Overview of One-Carbon Metabolism

What is One-Carbon Metabolism?

One-carbon metabolism, a biochemical network of biochemical reactions that utilizes methyl groups (CH3) to transfer one-carbon units between a myriad of molecules, is an indispensable pathway that intricately regulates various cellular processes. From nucleotide biosynthesis to DNA methylation and the synthesis of select amino acids and neurotransmitters, one-carbon metabolism plays an integral role in the optimal functioning of cells. This pathway comprises several key components, including folate, methionine, and choline, and several key enzymes, such as methylenetetrahydrofolate reductase (MTHFR), methionine synthase (MS), and serine hydroxymethyltransferase (SHMT).

Key Components of One Carbon Metabolism

Methionine Cycle

The methionine cycle is central to one-carbon metabolism and involves the conversion of methionine to S-adenosylmethionine (SAM), a major methyl donor for methylation reactions. SAM is involved in methylating DNA, RNA, proteins, and lipids, making it indispensable for maintaining normal cell function. After donating its methyl group, SAM is converted to S-adenosylhomocysteine (SAH), which is further hydrolyzed to homocysteine. Homocysteine can be remethylated to regenerate methionine, thus completing the cycle.

Folates and Tetrahydrofolate (THF)

Folates, particularly in the form of tetrahydrofolate (THF), are pivotal in one-carbon metabolism as they carry and transfer one-carbon units. THF, derived from dietary folic acid, undergoes reduction and acts as a carrier of one-carbon fragments that are critical for nucleotide and amino acid biosynthesis. The methylation of DNA and other macromolecules relies heavily on folates for the production of methyl-THF, which donates its methyl group to the methionine cycle.

Role of Folic Acid

Folic acid, a precursor of THF, plays a vital role in ensuring that the one-carbon units are available for crucial reactions, such as the synthesis of purines and pyrimidines (nucleotides) necessary for DNA replication. It also supports the regeneration of methionine from homocysteine, thus sustaining proper methylation reactions and maintaining genomic stability.

Serine and Glycine Metabolism

Serine and glycine, two non-essential amino acids, are integral to one-carbon metabolism. Serine donates its hydroxymethyl group to THF, forming 5,10-methylenetetrahydrofolate (5,10-CH₂-THF) and glycine. This reaction is catalyzed by serine hydroxymethyltransferase (SHMT). Glycine can also be degraded in the mitochondria to produce more one-carbon units, contributing further to the THF pool.

One carbon metabolism metabolic pathway (Korsmo et al., 2021).

Pathways Involved in One-Carbon Metabolism

C1 Metabolism Pathway

The C1 metabolism pathway refers to the transfer and utilization of one-carbon units in various forms such as methyl (-CH₃), methylene (-CH₂-), and formyl (-CHO) groups. These carbon units are essential for the biosynthesis of amino acids, purines, and thymidylate (a nucleotide required for DNA synthesis). The C1 pathway effectively integrates the production and utilization of these carbon units across multiple biochemical pathways, ensuring that the cell maintains its anabolic processes.

Methylation Reactions

Methylation reactions are a hallmark of one-carbon metabolism. They involve the transfer of a methyl group from SAM to substrates like DNA, RNA, and proteins. DNA methylation is a critical process for regulating gene expression, as it influences chromatin structure and genomic stability. Aberrations in DNA methylation patterns are associated with a variety of diseases, underscoring the essential role of this process in normal cell function.

Transsulfuration Pathway

Homocysteine, an intermediate in the methionine cycle, can either be remethylated to form methionine or be directed into the transsulfuration pathway. In the transsulfuration pathway, homocysteine is converted into cysteine by the enzymes cystathionine beta-synthase (CBS) and cystathionine gamma-lyase (CGL). Cysteine is a precursor for glutathione, a potent antioxidant that helps regulate the cellular redox state. Thus, the transsulfuration pathway links one-carbon metabolism to redox homeostasis.

Key Enzymes

Several enzymes govern the flow of one-carbon units through these pathways:

• Methylenetetrahydrofolate reductase (MTHFR) plays a critical role by converting 5,10-methylene-THF to 5-methyl-THF, which donates a methyl group for the remethylation of homocysteine to methionine.
• Cystathionine beta-synthase (CBS) facilitates the conversion of homocysteine to cystathionine in the transsulfuration pathway.

Click to learn more about the one-carbon metabolism pathway mechanism.

Regulation of One-Carbon Metabolism

The regulation of one-carbon metabolism is a highly coordinated and dynamic process, finely tuned to respond to the metabolic needs of the cell, developmental cues, and environmental factors such as nutrient availability. This regulation occurs through multiple mechanisms, including allosteric modulation of key enzymes, substrate availability, transcriptional control, and the interplay of feedback loops that maintain metabolic homeostasis.

Enzyme Regulation and Allosteric Control

A critical feature of one-carbon metabolism regulation is the allosteric control of its enzymes. Methylenetetrahydrofolate reductase (MTHFR), a key enzyme in the pathway, is regulated by intracellular levels of S-adenosylmethionine (SAM), the principal methyl donor in the methionine cycle. When SAM levels are elevated, MTHFR is allosterically inhibited, which prevents the excessive conversion of 5,10-methylenetetrahydrofolate (5,10-CH₂-THF) to 5-methyltetrahydrofolate (5-MTHF). This ensures that the pool of one-carbon units is appropriately distributed between DNA synthesis (via 5,10-CH₂-THF) and methylation reactions (via 5-MTHF), thus balancing the needs of nucleotide biosynthesis and methylation.

Cystathionine beta-synthase (CBS), another key enzyme, which catalyzes the first step in the transsulfuration pathway, is activated by SAM. This coupling ensures that when methylation demand is high (and SAM levels rise), excess homocysteine is diverted into the transsulfuration pathway to form cysteine, thus preventing the toxic accumulation of homocysteine while supporting glutathione synthesis. These feedback mechanisms serve to protect against metabolic imbalances and oxidative stress.

Nutritional Regulation and Co-Factor Availability

Nutritional status plays a pivotal role in regulating one-carbon metabolism. The availability of vitamins such as folate (vitamin B9), cobalamin (vitamin B12), and pyridoxine (vitamin B6) is essential for the proper functioning of the pathway. Folate is required for the synthesis of tetrahydrofolate (THF) derivatives, while B12 is a critical cofactor for methionine synthase, the enzyme responsible for remethylating homocysteine to methionine using 5-MTHF as the methyl donor. Vitamin B6 is essential for the transsulfuration pathway, where it acts as a cofactor for CBS and cystathionine gamma-lyase (CGL).

Folate deficiency leads to impaired DNA synthesis, due to insufficient production of purines and thymidylate, and reduced methylation capacity. Similarly, vitamin B12 deficiency impairs methionine synthase activity, causing homocysteine to accumulate and potentially leading to hyperhomocysteinemia, a condition associated with cardiovascular and neurological disorders. These vitamins, therefore, act as critical modulators of one-carbon flux and methylation capacity, and their adequate intake is necessary to maintain metabolic balance.

Transcriptional Regulation

One-carbon metabolism is also subject to transcriptional regulation. Genes encoding key enzymes such as SHMT (serine hydroxymethyltransferase), MTHFR, and CBS are regulated by cellular stress, nutrient status, and developmental signals. For example, during periods of rapid cell growth and proliferation, such as in embryogenesis or cancer, transcription factors like Myc upregulate the expression of these enzymes to meet the increased demand for nucleotides and methyl groups. Conversely, under conditions of nutrient deprivation or metabolic stress, regulatory proteins such as p53 can suppress one-carbon metabolism to conserve resources and inhibit cell proliferation.

Integration with Cellular Redox State

The regulation of one-carbon metabolism is intricately linked to the cellular redox state. The transsulfuration pathway generates cysteine, which is a precursor for glutathione (GSH), a major cellular antioxidant. Thus, one-carbon metabolism not only fuels biosynthetic processes but also helps maintain redox homeostasis. The availability of NADPH, produced in part through the folate cycle, is another key regulator of redox balance. NADPH is required for the regeneration of reduced glutathione, which protects cells from oxidative damage. Therefore, changes in one-carbon metabolism can have profound effects on cellular redox states and vice versa, highlighting the importance of maintaining a fine balance between these processes.

Functions of One-Carbon Metabolism

One-carbon metabolism is not a single linear pathway but rather a metabolic network with broad functions that span biosynthesis, methylation, and redox balance. Its impact on cellular physiology is profound, as it supports several critical cellular functions.

Nucleotide Synthesis

One-carbon metabolism is indispensable for nucleotide biosynthesis, particularly in the synthesis of purines and thymidylate. The folate-dependent generation of 5,10-methylenetetrahydrofolate is a key step in the production of thymidylate, which is required for DNA replication and repair. In rapidly dividing cells, such as those in the immune system, bone marrow, or tumors, the demand for nucleotides is particularly high, making one-carbon metabolism a vital component of cell proliferation.

Methylation Reactions

Another essential function of one-carbon metabolism is methylation. The methylation of DNA, histones, RNA, and lipids is crucial for regulating gene expression, chromatin structure, RNA processing, and membrane function. SAM, the universal methyl donor produced in the methionine cycle, supplies the methyl groups for these reactions. DNA methylation, for example, is a key epigenetic mechanism that influences gene expression by silencing or activating genes. Aberrations in methylation patterns, such as hypermethylation of tumor suppressor genes or hypomethylation of oncogenes, are frequently observed in cancer and other diseases.

Amino Acid and Protein Metabolism

One-carbon metabolism also contributes to amino acid metabolism, particularly in the synthesis and interconversion of serine, glycine, and methionine. Serine donates a hydroxymethyl group to tetrahydrofolate, generating glycine and 5,10-methylene-THF, which fuels both nucleotide synthesis and the methionine cycle. This interconnection between amino acid metabolism and one-carbon metabolism ensures that carbon units are available for both protein synthesis and critical biosynthetic pathways.

Epigenetic Regulation

One-carbon metabolism is intimately linked with epigenetic regulation via its influence on DNA and histone methylation. Epigenetic modifications are heritable changes in gene expression that do not involve alterations to the underlying DNA sequence. By modulating the availability of SAM for methylation reactions, one-carbon metabolism can alter epigenetic landscapes, thereby influencing cellular differentiation, development, and disease susceptibility. Dysregulation of these methylation processes can lead to aberrant gene expression patterns associated with cancer, neurological disorders, and other diseases.

Redox Homeostasis

The role of one-carbon metabolism in redox homeostasis is facilitated primarily through the transsulfuration pathway, which generates cysteine for glutathione synthesis. Glutathione is the cell's primary defense against oxidative stress, neutralizing reactive oxygen species (ROS) and maintaining the redox balance. Additionally, NADPH, generated through folate metabolism, supports the reduction of oxidized glutathione back to its reduced, active form, ensuring continued protection against oxidative damage. This dual role of one-carbon metabolism in both biosynthesis and redox regulation highlights its significance in maintaining cellular homeostasis and preventing oxidative stress-related damage.

One-Carbon Metabolism in Health and Disease

One-carbon metabolism plays a crucial role in various physiological processes, and its dysregulation has been linked to several diseases, including cancer, birth defects, and cardiovascular disease.

• Cancer

Cancer, a complex disease, has been heavily implicated in the dysregulation of one-carbon metabolism. The underlying mechanisms driving this association are multifaceted, but it is clear that folate deficiency and high folate intake can significantly impact cancer risk. Numerous studies have linked folate intake to a reduced risk of some cancers, including colorectal cancer, while folate deficiency has been shown to increase the risk of cancer.

However, the relationship between one-carbon metabolism and cancer is not merely limited to folate intake. The dysregulation of this pathway can lead to abnormal tumor growth and progression. For instance, aberrant DNA methylation, a process that is intricately tied to one-carbon metabolism, has been observed in a broad range of cancer types. Furthermore, certain enzymes involved in one-carbon metabolism, such as SHMT and MTHFD1, have been shown to promote tumor growth and drug resistance, adding yet another layer of complexity to this already perplexing topic.

The contribution of one-carbon metabolism to methylation (Newman et al., 2017).

• Birth defects

The role of one-carbon metabolism in fetal development cannot be overstated, with its intricate mechanisms playing a pivotal role in the formation and growth of the developing embryo. However, the regulation of this process is a delicate balance that can easily be disrupted, leading to a myriad of complications, such as neural tube defects.

Maternal folate deficiency, a well-established risk factor for neural tube defects, is a prime example of how the dysregulation of one-carbon metabolism can have severe consequences for fetal development. The deficiency of this essential nutrient has been shown to disrupt the delicate balance of one-carbon metabolism, leading to aberrant DNA methylation and synthesis, ultimately culminating in neural tube defects.

Despite the severity of this issue, researchers have identified a potential solution. Supplementation with folic acid, a synthetic form of folate, has been shown to mitigate the risk of neural tube defects by regulating one-carbon metabolism. The beneficial effects of folic acid supplementation have been observed across numerous studies, emphasizing its potential role in preventing neural tube defects and improving fetal development.

Maternal intake of 1C nutrients may affect the status of 1C nutrients in the fetus, thereby influencing biosynthesis of nucleic acids, proteins, and lipids and epigenetic regulation, eventually affecting cellular growth and metabolism (Korsmo et al., 2021).

• Cardiovascular disease

The labyrinthine and enigmatic role of one-carbon metabolism is more far-reaching than previously thought, with emergent research pointing to its involvement in cardiovascular disease. The multifaceted one-carbon metabolism pathway is responsible for producing homocysteine, a non-protein amino acid that plays a critical role in methylation reactions, but its accumulation can be detrimental to cardiovascular health, leading to an array of complications.

Indeed, there is convincing evidence to support that elevated levels of homocysteine are linked to an increased risk of cardiovascular disease. However, the underlying mechanisms that drive this relationship are convoluted and intricate. It is evident, though, that homocysteine's involvement in promoting inflammation, endothelial dysfunction, and oxidative stress play a vital role in the development of cardiovascular disease.

Furthermore, genetic variations in enzymes involved in one-carbon metabolism, such as the MTHFR gene, have been linked to an increased risk of cardiovascular disease. These genetic mutations can alter the function of the enzyme, thereby impacting the pathway's overall activity and downstream effects on cardiovascular health.

The complexities of one-carbon metabolism's role in cardiovascular disease add another layer of intricacy to an already perplexing topic. Further research is required to gain a comprehensive understanding of the mechanisms involved in the relationship between one-carbon metabolism and cardiovascular disease.

Metabolite Profiling

The cornerstone of analyzing one-carbon metabolism is metabolite profiling, which entails measuring key metabolites involved in the pathways, such as methionine, homocysteine, S-adenosylmethionine (SAM), and various forms of tetrahydrofolate (THF). Advanced analytical techniques like liquid chromatography-mass spectrometry (LC-MS) and gas chromatography-mass spectrometry (GC-MS) are commonly employed for accurate quantification of these metabolites in biological samples.

These profiling methods enable researchers to assess metabolic fluxes and identify potential dysregulation in one-carbon metabolism. By comparing metabolite levels across different conditions—such as varying nutrient availability or in disease states—researchers can uncover insights into how these pathways adapt and function. Furthermore, metabolite profiling can reveal biomarkers associated with metabolic disorders, providing a basis for diagnostic applications.

Stable Isotope Tracing

In addition to metabolite profiling, stable isotope tracing serves as a powerful technique for studying the dynamics of one-carbon metabolism. By incorporating stable isotopes (e.g., carbon-13) into substrates, researchers can trace the flow of carbon through metabolic pathways. This method allows for the measurement of metabolic fluxes, helping to identify how one-carbon units are utilized in various biochemical processes.

Using mass spectrometry to detect isotope-labeled metabolites, researchers can elucidate the contributions of one-carbon units to nucleotide synthesis, amino acid metabolism, and methylation reactions. Stable isotope tracing can also highlight alterations in metabolic pathways under different physiological or pathological conditions, providing insights into the adaptive responses of one-carbon metabolism.

References

1. Korsmo, Hunter W., and Xinyin Jiang. "One carbon metabolism and early development: A diet-dependent destiny." Trends in Endocrinology & Metabolism 32.8 (2021): 579-593.
2. Newman, Alice C., and Oliver DK Maddocks. "One-carbon metabolism in cancer." British journal of cancer 116.12 (2017): 1499-1504.