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Topic:Molecular biology
Molecular biology in horses involves the study of molecular processes and genetic mechanisms that underpin equine physiology and health. This field encompasses the analysis of DNA, RNA, proteins, and other biomolecules to understand gene expression, genetic variation, and cellular functions in horses. Techniques such as genomic sequencing, gene expression profiling, and molecular diagnostics are employed to explore topics like hereditary diseases, performance traits, and immune responses in equines. This page assembles peer-reviewed research studies and scholarly articles that investigate the molecular biology of horses, focusing on genetic research, molecular techniques, and their applications in equine science.
Interleukin 12 on extracellular matrix-related factors and functional characteristics of equine endometrial fibroblasts. Tissue fibrosis is described as the excessive accumulation of extracellular matrix (ECM) components. This process is associated with inflammation, and the interaction between fibroblasts and immune cells plays a key role, driving the progression of fibrosis. Results of recent study suggest that interleukin (IL)-12 may play a role in the processes associated with the development of fibrosis. This proinflammatory cytokine is synthesized and released by macrophages, dendritic cells, and B cells. Objective: The objective of this study was to determine: (i) the expression of IL-12 and its receptor ...
Genome-Wide Characterization of the TGF-β Gene Family in Donkey (Equus asinus) Reveals Lineage-Specific Gene Duplications and Deleterious Mutations. The transforming growth factor-beta (TGF-β) superfamily regulates diverse biological processes, including proliferation, differentiation, apoptosis, tissue remodeling, and reproductive signaling across metazoans. Here, we performed a genome-wide characterization of the TGF-β gene family in donkey (, ASM1607732v2) using comparative genomics and bioinformatics analyses, with horse (, EquCab3.0) as a reference to investigate evolutionary conservation and functional divergence. Genome assemblies and proteomes were retrieved from NCBI, and TGF-β genes were identified using BLASTp and HMMER searc...
Prevalence of Clostridioides difficile in hospitalized neonatal mare-foal pairs from Alberta and direct comparison of fecal culture with toxin gene detection. is an important pathogen in the feces of adult horses and foals. It can be clinically diagnosed using several testing methods, including culture isolation and, more commonly, direct toxin gene detection from feces using molecular methods. The importance of monitoring shedding in foals or dams during hospitalization remains unclear. The objectives of this study were to determine the prevalence of fecal shedding in mare-foal pairs and to compare detection using isolation and a commercial real-time polymerase chain reaction (qPCR) for toxin A and B genes in feces. Foals and their mares admitte...
Diagnosis of bacteraemia in neonatal foals using 16S rRNA high-throughput sequencing. Sepsis is an important cause of morbidity and mortality in foals. Early diagnosis can improve outcome but is complicated by non-specific clinical signs and delayed confirmation of infection via blood culture. Molecular assays represent a rapid and more sensitive alternative. Objective: To evaluate and compare bacterial load and composition in blood and blood culture media (BCM) of sick and healthy foals using molecular assays and to compare results with traditional bacterial culture. Methods: Cross-sectional observational clinical study. Methods: Thirteen septic foals, 10 sick non-septic and 8...
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...
Cell-Type Deconvolution of Equine BALF RNA-Seq: A Critical Comparison with Matched Single-Cell Data. Bulk RNA sequencing (RNA-seq) averages signals across heterogeneous cell populations. Computational deconvolution methods aim to infer cell type composition and cell type-specific gene expression from bulk data, but their performance in equine samples has not been evaluated. In this study, we assessed the ability of computational deconvolution to recover cellular composition and differential expression signals in bronchoalveolar lavage fluid (BALF) from horses with severe equine asthma (SEA) and controls (CTL). Cryopreserved BALF samples from six SEA and five CTL horses previously analyzed b...
Inhaled Corticosteroids Influence Pulmonary Microbiota in Severe Equine Asthma. The use of inhaled corticosteroids (ICs) could influence the respiratory microbiota. In animals with asthma it is, however, difficult to separate the immunomodulatory effects of ICs from their indirect effects via improvement of ventilation. Our objective was to determine if ICs alter the pulmonary microbiota independently from their effects on lung function, using a blinded, controlled trial in an experimental model of asthma exacerbation in horses. We treated horses with severe asthma with either bronchodilators alone, or in combination with ICs. Twelve horses in exacerbation received long-a...
Dendritic-cell diversity in equine blood revealed by single-cell transcriptomics. Detailed classification of equine dendritic cells (DC) is necessary to address various research questions, such as the role of DC subsets in immune-mediated diseases of horses. Unassigned: We applied single-cell RNA sequencing (scRNA-seq) on DC enriched from the blood of two horses. Unassigned: All main DC subsets were detected by key gene expression, including conventional DC type 1 (cDC1; ) and type 2 (cDC2; , ), as well as plasmacytoid DC (pDC; ). In addition, we detected a small cluster of hematopoietic progenitors, as well as transitional DC (tDC; , ) and putative DC type 3 (DC3; , ). Our...
Screening Equine Skin and Mucous Membranes for Carriage of Coagulase-Positive Staphylococci. Commensal populations of coagulase-positive Staphylococcus spp. (CoPS) in healthy horses are not well-defined. Objective: To determine the point prevalence, anatomical distribution, antimicrobial susceptibility and genomic characteristics of CoPS in healthy horses. Methods: One-hundred and fifty privately owned, systemically healthy horses from seven facilities were enrolled in this study. Methods: Horses were sampled from the nares, buccal mucosa and three skin sites. Isolates were identified using matrix-assisted laser desorption/ionisation time-of-flight mass spectrometry, and antimicrobial...
Integrated transcriptomic profiling reveals oncogenic pathways and chimeric transcripts in equine sarcoid lesions with predominant BPV1 detection. Sarcoids are the most common cutaneous tumors in horses, representing up to 90% (35%-90%) of skin neoplasms. Mostly caused by Bovine Papillomavirus (BPVs) infections, sarcoids are highly resistant to therapy and prone to recurring, posing a significant threat to equine health. The aim of this study is to explore molecular pathogenetic mechanisms underlying the development of equine sarcoids, by applying transcriptomic approach. After testing samples for viral DNA, both mRNA and small RNA expression was analyzed via high-throughput Illumina sequencing comparing 12 sarcoids and 12 healthy skin s...
First serological evidence of circulation of equine rhinitis A virus and molecular detection of equine rhinitis B virus in horses in North Africa. Equine rhinitis A virus (ERAV) and equine rhinitis B virus (ERBV) are major respiratory pathogens of horses with a global distribution. The aim of this study was to evaluate, for the first time in Algeria, the seroprevalence of ERAV antibodies, and to investigate a wide range of equine viruses (EIV, EHV-1, EHV-4, ERAV and ERBV). A total of 298 serum samples were collected between May 2022 and October 2023, from 11 provinces. Serological analysis for the presence of ERAV was performed using the complement fixation test (CFT). Our results revealed that 16.8% (50/298) samples tested positive for ...
Matched embryo-endometrium RNA-seq reveals coordinated but asymmetric transcriptomic reprogramming at the onset of early equine pregnancy. Maternal recognition of pregnancy (MRP) in the mare requires coordinated adaptations of both the conceptus and the endometrium during the peri-recognition interval; however, integrated transcriptomic analyses of both compartments within the same biological window remain limited. Here, we analyzed conceptus RNA-seq data across embryonic age (Days 8 and 12 post ovulation) and endometrial RNA-seq data across pregnancy status (pregnant versus non-pregnant mares sampled between Days 8 and 12 post ovulation). In pregnant mares, conceptus recovery and endometrial biopsy collection were performed with...
Exploring the role of epigenetics in the processes related to the development of endometrosis in the mare. Endometrosis is a chronic degenerative condition of the mare endometrium characterized by progressive fibrosis and glandular alterations that impair uterine function and fertility. Its pathogenesis involves persistent inflammation, the activation of myofibroblasts, and the accumulation of extracellular matrix (ECM), leading to disrupted glandular secretion and compromised maintenance of pregnancy. While histopathological studies of endometrosis are well described, the underlying molecular mechanisms remain incompletely understood. Emerging evidence highlights the crucial role of epigenetic reg...
Transcriptomic and Meat Quality Differences in Longissimus Dorsi Muscle of Surgically Castrated Three-Year-Old Kazakh Horses. Although the Kazakh horse is a dual-purpose breed renowned for both milk and meat production, the extent to which surgical castration alters gene expression in its muscles has not yet been fully elucidated. In this study, left longissimus dorsi muscle (LDM) samples were obtained from six Kazakh stallions (W group) and six Kazakh geldings (S group) to comparatively evaluate meat quality parameters, examine histological characteristics in tissue sections, and apply transcriptomic profiling to comprehensively explore the principal regulatory pathways and candidate genes through which surgical cas...
A Comprehensive Analysis of the Agreement and Performance of Variant Annotation Programs in Equine Genomes. Advances in whole-genome sequencing (WGS) technology have led to the widespread adoption of WGS for investigating genetic diseases and traits in domestic animals. This has created a need for improved methods for prioritizing candidate causal variants. One way variants are prioritized is using variant annotators that predict variant effects based on their proximity to genomic features and effect on amino acid sequence. However, validation of variant annotators for domestic animal genomes is lacking. In this study, we calculated the agreement of three popular variant annotators, Ensembl Varian...
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...
Mitochondrial Adaptations to Exercise Training in Equine Skeletal Muscle: A Narrative Review. The horse represents one of the most physiologically specialized athletic mammals, capable of sustaining both high-intensity and prolonged exercise. Central to this remarkable performance capacity is the metabolic adaptability of skeletal muscle and its mitochondrial network. This narrative review synthesizes current evidence from equine, human, and rodent studies on exercise-induced mitochondrial remodeling in equine skeletal muscle. A comprehensive literature search was conducted across PubMed, Web of Science, and Scopus using terms related to equine exercise physiology, mitochondrial biolog...
Development of a rapid and highly accurate diagnostic test for detecting Theileria equi in horses using recombinase polymerase amplification (RPA) combined with nucleic acid lateral flow immunoassay. Equine piroplasmosis (EP) is a protozoan disease in horses, mainly caused by Theileria equi, and is associated with non-specific signs such as fever, anemia, and edema. The lack of specific clinical signs, coupled with the high prevalence of carrier horses, highlights the critical need for a rapid and highly accurate diagnostic test for the detection of Theileria equi. Existing methods, including molecular, serological, and microscopic techniques, require specialized equipment, skilled personnel, and considerable time. The current study aims to develop a rapid and accurate assay for the detect...
Synovial transcriptomic biomarkers predict structural severity in equine osteochondral fragment-induced experimental osteoarthritis. Develop a global joint score (GJS) reflecting equine osteoarthritis (OA) structural severity and identify clinical or molecular parameters predicting disease severity. Unassigned: A retrospective analysis was performed using data from horses (n = 104; 58 females and 46 geldings; 2 to 5 years old) undergoing experimental OA induction via surgical osteochondral fragment creation in the middle carpal joint and high-speed treadmill exercise over 70 days. Longitudinal measures included subjective lameness examinations (lameness, effusion, and flexion), synovial fluid (SF) and serum glycosaminoglyca...
Prevalence, molecular characterization and zoonotic potential of Cryptosporidium spp. in horses from diverse husbandry systems across four provinces of northern and eastern China. Cryptosporidium is an obligate intracellular zoonotic protozoan causing diarrheal disease in humans and animals globally. Horses have more frequent close contact with humans through equestrian sports, breeding, and cross-regional trade. However, comprehensive molecular epidemiological data on diverse equine husbandry systems in China are limited. We tested 412 fecal samples from horses across four Chinese provinces via small subunit ribosomal RNA (SSU rRNA) nested polymerase chain reaction (PCR). C. parvum and C. equi were subtyped using the 60 kDa glycoprotein (gp60) gene, and C. andersoni ...
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...
Towards a Comprehensive Screening Approach for Detecting Gene Doping in Racehorses and Sport Horses by Targeting Common and Intrinsic Plasmid Sequences. The evolution of biotechnology and gene therapy has unfortunately facilitated the emergence of gene doping. Those misused applications are prohibited in equestrian sports (International Equestrian Federation (FEI)) and in horseracing (International Federation of Horseracing Authorities [IFHA]), reflecting major concerns regarding horse welfare and the integrity of competitions. Among the biotechnological tools that could be misused, eukaryotic expression plasmids represent a particular threat due to their ease of production, customisable design and ability to carry a wide range of performance ...
Cracks in the ice: biological challenges and incremental progress in equine oocyte vitrification. Equine oocyte vitrification could enhance the flexibility of in vitro embryo production, yet developmental competence remains reduced. Only vitrification of oocytes matured in vivo yields foaling rates comparable to fresh oocytes. Recent advances in vitrification at the germinal vesicle (GV) stage, supported by systematic comparisons of cryoprotective agents and exposure times, has enabled consistent blastocyst production and birth of several foals. Comparative studies of GV and metaphase II (MII) stages suggest biological advantages of vitrification after in vitro maturation (IVM), warranting...
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...
Machine learning-based gait classification and genome-wide association identify a QTL for gait type in Colombian paso horses. Coordinated mammalian locomotion relies on spinal circuits where regulates strides and alternative gaits. However, does not explain differences between the Colombian paso horse breed's specialized gaits, Colombian trocha and Colombian trot. We used inertial sensors and machine learning to develop accurate phenotyping ( = 225 horses), before performing genome-wide association analysis ( = 85 horses, 670K array). We identified a 2.43 Mb quantitative trait locus (QTL) on ECA16, where haplotypes featuring lead variants (rs1147402472, = 1.95 × 10; rs1136628503, = 8.52 × 10) explained 48.6% of...
Cytogenetic, genomic, and reproductive characterization of four pura Raza Española mares carrying a 64, X, del(X),t(X; Y) complex karyotype. Chromosomal abnormalities involving the sex chromosomes constitute critical genetic factors influencing fertility in horses. Nevertheless, a substantial proportion of individuals carrying sex chromosomal abnormalities exhibit normal reproductive phenotypes, which complicates their identification until adulthood. Here, we present four mares carrying a complex deletion/translocation rearrangement with the karyotype formula 64, X, del(X)(p∼25),t(X; Y)(p∼25; q∼15). The cases analyzed belong to three unrelated families of Pura Raza Española (PRE), all presenting the same chromosomal abnormal...
Meat Quality Characteristics of Mongolian Horses in Inner Mongolia: Regional Superiority and Transcriptomic Insights into Tenderness Differences Between Muscular Locations. Horse meat is a high-quality protein source. A total of 50 two-year-old male horses with similar body weights (300 ± 50 kg) were used: 30 for regional comparison (10 each from Bulgan province region of Mongolia (BPM), Tuv province region of Mongolia (TPM), and Inner Mongolia region of China (IMC)) and an additional 20 from the IMC region for muscle-site analysis. To elucidate the molecular mechanisms underlying regional and muscle-site differences in the meat quality of Mongolian horses, with particular emphasis on tenderness, this study analyzed chemical composition, minerals, fatty acids, a...
Prevalence, genomic diversity and emerging antimicrobial resistance of Taylorella asinigenitalis in Grand Noir du Berry breeding donkeys. Taylorella asinigenitalis is a fastidious Gram-negative bacterium of the equine genital tract, found more commonly in donkeys than horses. Although considered non-pathogenic, it is closely related to Taylorella equigenitalis, the agent of contagious equine metritis, and has been linked to experimental and natural cases of endometritis. The SAFRAN project (French acronym for "Sauvegarde de la fertilité de l'âne", meaning "Preservation of donkey fertility"), launched in 2024 by the French National Research Institute for Agriculture, Food and Environment (INRAE) with support from the Centre-Val...
Molecular detection of Toxoplasma gondii in an aborted equine fetus and serological evidence of infection in mares enrolled in embryo transfer programs in Brazil. Toxoplasma gondii infection is widely recognized as an important cause of reproductive losses in goats and sheep. However, the impact of this parasitic infection in mares remains poorly investigated, reflecting the neglect of this pathogen in equine production. The present study aimed to conduct a serological survey in 100 mares from farms enrolled in embryo transfer (ET) programs in Northeastern Brazil, report the first molecular detection of T. gondii in the placenta and aborted fetus of a mare in the country, and evaluate potential risk factors associated with infection. Anti-T. gondii IgG ...
