Short-Chain Fatty Acids Overview
An examination of microbial short-chain fatty acids in the scientific literature
February 2026
Introduction
Short-chain fatty acids (SCFAs) are among the most extensively studied microbial metabolites in the scientific literature examining the gut microbiota. These small carboxylic acids are produced primarily through bacterial fermentation of dietary fibre and other carbohydrates that escape digestion in the small intestine. This article provides an informational overview of SCFAs, their production, and their described roles in human physiology as documented in scientific research.
What Are Short-Chain Fatty Acids?
Short-chain fatty acids are organic acids containing one to six carbon atoms. The three SCFAs present in the highest concentrations in the human colon are:
Acetate
Acetate (acetic acid) is the most abundant SCFA in the colon, typically representing approximately 50–60% of total SCFAs. It is produced through multiple metabolic pathways by diverse bacterial species and represents a major fermentation end product. Acetate is absorbed from the colon and circulates systemically in the bloodstream.
Propionate
Propionate (propionic acid) typically represents 15–20% of total colonic SCFAs and is produced through specific bacterial metabolic pathways. Like acetate, propionate is absorbed and circulates systemically.
Butyrate
Butyrate (butyric acid) usually represents 20–30% of total colonic SCFAs. Unlike acetate and propionate, butyrate is preferentially utilised by intestinal epithelial cells (colonocytes) as an energy source, with only a small proportion entering systemic circulation.
Production and Metabolism
Short-chain fatty acids are produced when colonic bacteria ferment carbohydrates that are not absorbed in the small intestine. The primary substrates for SCFA production are:
Dietary Fibre
Soluble and insoluble dietary fibres are the primary substrates for SCFA production. Specific bacterial taxa possess the enzymatic machinery necessary to break down various fibre types, leading to SCFA production as a byproduct of bacterial metabolism.
Resistant Starch
Starch that resists digestion in the small intestine and reaches the colon can be fermented to produce SCFAs.
Oligosaccharides and Sugar Alcohols
Various non-digestible carbohydrates can be fermented to produce SCFAs.
Proposed Functions and Mechanisms
Scientific literature describes multiple potential roles for SCFAs in host physiology:
Epithelial Barrier Function
Butyrate is described in research as supporting intestinal barrier integrity. Colonocytes preferentially use butyrate as an energy source, and studies document that butyrate may strengthen the tight junctions between intestinal epithelial cells through various molecular mechanisms.
Immune Function
Research describes potential roles for SCFAs in immune regulation. SCFAs interact with various immune cells and may modulate inflammatory responses through multiple mechanisms, including histone deacetylase inhibition and G-protein-coupled receptor signalling.
Metabolic Effects
Scientific literature suggests that SCFAs may influence metabolic processes through effects on gene expression, signalling pathways, and metabolism in various tissues. However, the practical significance of these effects in humans remains an area of ongoing research with considerable individual variability.
Brain-Gut Signalling
Research documents potential roles for SCFAs in gut-brain communication through various signalling mechanisms, though the functional significance remains incompletely understood.
Measurement in Research
Scientific studies measure SCFA concentrations in faecal samples or colonic content using techniques such as gas chromatography. These measurements represent the net result of SCFA production and absorption. Faecal SCFA concentrations may not precisely reflect colonic concentrations or the amount available for epithelial absorption, presenting challenges in interpreting research findings.
Factors Influencing SCFA Production
Several factors influence the amount and composition of SCFAs produced:
- Fibre Intake and Type: Higher and more diverse fibre intake generally supports greater SCFA production, though the response is highly individual.
- Microbial Composition: The specific bacterial taxa present influence which SCFAs are produced and in what proportions.
- Transit Time: The time food spends in the colon affects the degree of fermentation.
- pH: Colonic pH influences which bacteria thrive and the metabolic pathways they utilise.
- Nutrient Availability: The availability of nitrogen and other nutrients influences bacterial metabolism and SCFA production.
Research Considerations and Limitations
Several important considerations characterise SCFA research:
- Individual Variation: SCFA production and response to interventions vary substantially between individuals.
- Mechanistic Understanding: While potential mechanisms are described, the practical significance in humans remains incompletely understood.
- Measurement Challenges: Faecal SCFA concentrations may not precisely reflect physiologically relevant levels or availability for absorption.
- Long-Term Effects Unknown: Long-term effects of manipulating SCFA production through dietary intervention remain incompletely studied.
Conclusion
Short-chain fatty acids represent important products of bacterial fermentation in the colon and are described in scientific literature as potentially playing roles in various physiological processes. However, the practical significance of SCFAs in human health, the degree to which dietary interventions can meaningfully modify SCFA production, and individual variability in response remain active areas of research. Understanding SCFA physiology contributes to our broader comprehension of the gut microbiota but does not provide a simple basis for individual health recommendations.