The glyoxylate cycle, a variation of the tricarboxylic acid cycle, is an anabolic pathway occurring in plants, bacteria, protists, and fungi. The glyoxylate cycle centers on the conversion of acetyl-CoA to succinate for the synthesis of carbohydrates. In microorganisms, the glyoxylate cycle allows cells to use two carbons (C2 compounds), such as acetate, to satisfy cellular carbon requirements when simple sugars such as glucose or fructose are not available. The cycle is generally assumed to be absent in animals, with the exception of nematodes at the early stages of embryogenesis. In recent years, however, the detection of malate synthase (MS) and isocitrate lyase (ICL), key enzymes involved in the glyoxylate cycle, in some animal tissue has raised questions regarding the evolutionary relationship of enzymes in bacteria and animals and suggests that animals encode alternative enzymes of the cycle that differ in function from known MS and ICL in non-metazoan species.
Plants as well as some algae and bacteria can use acetate as the carbon source for the production of carbon compounds. Plants and bacteria employ a modification of the TCA cycle called the glyoxylate cycle to produce four carbon dicarboxylic acid from two carbon acetate units. The glyoxylate cycle bypasses the two oxidative decarboxylation reactions of the TCA cycle and directly converts isocitrate through isocitrate lyase and malate synthase into malate and succinate.
History The glyoxylate cycle was discovered in 1957 at the University of Oxford by Sir Hans Kornberg and his mentor Hans Krebs, resulting in a Nature paper Synthesis of Cell Constituents from C2-Units by a Modified Tricarboxylic Acid Cycle. Kornberg and Krebs utilized isotopic labeling with C-14 acetate to demonstrate that in the glyoxylate pathway, the acetate is incorporated into the succinate intermediate while bypassing the decarboxylation steps of the TCA cycle. Their results from isotopic experiments laid the foundation for the alternative glyoxylate cycle and explained how plants as well as microorganisms convert two-carbon molecules into carbohydrates. Following this discovery, in 1967 Breidenbach and Beevers discovered that there is a specialized organelle in castor bean (Ricinus communis), glyoxysomes, which are specialized peroxisomes where the glyoxylate cycle enzymes are found and where the cycle takes place in plants.
Similarities with TCA cycle
The glyoxylate cycle uses five of the eight enzymes associated with the tricarboxylic acid cycle: citrate synthase, aconitase, succinate dehydrogenase, fumarase, and malate dehydrogenase. The two cycles differ in that in the glyoxylate cycle, isocitrate is converted into glyoxylate and succinate by isocitrate lyase (ICL) instead of into α-ketoglutarate. This bypasses the decarboxylation steps that take place in the citric acid cycle (TCA cycle), allowing simple carbon compounds to be used in the later synthesis of macromolecules, including glucose. Glyoxylate is subsequently combined with acetyl-CoA to produce malate, catalyzed by malate synthase. Malate is also formed in parallel from succinate by the action of succinate dehydrogenase and fumarase.
The difference between the two cycles can be seen through their net equations. In the citric acid cycle, two carbons that are part of the acetyl-CoA are lost as carbon dioxide, which results in net carbon loss. Unlike the citric acid cycle, the glyoxylate cycle bypasses the two decarboxylations. This allows the glyoxylate cycle the net synthesis of glucose from acetyl-CoA. The net equation of the glyoxylate cycle is: 2Acetyl-CoA + NAD+ + 2H2O → Succinate + 2CoA + NADH + H+. Alberty, Robert A. "Thermodynamics and Kinetics of the Glyoxylate Cycle." Biochemistry 45, no. 51 (December 2006): 15838–43. doi:10.1021/bi061829e
Regulation The regulation of the glyoxylate cycle involves carbon source availability, as it controls the transcriptional levels of key enzymes. Carbon catabolite repression is the main process that occurs in bacteria and fungi that regulates the transcriptional levels of the glyoxylate cycle, ensuring that the cycle is activated when glucose is not available. For instance, in Escherichia coli, the regulation of the isocitrate branch point takes place by regulating the transcription level of IclR and FadR, and through AceK, which is a bifunctional enzyme that acts as both a dehydrogenase kinase and a phosphatase. AceK is responsible for the regulation of isocitrate dehydrogenase and its switching roles in the citric acid cycle as well as the glyoxylate cycle. It determines whether the carbon atoms will be used in the glyoxylate cycle or the citric acid cycle. The phosphorylation, catalyzed by the AceK kinase function, of isocitrate dehydrogenase decreases its activity, and this phosphorylation can be reversed. In plants, the regulation of the glyoxylate cycle is achieved by regulating transcriptional levels during the seed germination process and through the mobilization of stored lipids . In bacteria, such as Mycobacterium tuberculosis, the glyoxylate cycle is up regulated especially when glucose is scarce and is needed during host infection. This regulation contributes to the growth and virulence of the pathogenic infection. Overall, these regulations allow for the conservation of carbon and activate the biosynthesis of key metabolites when carbon source is limited.
Role in gluconeogenesis
Fatty acids from lipids are commonly used as an energy source by vertebrates as fatty acids are degraded through beta oxidation into acetate molecules. This acetate, bound to the active thiol group of coenzyme A, enters the citric acid cycle (TCA cycle) where it is fully oxidized to carbon dioxide. This pathway thus allows cells to obtain energy from fat. To use acetate from fat for biosynthesis of carbohydrates, the glyoxylate cycle, whose initial reactions are identical to the TCA cycle, is used.
Cell-wall containing organisms, such as plants, fungi, and bacteria, require very large amounts of carbohydrates during growth for the biosynthesis of complex structural polysaccharides, such as cellulose, glucans, and chitin. In these organisms, in the absence of available carbohydrates (for example, in certain microbial environments or during seed germination in plants), the glyoxylate cycle permits the synthesis of glucose from lipids via acetate generated in fatty acid β-oxidation.
The glyoxylate cycle bypasses the steps in the citric acid cycle where carbon is lost in the form of CO2. The two initial steps of the glyoxylate cycle are identical to those in the citric acid cycle: acetate → citrate → isocitrate. In the next step, catalyzed by the first glyoxylate cycle enzyme, isocitrate lyase, isocitrate undergoes cleavage into succinate and glyoxylate (the latter gives the cycle its name). Glyoxylate condenses with acetyl-CoA (a step catalyzed by malate synthase), yielding malate. Both malate and oxaloacetate can be converted into phosphoenolpyruvate, which is the product of phosphoenolpyruvate carboxykinase, the first enzyme in gluconeogenesis. The net result of the glyoxylate cycle is therefore the production of glucose from fatty acids. Succinate generated in the first step can enter into the citric acid cycle to eventually form oxaloacetate.
Function in organisms
Plants In plants the glyoxylate cycle occurs in special peroxisomes which are called glyoxysomes. This cycle allows seeds to use lipids as a source of energy to form the shoot during germination. The seed cannot produce biomass using photosynthesis because of lack of an organ to perform this function. The lipid stores of germinating seeds are used for the formation of the carbohydrates that fuel the growth and development of the organism.
The glyoxylate cycle can also provide plants with another aspect of metabolic diversity. This cycle allows plants to take in acetate both as a carbon source and as a source of energy. Acetate is converted to acetyl CoA (similar to the TCA cycle). This acetyl CoA can proceed through the glyoxylate cycle, and some succinate is released during the cycle. The four carbon succinate molecule can be transformed into a variety of carbohydrates through combinations of other metabolic processes; the plant can synthesize molecules using acetate as a source for carbon. The acetyl CoA can also react with glyoxylate to produce some NADPH from NADP+, which is used to drive energy synthesis in the form of ATP later in the electron transport chain.
Pathogenic fungi
The glyoxylate cycle may serve an entirely different purpose in some species of pathogenic fungi. The levels of the main enzymes of the glyoxylate cycle, ICL and MS, are greatly increased upon contact with a human host. Mutants of a particular species of fungi that lacked ICL were also significantly less virulent in studies with mice compared to the wild type. The exact link between these two observations is still being explored, but it can be concluded that the glyoxylate cycle is a significant factor in the pathogenesis of these microbes.
Vertebrates
Vertebrates were once thought to be unable to perform this cycle because there was no evidence of its two key enzymes, isocitrate lyase and malate synthase. However, some research suggests that this pathway may exist in some, if not all, vertebrates.
Specifically, some studies show evidence of components of the glyoxylate cycle existing in significant amounts in the liver tissue of chickens. Data such as these support the idea that the cycle could theoretically occur in even the most complex vertebrates. There is strong evidence of the cycle's presence in certain nematode species. Other experiments, later refuted, suggested the cycle was present among certain insect and marine invertebrate species. Some publications conflict on the presence of the cycle in mammals: for example, one paper has stated that the glyoxylate cycle is active in hibernating bears, but this report was disputed in a later paper. Evidence exists for malate synthase activity in humans due to a dual functional malate/B-methylmalate synthase of mitochondrial origin called CLYBL expressed in brown fat and kidney. Vitamin D may regulate this pathway in vertebrates.
Inhibition of the glyoxylate cycle
Due to the central role of the glyoxylate cycle in the metabolism of pathogenic species including fungi and bacteria, enzymes of the glyoxylate cycle are current inhibition targets for the treatment of diseases. Most reported inhibitors of the glyoxylate cycle target the first enzyme of the cycle (ICL). Inhibitors were reported for Candida albicans for potential use as antifungal agents. The mycobacterial glyoxylate cycle is also being targeted for potential treatments of tuberculosis.
Engineering concepts The prospect of engineering various metabolic pathways into mammals which do not possess them is a topic of great interest for bio-engineers today. The glyoxylate cycle is one of the pathways which engineers have attempted to manipulate into mammalian cells. This is primarily of interest for engineers in order to increase the production of wool in sheep, which is limited by the access to stores of glucose. By introducing the pathway into sheep, the large stores of acetate in cells could be used in order to synthesize glucose through the cycle, allowing for increased production of wool. Mammals are incapable of executing the pathway due to the lack of two enzymes, isocitrate lyase and malate synthase, which are needed in order for the cycle to take place. It is believed by some that the genes to produce these enzymes, however, are pseudogenic in mammals, meaning that the gene is not necessarily absent, rather, it is merely "turned off".