canis, the latter being reported for the first time in humans in Romania. Among the assessed risk factors, only the area of residence significantly influenced the occurrence of Cryptosporidium infection. The other evaluated risk factors—age, sex, concomitant microbial infections, contact with animals, use of public transport, international travel, frequenting children’s playgrounds, and swimming pools—although potentially involved in Cryptosporidium infection, did not have a significant contribution. This study represents the first report of C. canis identified in humans in Romania. Our results indicate a high occurrence of human cryptosporidiosis in hospitalized patients, with a significantly higher rate observed in individuals residing in urban areas. Full article