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Topic:Population Dynamics
The population dynamics of horses refers to the study of changes in horse populations over time, influenced by factors such as birth rates, death rates, immigration, and emigration. These dynamics are shaped by environmental conditions, resource availability, predation, and human intervention. Understanding population dynamics is essential for managing wild horse populations and ensuring sustainable practices in breeding and conservation efforts. This page compiles peer-reviewed research studies and scholarly articles that explore the factors affecting horse population dynamics, including genetic diversity, habitat utilization, and the impact of management strategies on population stability and growth.
Genome-wide exploration of coat color-associated loci in Hokkaido Native Horses, with a novel locus implicated in the roan phenotype. Genes and loci regulating horse coat color have been investigated in many breeds, but their associations with the 16 coat colors of the Hokkaido Native Horse (HKD) remain unknown. HKDs were classified according to coat-color groups based on pedigree-recorded coat color, and genome-wide association (GWA) analyses were performed. Except for gray and roan, a clear single signal corresponding to the known locus was obtained for each coat color, suggesting that the reported loci are the primary causes of these coat colors. Because gray and roan are difficult to distinguish visually and may therefor...
The Polish Konik Horse: A Multidisciplinary Review of Its Origin, Genetics, Ecology, Health, Behaviour and Reproductive Biology. The Polish Konik horse (PKH) is one of Europe's best-known native conservation breeds. Traditionally associated with the extinct Eurasian tarpan and conservation grazing, the breed has recently become the subject of multidisciplinary research encompassing genetics, ecology, health, behaviour and reproduction. This narrative review summarises current knowledge on the biological characteristics and contemporary scientific significance of the PKH. Literature published between 2005 and 2026 was identified through searches of PubMed, Scopus, Web of Science and Google Scholar and narratively synthes...
Comparative genomics of Standardbred horses reveals candidate regions under selection for harness racing performance. Harness racing performance in horses is a complex polygenic trait influenced by genetic background, breeding history, training, and environment. Understanding genomic patterns shaped by long-term artificial selection provides insights into performance-related traits and breed-specific genomic variation. Objective: This study aimed to characterize genomic differentiation, population structure, and candidate genomic regions potentially influenced by historical selection in Standardbred horses using comparative whole-genome sequencing involving diverse horse breeds. Methods: Whole-genome sequenci...
Allele frequencies of 7 inherited disorders in performance and random cohorts of American Quarter Horses (2020-2024). To estimate allele frequencies for genetic diseases in the American Quarter Horse (QH), including hyperkalemic periodic paralysis (HYPP), type 1 polysaccharide storage myopathy (PSSM1), malignant hyperthermia (MH), myosin-heavy chain myopathy (MYHM), glycogen branching enzyme deficiency (GBED), hereditary equine regional dermal asthenia (HERDA), and equine juvenile spinocerebellar ataxia (EJSCA), and to compare these frequencies over time among elite performance subgroups and a random cohort of registered horses. Unassigned: In this prospective genetic survey, DNA was extracted from 300 elite ...
First-time description of MHC diversity in Straight Egyptian Arabian horses using immune-linked microsatellite markers. Understanding the immunogenetic structure of the major histocompatibility complex (MHC) in Arabian horses helps to clarify the population health structure-related phenotypes of this historically influential breed. Straight Egyptian (SE) Arabian horses, which fall under , are of global value but are limited in number, raising concerns about their distribution and the genetic diversity associated with immunity. In this study, we examined 57 Egyptian Arabian horses from two breeding programs: one in Germany (AR-DE) and the other in Qatar (AR-QA). Sixteen polymorphic intra-MHC microsatellite marke...
Extreme male reproductive skew limits effective population size in American Standardbred horses. Standardbred horses are widely used for harness racing in North America, Europe, Australia, and New Zealand. In the U.S., two gaits (Pacers and Trotters) are genetically differentiated at a level typical for different horse breeds. We used the complete pedigree for all registered American Standardbred foals born 1970-2014 (>200 K Trotters and > 500 K Pacers) to calculate annual and lifetime reproductive skew and its consequences for the effective number of breeders per year (Nb) and effective size per generation (Ne). With rare exceptions, females can only produce 0 or 1 foal per year, w...
Characterization of Lipizzan Horse Population From Lipica Stud Using Molecular and Pedigree Data. In this study, we analysed genetic diversity, population structure and inbreeding in the Lipica Stud Farm population by integrating pedigree records, microsatellite (STR) and genome-wide SNP data generated using the GGP Equine 70K BeadChip. The dataset comprised 233 horses from the Lipica Stud Farm, which served as the reference population for comparisons of diversity estimates based on pedigree-, STR- and SNP data. The STR data were originally generated for routine parentage verification and were included here to compare inbreeding estimates based on pedigree, STR and genome-wide SNP data. Pe...
Implications of dominance deviations for reproductive and morphological traits in the genetic management of the Pura Raza Española horse. Dominance is a non-additive genetic effect involving allele interaction at the same locus. In animal breeding, it has often been ignored due to its complexity and the low accuracy of pedigree-based estimates. This study analysed dominance variance components for reproductive traits [age at first foaling (AFF), reproductive efficiency (RE), interval between first and second foaling (I12)] and morphological traits [scapulo-ischial length (SIL), dorsal sternal diameter (DSD), knee circumference (KC)] in Pura Raza Española (PRE) mares. The aim was to assess the magnitude of dominance effects acro...
Approaches to Thoroughbred Horse Identification in Diverse Sample Types Using Multiplexed SNP-PCR Sequencing Panels. The ability to determine the identity of equine samples would be highly advantageous in cases of ambiguous sample source, as individual-specific controls for gene editing detection, or forensic examination of suspect biological materials in potential doping cases. To this end, a SNP-PCR sequencing-based panel comprising 93 markers in one reaction was designed and investigated for use in Thoroughbred horses. Marker amplification performance and discriminating power were calculated against a population survey of 264 Thoroughbred whole blood samples from routine doping testing. The sensitivity of...
A Global Structural Variation Map Reveals Novel Variants for Body Conformation and Racing Ability in Horses. The selection of horses has been instrumental in shaping long-range mobility, advancing warfare strategies, and diversifying equine phenotypes. However, the structural variants (SVs) favored by this process remain largely unexplored. Utilizing high-fidelity Pacific Biosciences sequencing, we assembled three high-quality horse genomes, incorporating 237 Mb (9.48%) of novel sequences relative to the existing reference genome. These assemblies achieved an average Benchmarking Universal Single-Copy Orthologs completeness of 95.1%. By employing a graph-based approach, we genotyped 23,163 high-con...
SURVIVAL ON THE MARGINS: NICHE PARTITIONING AND DENSITY-DEPENDENT SPATIAL DISTRIBUTION OF EQUINE CYATHOSTOMINS. Habitat preferences of gastrointestinal nematodes are well-documented in small hosts, but equine cyathostomin diversity has largely been characterized only at farm or regional levels. While organ-level site preferences are known, within-organ spatial distributions remain unexplored. We investigated the longitudinal and radial distribution of adult cyathostomins within the large-intestinal lumen. Intact large intestines from 5 Shetland ponies were frozen post-necropsy and transected into 4-cm sections. Three micro-habitat samples (2.5 cm diameter) were collected per section. We recovered 2,444 ...
Unveiling wolf dietary specialization on free ranging horses using forensic genetics and field monitoring. Wolves occasionally specialize on free-ranging horses when they are abundant and alternative prey is scarce, potentially reducing horse productivity, triggering conflicts with owners, and hampering conservation of both species. Yet, ecological and demographic impacts of wolf predation on horses remain poorly understood. We investigated wolf-horse interactions in NW Portugal by combining wolf monitoring, diet analysis, spatial overlap between wolf and horse activity areas, and horse pedigree reconstruction from genetically identified individuals recovered from wolf scat remains, feeding sites a...
Global distribution of cattle, horses, goats, sheep and buffaloes at 1 km resolution for 2000-2022 based on subnational census data and spatiotemporal machine learning. The article describes the production and evaluation of annual livestock densities and headcounts of cattle, horses, sheep, goats and buffaloes (including 95% probability prediction intervals) at 1 km spatial resolution for the 2000-2022 period using spatiotemporal machine learning. A compilation of subnational livestock census data has been imported, harmonized and used as reference data (55,336 census polygons and 939,257 individual data entries; covering 147 countries) to build predictive models. A large stack of multi-source harmonized raster data sets (128 individual layers) were used as f...
Demographic change and selection patterns in thoroughbred racing horses over the 20th century. The Thoroughbred horse is a legacy of centuries of selective breeding for speed, emerging from the admixture of British mares and imported Oriental stallions. While previous work explored its genetic diversity, inbreeding, and selection signatures, the breed demographic and selection dynamics during the 20-century remain poorly understood. Here, we sequenced the genome of Phar Lap, a late-1920s/early-1930s racing champion, and analyzed the largest time-series of Thoroughbred whole-genome sequences, within a global panel of 850 horse genomes. Demographic modeling reveals a marked decline in gen...
Prevalence of equine lungworm (Dictyocaulus arnfieldi) infection and associated risk factors in Egypt. infection is a common parasitic respiratory disease of equines that can adversely affect animal health, welfare, and productivity. However, epidemiological information on this infection remains limited in many regions of Egypt. This study aimed to determine the prevalence of and identify associated risk factors among equines in three Egyptian governorates. Unassigned: A cross-sectional study was conducted on 415 equines, including 150 donkeys, 55 mules, and 210 horses. Animals were examined for , and data on species, age, body condition, and deworming history were collected. Associations bet...
Reference interval for serum amyloid a in apparently healthy donkeys measured with a donkey-specific ELISA. Serum amyloid A (SAA) is a major acute phase protein used as an inflammatory biomarker in equine medicine. However, no universally accepted assay-specific reference interval (RI) exists for donkeys, and available literature remains limited, with only few studies using different donkey breeds and immunoassay platforms. This study aimed to establish an assay- and population-specific RI for serum SAA in apparently healthy donkeys using a species-specific double sandwich ELISA. Unassigned: Serum SAA concentrations were measured in 176 apparently healthy donkeys. RI estimation followed ASVCP/CLSI r...
Hair steroid hormones concentrations in jennies and their donkey foals from parturition to 6 months postpartum. The period after parturition/birth represents a delicate time for the dam and the offspring, during which several physiologic changes occur under finely tuned hormonal control, with the hypothalamic-pituitary- adrenal (HPA) axis playing a key role. This period, well studied in horses, received little attention in donkeys, despite the importance of species-specific knowledge for population preservation programs in many endangered donkey breeds. The present study aimed to investigate cortisol (C), DHEA(S), 17-β-estradiol (E2), progesterone (P4), testosterone (T), and allopregnanolone (AlloP) ha...
Genomic diversity and historical legacy of Baroque horses: a living cultural heritage. Baroque horses represent a distinctive group of breeds that emerged mainly between the 16th and 18th centuries, shaped by the demands of European royalty and their courts. Although recognised as separate breeds, they share common ancestry, breeding goals, and historical gene flow. This study aimed to evaluate their genomic diversity, population structure, and admixture patterns. We analysed 1 160 individuals from eight breeds - Lipizzan, Old Kladruby Horse, Pura Raza Española, Lusitano, Friesian, Criollo, Peruvian Paso, and Puerto Rican Paso Fino - using 34 026 single-nucleotide polymorphis...
Mitochondrial DNA reveals high maternal diversity within a weak breed structure in native Kazakhstani horses. Understanding the genetic diversity and evolutionary history of domestic horses () is essential for reconstructing their population dynamics and origins. In this study, we analyzed mitochondrial DNA variation (COI and cytb) in six Kazakhstani horse populations representing four native breeds (Kazakh, Kostanay, Adai, and Mugalzhar) to assess genetic diversity, population structure, and evolutionary relationships within a broader phylogenetic framework. High haplotype diversity combined with low nucleotide diversity revealed population expansion and admixture. Population structure analyses revea...
Genetic Diversity in Domestic Horses: Temporal Patterns, the Influence of Assisted Reproductive Technologies, and Implications for the American Quarter Horse. Genetic diversity is the heritable variation within and among populations and is essential for the long-term health and selection potential of domestic horses. Previous studies show diversity across breeds is shaped by effective population size, founder events, artificial selection, and levels of inbreeding. While some closed-studbook breeds retain moderate genetic diversity, others have experienced rapid losses due to popular-sire effects and recent and extensive inbreeding. Even so, mare lines continue to help maintain genetic diversity within these populations. Assisted Reproductive Technol...
Identification of Genomic Differences Resulting from Selection in Iranian Kurdish and Turkmen Horse Breeds Using Single Nucleotide Polymorphisms. Breakthroughs in genomic technologies have enabled the formulation of methods to identify genomic variation in domestic animal species. Detection of the variation is necessary because it is associated with breed characteristics and economic importance in domestic animal genetics. Unassigned: This study aimed to identify the genomic regions in Turkmen and Kurdish horse breeds that have been the target of different selections over many years. It also sought to locate the genes and Quantitative trait loci (QTL) in these regions that contributed to the differentiation of these two breeds or the di...
Phenotypic characterization through identification of gait and coat color phenotype of the Mountain Pleasure Horse. Phenotypic characterization of traits like gait and coat color is useful for minor breed identification and conservation. The Mountain Pleasure Horse (MPH) is a minor American breed as it is listed as threatened by the Livestock Conservancy. Objective: The study objective was to utilize phenotypic characterization for identifying gait and coat color phenotype of the MPH. Methods: Gait was characterized utilizing frame-by-frame analysis to identify spatiotemporal variables of purebred horses (n = 6) performing the flat walk and saddle rack. Coat color was characterized using coat color assi...
Integrative Advances in Equine Genomics From Reference Assemblies to Evolutionary History and Key Traits. Horses are major domestic animals and cultural symbols that have accompanied humans for millennia. They underpin transport, agriculture, warfare and sport, and also provide a model for studying domestication, complex traits and adaptive evolution. Recent work in equine genomics has now generated a much richer picture of how these roles are grounded in the genome. This review brings together advances in several connected areas: the construction and refinement of reference assemblies; genomic reconstructions of origin, domestication and dispersal; global and regional patterns of genetic diversit...
A Breed-Specific SNP Panel With Higher Theoretical Exclusion Power and Practical Equivalence to International Standards for Parentage Testing in Pura Raza Española Horses. Accurate parentage assignment is essential for managing livestock breeding and genetic improvement. This study evaluated a breed-specific SNP panel (375 SNPs) for the Pura Raza Española (PRE) horse, comparing its performance against the traditional STR reference panel (18 microsatellite) and the international ISAG SNP core panel (378 SNPs) across population scenarios differing in levels of inbreeding and kinship. The PRE-specific SNPs were selected from the Axiom EQUIGENE array based on high genotyping reliability (call-rate > 99%), Mendelian error minimization, Hardy-Weinberg equilibr...
The “gait keeper” mutation does not influence gait scores in Pêga donkeys: a preliminary result. The DMRT3 "gait keeper" mutation is a major determinant of locomotor patterns in horses, but its role in donkeys remains unclear. This study evaluated the association between this polymorphism and gait performance in Pêga donkeys, a breed selected for gaited locomotion. A total of 260 animals were phenotyped for gait scores and genotyped by PCR-sequencing targeting exon 2 of DMRT3. All individuals were homozygous for the wild-type allele (CC), and the mutant A allele was not detected. The monomorphism precludes any association with gait scores, possibly indicating that this DMRT3 mutation has...
Successful restoration of heathlands and grasslands associated with long-term habitat preferences of cattle and horses: Insights from GPS tracking. Long-term, year-round grazing by large herbivores is increasingly used to restore degraded temperate heathlands and grasslands, yet the behavioral mechanisms of grazers underlying restoration remain insufficiently understood. We combined over 13 years of high-resolution GPS-tracking data of free-ranging Heck cattle and Konik horses with repeated vegetation surveys across various habitat types (encroachment-derived Calamagrostis epigejos stands, dry sandy grasslands, dry heaths, and pioneer forests) in Central Germany. We quantified how habitat preference and vegetation structure co-develop und...
Genetic diversity of horses of the Sargarinsko-Alexeevskaya and Irmen cultures of the Ob-Irtysh region of Western Siberia and their genetic proximity to modern horses of indigenous breeds. Genetic diversity of horses of the Sargarinsko-Alexeevskaya and Irmen cultures of the Ob-Irtysh region of Western Siberia and their genetic proximity to modern horses of indigenous breeds. Генетическое разнообразие лошадей саргаринско-алексеевской и ирменской культур Западной Сибири и их генетическое родство с современными лошадьми аборигенных пород.
Comparative metagenomic analysis of gut microbiomes in Yunnan ponies and Dutch warmblood horses. The Yunnan pony is an officially protected pony breed in China. However, its gut microbiome characteristics remain largely unexplored. This study aimed to compare the gut microbiome and antibiotic resistance genes (ARGs) profiles between Yunnan ponies and Dutch warmblood horses. Unassigned: A total of 14 fresh fecal samples were collected from Yunnan ponies and Dutch warmblood horses. Metagenomic sequencing was employed to comprehensively analyze and compare the gut microbial composition, function, and ARGs profiles between the two breeds. Unassigned: The results showed no significant differen...
Genomic diversity of multidrug-resistant Rhodococcus equi: novel sequence types, pangenome architecture, and phylogenomic evolution. Rhodococcus equi is a major cause of life-threatening pneumonia in foals under 6 months of age and an opportunistic pathogen in immunocompromised humans. Although common in soil and equine farm environments, its evolutionary dynamics, virulence architecture, and pathways of antimicrobial resistance (AMR) emergence remain poorly understood. This study integrated phenotypic characterization and whole-genome sequencing of 46 R. equi isolates from horses submitted for necropsy (n = 45) and equine fecal samples (n = 1) in Kentucky between January 2022 and December 2023 to define their resistance la...
Genetic variability and associations of Trakehner and other horse populations in Lithuania. To obtain genetic parameters relevant for the management of animal genetic resources, this study provides a comparative characterization of the Trakehner (TRAK) horse population in relation to four other horse populations maintained in Lithuania - Arabian (ARAB), Baltic Warmblood (BW), Lithuanian Warmblood (LW), and Zemaitukai (ZEM). These populations represent diverse histories, selection goals, and breeding practices. Pedigree data ( 22 666) and parentage verification genetic data based on blood group markers ( 1293) were used to evaluate genetic diversity, population structure, and inter-...
