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Topic:Genetics

Genetics in horses encompasses the study of hereditary traits and the genetic makeup that influences various characteristics and health conditions in equine populations. This field involves the analysis of genes and their functions, inheritance patterns, and the impact of genetic variations on traits such as coat color, performance ability, and susceptibility to diseases. Research in equine genetics employs techniques such as genome mapping, sequencing, and genetic testing to identify specific genes and mutations associated with these traits. This page gathers peer-reviewed research studies and scholarly articles that explore the genetic basis of equine traits, the methodologies used in genetic research, and the implications for breeding, health management, and conservation of horse breeds.
Whole-loop mitochondrial DNA D-loop sequence variability in Egyptian Arabian equine matrilines.
PloS one    August 31, 2017   Volume 12, Issue 8 e0184309 doi: 10.1371/journal.pone.0184309
Hudson W.Egyptian Arabian horses have been maintained in a state of genetic isolation for over a hundred years. There is only limited genetic proof that the studbook records of female lines of Egyptian Arabian pedigrees are reliable. This study characterized the mitochondrial DNA (mtDNA) signatures of 126 horses representing 14 matrilines in the Egyptian Agricultural Organization (EAO) horse-breeding program. Results: Analysis of the whole D-loop sequence yielded additional information compared to hypervariable region-1 (HVR1) analysis alone, with 42 polymorphic sites representing ten haplotypes compar...
Splicing site disruption in the KIT gene as strong candidate for white dominant phenotype in an Italian Trotter.
Animal genetics    August 30, 2017   Volume 48, Issue 6 727-728 doi: 10.1111/age.12590
Capomaccio S, Milanesi M, Nocelli C, Giontella A, Verini-Supplizi A, Branca M, Silvestrelli M, Cappelli K.No abstract available
Genome-wide association study for tobiano spotting coat color in Korean Jeju × Thoroughbred horse population.
Animal genetics    August 29, 2017   Volume 48, Issue 6 728-729 doi: 10.1111/age.12596
Kim NY, Bhuiyan MSA, Chae HS, Baek KS, Son JK, Shin SM, Woo JH, Park SH, Lee SH.No abstract available
Effect of conservative mutations (L94V and L94I) on the structure and stability of horse cytochrome c.
Archives of biochemistry and biophysics    August 26, 2017   Volume 633 40-49 doi: 10.1016/j.abb.2017.08.015
Khan SH, Islam A, Hassan MI, Sharma S, Singh TP, Ahmad F.A sequence alignment of horse cytochrome c (cyt c) with all known cyts c shows that Leu at position 94 is conserved, except in 14 species which have either Val or Ile at this position. It is also known that Leu94 of the mammalian cyt c plays an important role in folding and stability. The important question here is as to what will happen in terms of folding and stability if Leu94 of the mammalian cyt c is substituted by Val or Ile. To answer this question, we introduced natural substitutes of Leu94 by Val and Ile in horse cyt c. The purified L94V and L94I mutants under native condition (pH 6.0...
Mechanics of evolutionary digit reduction in fossil horses (Equidae).
Proceedings. Biological sciences    August 25, 2017   Volume 284, Issue 1861 20171174 doi: 10.1098/rspb.2017.1174
McHorse BK, Biewener AA, Pierce SE.Digit reduction is a major trend that characterizes horse evolution, but its causes and consequences have rarely been quantitatively tested. Using beam analysis on fossilized centre metapodials, we tested how locomotor bone stresses changed with digit reduction and increasing body size across the horse lineage. Internal bone geometry was captured from 13 fossil horse genera that covered the breadth of the equid phylogeny and the spectrum of digit reduction and body sizes, from to To account for the load-bearing role of side digits, a novel, continuous measure of digit reduction was also esta...
Innate immune genes in persistent mating-induced endometritis in horses.
Reproduction, fertility, and development    August 24, 2017   Volume 30, Issue 3 533-545 doi: 10.1071/RD17157
Marth CD, Firestone SM, Hanlon D, Glenton LY, Browning GF, Young ND, Krekeler N.Persistent mating-induced endometritis (PMIE) severely decreases fertility in horses. The aim of the present study was to evaluate differences between horses susceptible to PMIE and a control group in terms of the expression of selected immune response and effector genes, and the effects of oestrous cycle stage on this expression. Endometrial biopsies from 18 uterine samples of mares in the control group (eight in dioestrus, 10 in oestrus) and 16 PMIE-susceptible mares (four in dioestrus, 12 in oestrus) were analysed by quantitative real-time reverse transcription-polymerase chain reaction. Ge...
Genetic and codon usage bias analyses of polymerase genes of equine influenza virus and its relation to evolution.
BMC genomics    August 23, 2017   Volume 18, Issue 1 652 doi: 10.1186/s12864-017-4063-1
Bera BC, Virmani N, Kumar N, Anand T, Pavulraj S, Rash A, Elton D, Rash N, Bhatia S, Sood R, Singh RK, Tripathi BN.Equine influenza is a major health problem of equines worldwide. The polymerase genes of influenza virus have key roles in virus replication, transcription, transmission between hosts and pathogenesis. Hence, the comprehensive genetic and codon usage bias of polymerase genes of equine influenza virus (EIV) were analyzed to elucidate the genetic and evolutionary relationships in a novel perspective. Results: The group - specific consensus amino acid substitutions were identified in all polymerase genes of EIVs that led to divergence of EIVs into various clades. The consistent amino acid changes...
First report of molecular characterization and phylogenetic analysis of RoTat 1.2 VSG of Trypanosoma evansi from equine isolate.
Tropical animal health and production    August 22, 2017   Volume 49, Issue 8 1793-1796 doi: 10.1007/s11250-017-1384-7
Sudan V, Jaiswal AK, Shanker D, Verma AK.Rotat 1.2 variant surface glycoprotein (VSG) is considered to be an important VSG expressed in most of the isolates of Trypanosoma evansi. This makes the molecule an important candidate for both molecular- and serological-based detection of surra. There are ample reports of existence of this gene in isolates from cattle, buffalo, and camel across the world. Of late, there are reports of its absence from a fewer isolates of T. evansi of murine and wildlife origin. Search of literature revealed no reports from horses. The present communication presents the first report of molecular cloning and c...
Horse spermatogonial stem cell cryopreservation: feasible protocols and potential biotechnological applications.
Cell and tissue research    August 22, 2017   Volume 370, Issue 3 489-500 doi: 10.1007/s00441-017-2673-1
Costa GMJ, Avelar GF, Lacerda SMSN, Figueiredo AFA, Tavares AO, Rezende-Neto JV, Martins FGP, França LR.The establishment of proper conditions for spermatogonial stem cells (SSCs) cryopreservation and storage represents an important biotechnological approach for the preservation of the genetic stock of valuable animals. This study demonstrates the effects of different cryopreservation protocols on the survival rates and phenotypic expression of SSCs in horses. The cells were enzymatically isolated from testes of eight adult horses. After enrichment and characterization of germ cells in the suspension, the feasibility of several cryopreservation protocols were evaluated. Three different cryomedia...
Generalized papillomatosis in three horses associated with a novel equine papillomavirus (EcPV8).
Veterinary dermatology    August 22, 2017   Volume 29, Issue 1 72-e30 doi: 10.1111/vde.12481
Linder KE, Bizikova P, Luff J, Zhou D, Yuan H, Breuhaus B, Nelson E, Mackay R.Currently, seven equine papillomaviruses (PV) are known and are associated with one of three different and distinct clinical presentations. Objective: To report the clinical, histopathological and immunohistochemical findings in horses with generalized papillomatosis associated with a novel equine PV, Equus caballus papillomavirus 8 (EcPV8). Methods: Three client-owned quarter horses. Methods: Case report, retrospective. Results: Dozens to thousands of papillomas involved the axilla, inguinal area and proximal limbs as well as the ventral and lateral neck, thorax and abdomen. Lesions were some...
Optimal Regression Method for Near-Infrared Spectroscopic Evaluation of Articular Cartilage.
Applied spectroscopy    August 22, 2017   Volume 71, Issue 10 2253-2262 doi: 10.1177/0003702817726766
Prakash M, Sarin JK, Rieppo L, Afara IO, Töyräs J.Near-infrared (NIR) spectroscopy has been successful in nondestructive assessment of biological tissue properties, such as stiffness of articular cartilage, and is proposed to be used in clinical arthroscopies. Near-infrared spectroscopic data include absorbance values from a broad wavelength region resulting in a large number of contributing factors. This broad spectrum includes information from potentially noisy variables, which may contribute to errors during regression analysis. We hypothesized that partial least squares regression (PLSR) is an optimal multivariate regression technique and...
Development of a multilocus sequence typing scheme for Rhodococcus equi.
Veterinary microbiology    August 19, 2017   Volume 210 64-70 doi: 10.1016/j.vetmic.2017.08.010
Duquesne F, Houssin E, Sévin C, Duytschaever L, Tapprest J, Fretin D, Hébert L, Laugier C, Petry S.Rhodococcus equi causes pulmonary and extrapulmonary infections in animals and humans, with endemic situations and significant young foal mortality in stud farms worldwide. Despite its economic impact in the horse-breeding industry, the broad geographic and host distribution, global diversity and population structure of R. equi remain poorly characterised. In this context, we developed a multilocus sequence typing (MLST) scheme using 89 clinical and environmental R. equi of various origins and eight Rhodococcus sp. Data can be accessed at http://pubmlst.org/rhodococcus/. A clonal R. equi popul...
From discovery to spread: The evolution and phylogeny of Getah virus. Li YY, Liu H, Fu SH, Li XL, Guo XF, Li MH, Feng Y, Chen WX, Wang LH, Lei WW, Gao XY, Lv Z, He Y, Wang HY, Zhou HN, Wang GQ, Liang GD.Getah virus (GETV) was first isolated in Malaysia in 1955. Since then, epidemics in horses and pigs caused by GETV have resulted in huge economic losses. At present, GETV has spread across Eurasia and Southeast Asia, including mainland China, Korea, Japan, Mongolia, and Russia. Data show that the Most Recent Common Ancestor (MRCA) of GETV existed about 145years ago (95% HPD: 75-244) and gradually evolved into four distinct evolutionary populations: Groups I-IV. The MRCA of GETVs in Group III, which includes all GETVs isolated from mosquitoes, pigs, horses, and other animals since the 1960s (fr...
Histological assessment of β-amyloid precursor protein immunolabelled rectal biopsies aids diagnosis of equine grass sickness.
Equine veterinary journal    August 18, 2017   Volume 50, Issue 1 22-28 doi: 10.1111/evj.12710
Jago RC, Scholes S, Mair TS, Pearson GR, Pirie RS, Handel I, Milne EM, Coyle F, Mcgorum BC.An accurate, minimally invasive, ante-mortem diagnostic test for equine grass sickness (EGS) is currently lacking. Although histological examination of haematoxylin and eosin-stained rectal biopsies for chromatolytic neurons is insensitive as a diagnostic test for EGS, we hypothesised that its diagnostic accuracy could be improved by immunolabelling for β-amyloid precursor protein (β-APP), which has increased expression in cranial cervical ganglia (CCG) neuronal perikarya in EGS. Objective: To develop a grading scheme for assessing the distribution and intensity of β-APP immunoreactivity wi...
Adaptation of a 96-well plate larval migration inhibition test for measuring the sensitivity of cyathostomins to macrocyclic lactone anthelmintics.
Veterinary parasitology    August 18, 2017   Volume 245 55-61 doi: 10.1016/j.vetpar.2017.08.010
Beasley AM, Coleman GT, Kotze AC.The use of macrocyclic lactone drugs for control of equine cyathostomins is threatened by increasing levels of resistance. Detection of changes in drug sensitivity is important for effective and sustainable management of cyathostomins, however, at present such detection relies on the use of the faecal egg count reduction test, which is known to be an insensitive method. The present study therefore aimed to examine the use of a 96-well plate larval migration inhibition test for detection of resistance to macrocyclic lactone drugs in cyathostomins. We optimised conditions for migration of larvae...
Cheek tooth morphology and ancient mitochondrial DNA of late Pleistocene horses from the western interior of North America: Implications for the taxonomy of North American Late Pleistocene Equus.
PloS one    August 17, 2017   Volume 12, Issue 8 e0183045 doi: 10.1371/journal.pone.0183045
Barrón-Ortiz CI, Rodrigues AT, Theodor JM, Kooyman BP, Yang DY, Speller CF.Horses were a dominant component of North American Pleistocene land mammal communities and their remains are well represented in the fossil record. Despite the abundant material available for study, there is still considerable disagreement over the number of species of Equus that inhabited the different regions of the continent and on their taxonomic nomenclature. In this study, we investigated cheek tooth morphology and ancient mtDNA of late Pleistocene Equus specimens from the Western Interior of North America, with the objective of clarifying the species that lived in this region prior to t...
Progress in broodmare practice as based on recent papers in Equine Veterinary Journal.
Equine veterinary journal    August 15, 2017   Volume 49, Issue 5 565-566 doi: 10.1111/evj.12714
Pycock JF.No abstract available
Stallion sperm selection prior to freezing using a modified colloid swim-up procedure without centrifugation.
Animal reproduction science    August 12, 2017   Volume 185 83-88 doi: 10.1016/j.anireprosci.2017.08.005
Hidalgo M, Ortiz I, Dorado J, Morrell JM, Gosálvez J, Consuegra C, Diaz-Jimenez M, Pereira B, Crespo F.The aims of this study were to: 1) develop a new method for stallion sperm selection using a modified swim-up procedure through a colloid and 2) evaluate its impact in good quality ejaculates from bad freezers in comparison to methods involving centrifugation such as single layer centrifugation and sperm washing. Ejaculates were processed before freezing using three different procedures: sperm washing (SW), colloid single layer centrifugation (SLC) and a modified colloid swim-up (SU). After semen processing, sperm recovery rates were measured and sperm were frozen. Post-thaw sperm motility (as...
Relationship Between β-cell Response and Insulin Sensitivity in Horses based on the Oral Sugar Test and the Euglycemic Hyperinsulinemic Clamp.
Journal of veterinary internal medicine    August 10, 2017   Volume 31, Issue 5 1541-1550 doi: 10.1111/jvim.14799
Lindåse S, Nostell K, Söder J, Bröjer J.A hyperbolic relationship between β-cell response and insulin sensitivity (IS) has been described in several species including rodents, dogs, and humans. This relationship has not been elucidated in the horse. Objective: To determine whether the hyperbolic relationship between β-cell response and IS exists in horses by using indices of β-cell response from the oral sugar test (OST) and IS measurements from the euglycemic hyperinsulinemic clamp (EHC). A second aim was to compare how well IS estimates from the OST and EHC correlate. Methods: Forty-nine horses with different degrees of insulin...
Complete mitochondrial genomes of Triodontophorus serratus and Triodontophorus nipponicus, and their comparison with Triodontophorus brevicauda.
Experimental parasitology    August 10, 2017   Volume 181 88-93 doi: 10.1016/j.exppara.2017.08.002
Gao JF, Liu GH, Duan H, Gao Y, Zhang Y, Chang QC, Fang M, Wang CR.Triodontophorus serratus and Triodontophorus nipponicus are two of the most common nematodes inhabiting in the large intestine of horse. In the present study, the complete mitochondrial (mt) genome sequences of T. serratus and T. nipponicus have been determined. The mt genomes of T. serratus and T. nipponicus are circular molecules with 13,794 bp and 13,701 bp in size, respectively. These circular mt genomes encode 36 genes, including 12 protein-coding genes, two rRNA genes and 22 tRNA genes. All of these genes are transcribed in the same direction and gene arrangements are consistent with...
Equine skeletal muscle adaptations to exercise and training: evidence of differential regulation of autophagosomal and mitochondrial components.
BMC genomics    August 9, 2017   Volume 18, Issue 1 595 doi: 10.1186/s12864-017-4007-9
Bryan K, McGivney BA, Farries G, McGettigan PA, McGivney CL, Gough KF, MacHugh DE, Katz LM, Hill EW.A single bout of exercise induces changes in gene expression in skeletal muscle. Regular exercise results in an adaptive response involving changes in muscle architecture and biochemistry, and is an effective way to manage and prevent common human diseases such as obesity, cardiovascular disorders and type II diabetes. However, the biomolecular mechanisms underlying such responses still need to be fully elucidated. Here we performed a transcriptome-wide analysis of skeletal muscle tissue in a large cohort of untrained Thoroughbred horses (n = 51) before and after a bout of high-intensity exe...
Two Variants in SLC24A5 Are Associated with “Tiger-Eye” Iris Pigmentation in Puerto Rican Paso Fino Horses.
G3 (Bethesda, Md.)    August 7, 2017   Volume 7, Issue 8 2799-2806 doi: 10.1534/g3.117.043786
Mack M, Kowalski E, Grahn R, Bras D, Penedo MCT, Bellone R.A unique eye color, called tiger-eye, segregates in the Puerto Rican Paso Fino (PRPF) horse breed and is characterized by a bright yellow, amber, or orange iris. Pedigree analysis identified a simple autosomal recessive mode of inheritance for this trait. A genome-wide association study (GWAS) with 24 individuals identified a locus on ECA 1 reaching genome-wide significance ( = 1.32 × 10). This ECA1 locus harbors the candidate gene, (), (), with known roles in pigmentation in humans, mice, and zebrafish. Humans with compound heterozygous mutations in have oculocutaneous albinism (OCA) type...
Evolution and spread of Venezuelan equine encephalitis complex alphavirus in the Americas.
PLoS neglected tropical diseases    August 3, 2017   Volume 11, Issue 8 e0005693 doi: 10.1371/journal.pntd.0005693
Forrester NL, Wertheim JO, Dugan VG, Auguste AJ, Lin D, Adams AP, Chen R, Gorchakov R, Leal G, Estrada-Franco JG, Pandya J, Halpin RA, Hari K, Jain R....Venezuelan equine encephalitis (VEE) complex alphaviruses are important re-emerging arboviruses that cause life-threatening disease in equids during epizootics as well as spillover human infections. We conducted a comprehensive analysis of VEE complex alphaviruses by sequencing the genomes of 94 strains and performing phylogenetic analyses of 130 isolates using complete open reading frames for the nonstructural and structural polyproteins. Our analyses confirmed purifying selection as a major mechanism influencing the evolution of these viruses as well as a confounding factor in molecular cloc...
Complete Genome Sequences of Getah Virus Strains Isolated from Horses in 2016 in Japan.
Genome announcements    August 3, 2017   Volume 5, Issue 31 e00750-17 doi: 10.1128/genomeA.00750-17
Nemoto M, Bannai H, Ochi A, Niwa H, Murakami S, Tsujimura K, Yamanaka T, Kokado H, Kondo T.Getah virus is mosquito-borne and causes disease in horses and pigs. We sequenced and analyzed the complete genomes of three strains isolated from horses in Ibaraki Prefecture, eastern Japan, in 2016. They were almost identical to the genomes of strains recently isolated from horses, pigs, and mosquitoes in Japan.
Mitochondrial DNA Evidence Supports the Hypothesis that Triodontophorus Species Belong to Cyathostominae.
Frontiers in microbiology    August 3, 2017   Volume 8 1444 doi: 10.3389/fmicb.2017.01444
Gao Y, Zhang Y, Yang X, Qiu JH, Duan H, Xu WW, Chang QC, Wang CR.Equine strongyles, the significant nematode pathogens of horses, are characterized by high quantities and species abundance, but classification of this group of parasitic nematodes is debated. Mitochondrial (mt) genome DNA data are often used to address classification controversies. Thus, the objectives of this study were to determine the complete mt genomes of three Cyathostominae nematode species (, and ) of horses and reconstruct the phylogenetic relationship of Strongylidae with other nematodes in Strongyloidea to test the hypothesis that spp. belong to Cyathostominae using the mt genomes...
Comparison of flocked and rayon swabs for the molecular detection of selected equine viruses and bacteria from nasal secretions of healthy horses.
The Veterinary record    August 1, 2017   Volume 181, Issue 8 197 doi: 10.1136/vr.104285
Pusterla N, Barnum S, Kenelty K.No abstract available
Investigation of the Fim1 putative pilus locus of Streptococcus equi subspecies equi.
Microbiology (Reading, England)    July 28, 2017   Volume 163, Issue 8 1217-1228 doi: 10.1099/mic.0.000506
Steward KF, Robinson C, Maskell DJ, Nenci C, Waller AS.The Gram-positive bacterium subspecies () is the causative agent of strangles, among the most frequently diagnosed infectious diseases of horses worldwide. Genome analysis of strain 4047 (4047) identified a putative operon, Fim1, with similarity to the pilus loci of other Gram-positive bacteria. The Fim1 locus was present in all strains of and its close relative subspecies () that have been studied to date. In this study we provide evidence that the putative structural pilus proteins, SEQ_0936 and CNE, are produced on the cell surface during growth and infection. Although the proteins ...
Differential Expression of Tubulin Acetylase and Deacetylase Between the Damaged Central and Peripheral Branch of Dorsal Root Ganglion Neurons.
Medical science monitor : international medical journal of experimental and clinical research    July 28, 2017   Volume 23 3673-3678 doi: 10.12659/msm.902829
Fu Z, Shi J.BACKGROUND The differences between the peripheral and central branches of the dorsal root ganglion (DRG) have not been fully elucidated. This study aimed to explore the expression of tubulin post-translational modifications (acetylation and deacetylation) between damaged peripheral and central branches of DRG neurons. MATERIAL AND METHODS Fifty Sprague-Dawley rats were randomly assigned to five groups with 10 rats in each group. These five groups consisted of spinal nerve ligation (SNL) at 24 hour and 48 hour, and cauda equina compression (CEC) at 24 hour and 48 hour, and a sham group. SNL inj...
Molecular Epidemiology of a novel re-assorted epidemic strain of equine influenza virus in Pakistan in 2015-16.
Virus research    July 27, 2017   Volume 240 56-63 doi: 10.1016/j.virusres.2017.07.022
Khan A, Mushtaq MH, Ahmad MUD, Nazir J, Farooqi SH, Khan A.A widespread epidemic of equine influenza (EI) occurred in nonvaccinated equine population across multiple districts in Khyber Pakhtunkhwa Province of Pakistan during 2015-2016. An epidemiological surveillance study was conducted from Oct 2015 to April 2016 to investigate the outbreak. EI virus strains were isolated in embryonated eggs from suspected equines swab samples and were subjected to genome sequencing using M13 tagged segment specific primers. Phylogenetic analyses of the nucleotide sequences were concluded using Geneious. Haemagglutinin (HA), Neuraminidase (NA), Matrix (M) and nucleo...
Developing a 670k genotyping array to tag ~2M SNPs across 24 horse breeds.
BMC genomics    July 27, 2017   Volume 18, Issue 1 565 doi: 10.1186/s12864-017-3943-8
Schaefer RJ, Schubert M, Bailey E, Bannasch DL, Barrey E, Bar-Gal GK, Brem G, Brooks SA, Distl O, Fries R, Finno CJ, Gerber V, Haase B, Jagannathan V....To date, genome-scale analyses in the domestic horse have been limited by suboptimal single nucleotide polymorphism (SNP) density and uneven genomic coverage of the current SNP genotyping arrays. The recent availability of whole genome sequences has created the opportunity to develop a next generation, high-density equine SNP array. Using whole genome sequence from 153 individuals representing 24 distinct breeds collated by the equine genomics community, we cataloged over 23 million de novo discovered genetic variants. Leveraging genotype data from individuals with both whole genome sequence, ...
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