Atlas's gut microbiome remains in the optimal performance band with a vitality score of 54. Fiber fermenter populations stabilized at +52.4% versus baseline; pathogen screening returned a secure result. A minor watch flag was raised on butyrate-producing populations — see clinical findings below.
Horse species symposium: The microbiome of the horse hindgut: history and current knowledge
Julliand V, Grimm P · Journal of Animal Science · 2016
Review of hindgut microbial ecology, fiber-fermentation pathways, and the role of Fibrobacter and Lachnospiraceae populations.
Comparison of the fecal microbiota of healthy horses and horses with colitis by high throughput sequencing of the V3–V5 region of the 16S rRNA gene
Costa MC, Arroyo LG, et al. · PLOS ONE · 2012
Foundational study establishing the equine fecal microbiome baseline and characterizing dysbiosis signatures in clinical colitis.
Comparison of the fecal microbiota in horses with equine metabolic syndrome and metabolically normal controls
Elzinga SE, Weese JS, Adams AA · Journal of Equine Veterinary Science · 2016
Identifies dysbiosis signatures specific to equine metabolic syndrome — informs caution flags on Proteobacteria elevations.
Characterization of the fecal bacteria communities of forage-fed horses by pyrosequencing of 16S rRNA V4 gene amplicons
Shepherd ML, Swecker WS, et al. · FEMS Microbiology Letters · 2012
Pyrosequencing characterization of forage-fed equine microbiota; supports fiber-fermenter reference ranges.
Characterisation of the fecal microbiota of healthy adult horses
Stewart HL, Pitta D, et al. · Equine Veterinary Journal · 2018
Cohort study characterizing the fecal microbiota of healthy adult horses across stable management conditions; defines population reference envelopes.
Influence of short-term dietary starch inclusion on the equine cecal microbiome
Warzecha CM, Coverdale JA, et al. · Journal of Animal Science · 2017
Shows acute starch challenge depresses fiber fermenters and elevates lactic-acid producers; supports starch-management recommendations.
Bacterial diversity within the equine large intestine as revealed by molecular analysis of cloned 16S rRNA genes
Daly K, Stewart CS, et al. · FEMS Microbiology Ecology · 2001
Pioneering 16S analysis of equine large-intestinal bacterial diversity; cited for hindgut bacterial taxonomy.
Horse species symposium: The microbiome of the horse hindgut: history and current knowledge
Julliand V, Grimm P · Journal of Animal Science · 2016
Review of hindgut microbial ecology, fiber-fermentation pathways, and the role of Fibrobacter and Lachnospiraceae populations.
Characterisation of the fecal microbiota of healthy adult horses
Stewart HL, Pitta D, et al. · Equine Veterinary Journal · 2018
Cohort study characterizing the fecal microbiota of healthy adult horses across stable management conditions; defines population reference envelopes.
Strain dependent presence of Streptococcus equi subsp. equi in equine respiratory and digestive tracts
Blackmore TM, Dugdale A, et al. · Veterinary Microbiology · 2013
Documents S. equi subsp. presence in equine GI tracts; informs pathogen-screening thresholds.
Pyrosequencing of 16S rRNA genes in fecal samples reveals high diversity of hindgut microflora in horses and potential links to chronic laminitis
Steelman SM, Chowdhary BP, et al. · BMC Veterinary Research · 2012
Links hindgut microbial signatures to chronic laminitis risk; basis for opportunistic-pathogen monitoring.
Comparison of the fecal microbiota of healthy horses and horses with colitis by high throughput sequencing of the V3–V5 region of the 16S rRNA gene
Costa MC, Arroyo LG, et al. · PLOS ONE · 2012
Foundational study establishing the equine fecal microbiome baseline and characterizing dysbiosis signatures in clinical colitis.
Comparison of the fecal microbiota in horses with equine metabolic syndrome and metabolically normal controls
Elzinga SE, Weese JS, Adams AA · Journal of Equine Veterinary Science · 2016
Identifies dysbiosis signatures specific to equine metabolic syndrome — informs caution flags on Proteobacteria elevations.
Characterization of the fecal bacteria communities of forage-fed horses by pyrosequencing of 16S rRNA V4 gene amplicons
Shepherd ML, Swecker WS, et al. · FEMS Microbiology Letters · 2012
Pyrosequencing characterization of forage-fed equine microbiota; supports fiber-fermenter reference ranges.
Short-chain fructo-oligosaccharide supplementation effects on intestinal microflora and immune response of horses
Respondek F, Goachet AG, Julliand V · Journal of Animal Science · 2008
Evaluates prebiotic supplementation effects on equine gut microbial communities; cited for supplement-protocol rationale.
Streptococcus equi subsp. detected at 6.8% relative abundance with concurrent Enterobacteriaceae bloom. Pattern consistent with active enteric inflammation; veterinarian review required within 48 hours.
Strain dependent presence of Streptococcus equi subsp. equi in equine respiratory and digestive tracts
Blackmore TM, Dugdale A, et al. · Veterinary Microbiology · 2013
Documents S. equi subsp. presence in equine GI tracts; informs pathogen-screening thresholds.
Comparison of the fecal microbiota of healthy horses and horses with colitis by high throughput sequencing of the V3–V5 region of the 16S rRNA gene
Costa MC, Arroyo LG, et al. · PLOS ONE · 2012
Foundational study establishing the equine fecal microbiome baseline and characterizing dysbiosis signatures in clinical colitis.
Changes in the faecal microbiota of mares precede the development of post partum colic
Weese JS, Holcombe SJ, et al. · Equine Veterinary Journal · 2015
Demonstrates that shifts in fecal microbiota precede clinical colic — supports preemptive monitoring rationale.
F. succinogenes at 7.1% — below the 12% reference floor. Reduced fiber fermentation capacity may compound pathogen load.
Horse species symposium: The microbiome of the horse hindgut: history and current knowledge
Julliand V, Grimm P · Journal of Animal Science · 2016
Review of hindgut microbial ecology, fiber-fermentation pathways, and the role of Fibrobacter and Lachnospiraceae populations.
Influence of short-term dietary starch inclusion on the equine cecal microbiome
Warzecha CM, Coverdale JA, et al. · Journal of Animal Science · 2017
Shows acute starch challenge depresses fiber fermenters and elevates lactic-acid producers; supports starch-management recommendations.
Strain dependent presence of Streptococcus equi subsp. equi in equine respiratory and digestive tracts
Blackmore TM, Dugdale A, et al. · Veterinary Microbiology · 2013
Documents S. equi subsp. presence in equine GI tracts; informs pathogen-screening thresholds.
Changes in the faecal microbiota of mares precede the development of post partum colic
Weese JS, Holcombe SJ, et al. · Equine Veterinary Journal · 2015
Demonstrates that shifts in fecal microbiota precede clinical colic — supports preemptive monitoring rationale.
Horse species symposium: The microbiome of the horse hindgut: history and current knowledge
Julliand V, Grimm P · Journal of Animal Science · 2016
Review of hindgut microbial ecology, fiber-fermentation pathways, and the role of Fibrobacter and Lachnospiraceae populations.
Characterisation of the fecal microbiota of healthy adult horses
Stewart HL, Pitta D, et al. · Equine Veterinary Journal · 2018
Cohort study characterizing the fecal microbiota of healthy adult horses across stable management conditions; defines population reference envelopes.
Pathogen signal threshold exceeded. Initiate clinical review with Dr. Aris Thorne or attending vet.
Strain dependent presence of Streptococcus equi subsp. equi in equine respiratory and digestive tracts
Blackmore TM, Dugdale A, et al. · Veterinary Microbiology · 2013
Documents S. equi subsp. presence in equine GI tracts; informs pathogen-screening thresholds.
Changes in the faecal microbiota of mares precede the development of post partum colic
Weese JS, Holcombe SJ, et al. · Equine Veterinary Journal · 2015
Demonstrates that shifts in fecal microbiota precede clinical colic — supports preemptive monitoring rationale.
Standard biosecurity precaution while awaiting clinical confirmation.
Strain dependent presence of Streptococcus equi subsp. equi in equine respiratory and digestive tracts
Blackmore TM, Dugdale A, et al. · Veterinary Microbiology · 2013
Documents S. equi subsp. presence in equine GI tracts; informs pathogen-screening thresholds.
Restore F. succinogenes substrate availability post-clearance.
Horse species symposium: The microbiome of the horse hindgut: history and current knowledge
Julliand V, Grimm P · Journal of Animal Science · 2016
Review of hindgut microbial ecology, fiber-fermentation pathways, and the role of Fibrobacter and Lachnospiraceae populations.
The effects of weaning methods on gut microbiota composition and horse physiology
Mach N, Foury A, et al. · Frontiers in Physiology · 2017
Examines diet-shift impacts on equine gut microbial composition; basis for transition-protocol guidance.
Use of fecal microbial transplantation in horses
Arroyo LG, Rossi L, et al. · Journal of Veterinary Internal Medicine · 2017
Evaluates fecal microbial transplant as adjunct intervention in dysbiotic equine cases; informs restorative protocols.