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SCFAs: byproducts of microbial metabolism

Written by Amanda Hettiarachchi | Apr 2, 2025 11:00:00 am

The gut ecosystem encompasses numerous complex interactions among the gut microbiota, the host organism, and various metabolites. In this article, we will delve into the production and uptake of short-chain fatty acids. These metabolites are initially produced as byproducts by the gut microbiota, but play a significant role in maintaining gut health and metabolic homeostasis. 

Synthesis of SCFA: the biochemistry

Short-chain fatty acids (SCFAs) are metabolic byproducts resulting from the fermentation of dietary fiber by gut bacteria. These microorganisms generate energy through anaerobic glycolysis, a process that occurs in the absence of oxygen within the intestines. The waste product of this process is pyruvate. In the presence of oxygen, pyruvate can be further metabolized to produce more energy; however, in the anaerobic environment of the gut, bacteria convert pyruvate into SCFAs. This conversion is part of several metabolic pathways that bacteria have evolved to manage pyruvate, leading to the production of several SCFA, and lactic acid. While the latter is often discussed alongside SCFAs, lactic acid is not technically classified as a SCFA due to its hydroxyl group. This structural difference results in distinct chemical behaviors compared to SCFAs. Lactic acid is a stronger acid, which significantly lowers pH levels. Its hydroxyl group also increases its polarity and water solubility, facilitating its transport in the bloodstream. Lactic acid is produced by lactic acid bacteria, which are facultative anaerobes that thrive in low-oxygen environments, where they ferment readily available glucose. 

 

Fibers that are easily accessible are rapidly fermented. When these fibers become scarce, bacteria shift to proteolytic fermentation. These protein fermentation reactions can be categorized into two main types: beneficial assimilation pathways and undesirable putrefaction reactions. Beneficial assimilation pathways primarily produce branched-chain fatty acids, along with SCFAs (notably valerate), polyamides, and amino acids, which are generally considered advantageous. Branched-chain fatty acids are a class of fatty acids characterized by methyl branches on their carbon chains. They are exclusively produced through the fermentation of branched-chain amino acids. For instance, valine, leucine, and isoleucine yield iso-butyrate, iso-valerate, and 2-methylbutyrate as byproducts. In pigs, this type of proteolytic fermentation typically occurs in the colon. Conversely, undesirable putrefaction reactions, often observed in weaning pigs, resemble the decomposition of organic matter. These reactions produce harmful substances such as ammonia, hydrogen sulfide, phenolic and indolic compounds, and biogenic amines, which can threaten the survival of cells, such as epithelial cells. Ammonia and hydrogen sulfide usually result from the deamination of amino acids or the hydrolysis of urea. Additionally, some bacteria ferment sulfur-containing amino acids, like methionine and cysteine, to produce hydrogen sulfide, while others utilize acetate and lactate for the same purpose. These are considered undesirable products.

The relationship between gut microbiota and its metabolites

The production of specific SCFAs depends upon the types of bacteria present in the gut and the substrates available to them. Different bacterial species are associated with the synthesis of particular SCFAs. For instance, butyrate is predominantly linked to the bacterial phylum Firmicutes and the genus Bacteroides, while propionate is associated with the genus Megasphaera. Acetate is commonly produced by a variety of bacterial groups. In pigs, Clostridium species are significant producers of various SCFAs, and a reduction in these species is often correlated with compromised gut health.

A key regulatory mechanism of the gut ecosystem stability is short-chain fatty acid cross-feeding, where certain bacteria utilize SCFAs produced by other bacteria. A notable example is butyrogenic cross-feeding, where butyrate is synthesized from either acetate or lactate. As a result, bacteria producing acetate and lactate indirectly support the growth of butyrate-producing bacteria. Similarly, propionate production can also occur through cross-feeding mechanisms involving lactate, which might lead to the depletion of lactate and destabilize the gut ecosystem. Interestingly, although both propionate and butyrate participate in cross-feeding interactions, they cannot be converted into one another through this process. Understanding this distinction and the pathways involved in cross-feeding is crucial for accurately interpreting SCFA profiles. While the complete mechanisms of cross-feeding are not yet fully elucidated, these processes underscore the complex nature of SCFA production and its role in shaping gut microbial communities and maintaining SCFA equilibrium. Furthermore, external factors such as the use of antibiotics and the presence of infections can have a substantial impact on the gut microbiota and its metabolic outputs. 

SCFA absorption by the gut and utilization

Short-chain fatty acids are absorbed by the gut through two primary mechanisms: passive diffusion and active transport. Passive diffusion occurs through the apical membrane, primarily in colonocytes, and is effective for protonated, lipophilic versions of fatty acids, allowing them to easily traverse the cell membrane and be absorbed by colonocytes. Active transport involves specific transporters, including monocarboxylate transporters and sodium-coupled monocarboxylate transporters, which are well-documented. These transporters are located not only at the apical site but also in the lamina propria, facilitating the movement of SCFAs from the colonocytes into the systemic circulation. Additionally, ion channels at these sites help export SCFAs into the bloodstream, often in exchange for anions. 

Additionally, free fatty acid receptors are located at multiple sites within the gut and across different cell types. These receptors have been primarily identified in mammals and are G-protein-coupled receptors (GPCRs) embedded in the cell membrane. They function as switches that regulate numerous downstream cellular processes involved in metabolism, inflammation and gut function. For example, GPCR 109A is well-documented for its interaction with butyrate. Notably, GPCR 43 is of particular interest for studying its downstream effects and can be found in enteroendocrine cells in the gut. These cells produce gut hormones that influence glucose metabolism and satiety, affecting feed intake, gut emptying, and the ileal brake mechanism. Some receptors remain to be fully identified, and there is ongoing debate regarding their roles. Short-chain fatty acids not only affect enteroendocrine cells but also immune cells, where they exert specific effects. For instance, acetate, propionate, and butyrate can modulate the immune response by downregulating inflammatory cytokines and upregulating anti-inflammatory cytokines. 

Once in the bloodstream, SCFAs serve various functions: butyrate is efficiently utilized for energy production in colon cells through beta-oxidation, accounting for approximately 70 to 80% of their energy production. Propionate travels through the portal vein to the liver, where it is primarily used for gluconeogenesis. Acetate, after exiting the liver, circulates in the bloodstream and can be used as an oxidative fuel in muscles or as a substrate for lipogenesis in adipose tissue and the liver. These processes collectively contribute to the host's energy levels.

The influence of SCFAs on gut health and the immune system are profound and multifaceted. The complex interactions of SCFAs and the gut microbiota underscores that SCFA production involves  sophisticated mechanisms, some of which are not yet fully understood. Knowledge of the pathways involved in SCFA production and uptake are crucial when studying SCFA profiles.  

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