The ocular microbiome in horses is poorly described compared to other species, and most of the information available in the literature is based on traditional techniques, which has limited the depth of the knowledge on the subject. The objective of this study was to characterize and predict the metabolic pathways of the ocular microbiome of a group of healthy horses. Conjunctival swabs were obtained from both eyes of 14 horses, and DNA extraction was performed from the swabs, followed by next generation sequencing and bioinformatics analyses employing DADA2 and PICRUSt2. A total of 17 phyla were identified, of which Pseudomonadota (Proteobacteria) was the most abundant (59.88%), followed by Actinomycetota (Actinobacteria) (22.44%) and Bacteroidota (Bacteroidetes) (16.39%), totaling an average of 98.72% of the communities. Similarly, of the 278 genera identified, Massilia, Pedobacter, Pseudomonas, Sphingomonas, Suttonella and Verticia were present in more than 5% of the samples analyzed. Both Actinobacteria and Bacteroides showed great heterogeneity within the samples. The most abundant inferred metabolic functions were related to vital functions for bacteria such as aerobic respiration, amino acid, and lipid biosynthesis.

The gut microbiome plays a critical role in maintaining horse health, influencing digestion, immunity, and overall well-being. However, in certain conditions like colic, there is evidence of significant alterations in the microbial community. To analyze the composition of the fecal microbiome and the enriched predicted metabolic functions of horses with colic compared to a control group, 14 horses with colic and 14 control horses were recruited. From a stool sample, DNA extraction was carried out for subsequent 16S rRNA metagenomic analysis. The composition of the microbiome was analyzed from the sequences of each sample using the QIIME version 1.8.0 and DADA2 version 1.22 programs. PICRUSt2 was used to predict metabolic functions. Statistical analyses were performed with the Mann–Whitney U test from the Python scipy v1 package. The gut microbiomes of both groups were dominated by Firmicuteota, Bacteroidota, and Pseudomonadota phyla. Colic in horses was associated with reduced diversity, reduced abundance of Fibrobacter, and an increase in Streptococcus. The abundance of Firmicuteota was negatively correlated with Pseudomonadota and Actinobacteriota. The equine colic microbiome was predicted to be enriched in aerobic respiration pathways and fatty acid and amino acid degradation. These observations indicate discrete but important differences in the gut microbiome of colic horses.

Equine herpes myeloencephalopathy (EHM) is a neurological disease in horses caused by Equine herpesvirus type 1 (EHV-1). It is a serious condition, often resulting in severe neurological deficits, and can be fatal. In this report, we discuss the first outbreak of EHM in Chile (clinical signs, epidemiology, diagnosis, and control measures). A total of 567 polo horses were kept at the facility: 58.4% mares, 41.6% geldings, and stallions. Mean age was 9.7 ± 0.132 years. Thirteen horses showed clinical signs of EHV-1, eight had fevers (1.4%), and eleven developed EHM (1.9%). Only six of the eleven EHM cases had high fevers (>39.5 °C). Mortality was 0.35% (index case and one additional case) and morbidity reached 3.35% (19/567). PCR testing was performed on 214 horses (37.7%); 13 tested positive (6.1%) and 201 negative (93.9%). Of PCR-positive horses, 53.8% showed clinical signs. Notably, 2.9% of PCR-negative horses also presented signs compatible with EHV-1. CT values among positive cases ranged from 30 to 39. This first EHM outbreak in Chile showed low morbidity and mortality. Rapid implementation of strict quarantine and biosecurity effectively limited spread. Further data on viral prevalence and types are needed to improve preparedness.