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Gene expression profiles of the one-carbon metabolism pathway
Open accessAbstract
One-carbon metabolism plays a critical role in both DNA methylation and DNA synthesis. Accumulating evidence has shown that interruptions of this pathway are associated with many disease outcomes including cardiovascular diseases and cancers. Mechanistic studies have been performed on genetic polymorphisms involved in one-carbon metabolism. However, expression profiles of these inter-related genes are not well-known. In this study, we examined the gene expression profiles of 11 one-carbon metabolizing genes by quantifying the mRNA level of the lymphocyte among 54 healthy individuals and explored the correlations of these genes. We found these genes were expressed in lymphocytes at moderate levels and showed significant inter-person variations. We also applied principle component analysis to explore potential patterns of expression. The components identified by the program agreed with existing knowledge about one-carbon metabolism. This study helps us better understand the biological functions of one-carbon metabolism.
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Formate triggered upregulation of differentially expressed genes involved in one-carbon metabolism (Shmt2, Cth) and Nrf2-regulated genes (Cth, mt-Nd4, Tkt).
“formate triggered an upregulation of differentially expressed genes (DEGs) involved in 1C metabolism, such as serine hydroxymethyltransferase 2 (Shmt2)42,58 and cystathionine gamma-lyase (Cth)59, as well as genes regulated by Nrf2 (e.g.: Cth60, NADH dehydrogenase 4 (mt-Nd4)61 and transketolase (Tkt)62,63) (Figure 6L and Table S3).”
From Exercise-induced microbiota metabolite enhances CD8 T cell antitumor immunity promoting immunotherapy efficacy (2025) · cites this paper as [58]
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Analysis of Relative Gene Expression Data Using Real-Time Quantitative PCR and the 2−ΔΔCT Method
Livak, K. J., & Schmittgen, T. D. (2001) · Methods · doi:10.1006/meth.2001.1262 · Cited by 180,860
Frosst, P. D., Blom, H. J., Milos, R., Goyette, P., Sheppard, C. A., Matthews, R. G., Boers, G. H. J., den Heijer, M., Kluijtmans, L. A. J., van den Heuve, L. P., et al. (1995) · Nature Genetics · doi:10.1038/ng0595-111 · Cited by 5,648
Bustin, S. A. (2000) · Journal of Molecular Endocrinology · doi:10.1677/jme.0.0250169 · Cited by 3,844
What is principal component analysis?
Ringnér, M. (2008) · Nature Biotechnology · doi:10.1038/nbt0308-303 · Cited by 2,407
Blount, B. C., Mack, M. M., Wehr, C. M., MacGregor, J. T., Hiatt, R. A., Wang, G., Wickramasinghe, S. N., Everson, R. B., & Ames, B. N. (1997) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.94.7.3290 · Cited by 1,139
Stern, L. L., Mason, J., Selhub, J., & Choi, S. (2000) · PubMed · Cited by 387
Bailey, L. B., & Gregory, J. F. (1999) · Journal of Nutrition · doi:10.1093/jn/129.5.919 · Cited by 366
Compartmentation of folate‐mediated one‐carbon metabolism in eukaryotes
Appling, D. R. (1991) · The FASEB Journal · doi:10.1096/fasebj.5.12.1916088 · Cited by 350
Folylpolyglutamate Synthesis and Role in the Regulation of One-Carbon Metabolism
Shane, B. (1989) · Vitamins and hormones · doi:10.1016/s0083-6729(08)60397-0 · Cited by 322
Hoffman, D. R., Marion, D. W., Cornatzer, W. E., & Duerre, J. A. (1980) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(19)70381-0 · Cited by 288
Jencks, D. A., & Mathews, R. G. (1987) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)61530-3 · Cited by 153
Beaudin, A. E., & Stover, P. J. (2007) · Birth Defects Research Part C Embryo Today Reviews · doi:10.1002/bdrc.20100 · Cited by 144
Reed, M. C., Nijhout, H. F., Neuhouser, M. L., Gregory, J. F., Shane, B., James, S. J., Boynton, A., & Ulrich, C. M. (2006) · Journal of Nutrition · doi:10.1093/jn/136.10.2653 · Cited by 135
Ulvik, A., Ueland, P. M., Fredriksen, Å., Meyer, K., Vollset, S. E., Hoff, G. S., & Schneede, J. (2006) · Human Genetics · doi:10.1007/s00439-006-0290-2 · Cited by 85
One-carbon metabolism and breast cancer: an epidemiological perspective
Xu, X., & Chen, J. (2009) · Journal of genetics and genomics/Journal of Genetics and Genomics · doi:10.1016/s1673-8527(08)60108-3 · Cited by 82
Self-citationChen, X., Wang, L., Smith, J. D., & Zhang, B. (2008) · Bioinformatics · doi:10.1093/bioinformatics/btn458 · Cited by 79
Induction of oxidative stress and DNA damage in rat brain by a folate/methyl-deficient diet
Bagnyukova, T., Powell, C. L., Pavliv, O., Tryndyak, V., & Pogribny, I. P. (2008) · Brain Research · doi:10.1016/j.brainres.2008.07.073 · Cited by 59
Alcohol Drinking and One-Carbon Metabolism-Related Gene Polymorphisms on Pancreatic Cancer Risk
Suzuki, T., Matsuo, K., Sawaki, A., Mizuno, N., Hiraki, A., Kawase, T., Watanabe, M., Nakamura, T., Yamao, K., Tajima, K., et al. (2008) · Cancer Epidemiology Biomarkers & Prevention · doi:10.1158/1055-9965.epi-08-0470 · Cited by 52
Słopień, R., Jasniewicz, K. P., Męczekalski, B., Warenik-Szymankiewicz, A., Lianeri, M., & Jagodziński, P. P. (2008) · Maturitas · doi:10.1016/j.maturitas.2008.08.002 · Cited by 37
Mathematical Modeling: Epidemiology Meets Systems Biology
Ulrich, C. M., Nijhout, H. F., & Reed, M. C. (2006) · Cancer Epidemiology Biomarkers & Prevention · doi:10.1158/1055-9965.epi-06-0252 · Cited by 25
Identification of gene expression signatures for molecular classification in human leukemia cells
Song, J. Y., Kim, H., Lee, C., Kim, S., Hwang, S. H., & Kim, T. (2006) · International Journal of Oncology · doi:10.3892/ijo.29.1.57 · Cited by 21
Altered expression of methylenetetrahydrofolate reductase modifies response to methotrexate in mice
Çeltikçi, B., Leclerc, D., Lawrance, A. K., Deng, L.-Y., Friedman, H. C., Krupenko, N. I., Krupenko, S. A., Melnyk, S., James, S. J., Peterson, A. C., et al. (2008) · Pharmacogenetics and Genomics · doi:10.1097/fpc.0b013e32830058aa · Cited by 20
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1 of the 23 references couldn’t be matched to a known paper.
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Phelps, C. M., Willis, N. B., Duan, T., Lee, A. H., Zhang, Y., Rodriguez J, D. M., Pandey, S. P., Laughlin, C. R., Rosen, A. B. I., McPherson, A. C., et al. (2025) · Cell · doi:10.1016/j.cell.2025.06.018 · Cited by 91
Gut microbiome disruption altered the biotransformation and liver toxicity of arsenic in mice
Chi, L., Xue, J., Tu, P., Lai, Y., Ru, H., & Lü, K. (2018) · Archives of Toxicology · doi:10.1007/s00204-018-2332-7 · Cited by 92
Genetic and Non-genetic Predictors of LINE-1 Methylation in Leukocyte DNA
Tajuddin, S. M., Amaral, A. F. S., Fernández, A. F., Rodríguez‐Rodero, S., Rodríguez, R. M. A., Moore, L. E., Tardón, A., Carrato, A., García‐Closas, M., Silverman, D. T., et al. (2013) · Environmental Health Perspectives · doi:10.1289/ehp.1206068 · Cited by 85
Redox Imbalance and Methylation Disturbances in Early Childhood Obesity
Barbosa, P., Melnyk, S., Bennuri, S. C., Delhey, L. M., Reis, A., Moura, G., Børsheim, E., Rose, S., & Carvalho, E. (2021) · Oxidative Medicine and Cellular Longevity · doi:10.1155/2021/2207125 · Cited by 22
for the Spanish Bladder Cancer/EPICURO Study investigators, Tajuddin, S. M., Amaral, A. F. S., Fernández, A. F., Chanock, S. J., Silverman, D. T., Tardón, A., Carrato, A., García‐Closas, M., Jackson, B. P., et al. (2014) · British Journal of Cancer · doi:10.1038/bjc.2014.67 · Cited by 20
Galbiatti, A. L. S., Castro, R., Caldas, H. C., Padovani, J. A., Pavarino, É. C., & Goloni‐Bertollo, E. M. (2013) · Tumor Biology · doi:10.1007/s13277-013-0960-3 · Cited by 17
Jha, Y. (2019) · Wiley eBooks · doi:10.1002/9781119501800.ch10 · Cited by 11
Hybrid Histidine Kinase WelA of Sphingomonas sp. WG Contributes to WL Gum Biosynthesis and Motility
Li, H., Chen, M., Zhang, Z., Li, B., Liu, J., Xue, H., Ji, S., Guo, Z., Wang, J., & Zhu, H. (2022) · Frontiers in Microbiology · doi:10.3389/fmicb.2022.792315 · Cited by 8
Cao, Y., Chen, P., Cai, M., Shi, Q., Xu, P., Wang, L., He, Y., Wang, H., & Zhao, W. (2020) · Hematological Oncology · doi:10.1002/hon.2752 · Cited by 7
Nur, S. M., Mohammed, M. R. S., Zamzami, M. A., Choudhry, H., Ahmad, A., Ateeq, B., Rather, I. A., & Khan, M. I. (2022) · Metabolites · doi:10.3390/metabo12030267 · Cited by 7
Lifespan Development, Instability, and Waddington’s Epigenetic Landscape
Hollar, D. (2016) · Springer eBooks · doi:10.1007/978-3-319-25325-1_16 · Cited by 6
Galbiatti, A. L. S., Caldas, H. C., Maníglia, J. V., Pavarino, É. C., & Goloni‐Bertollo, E. M. (2014) · Biomedicine & Pharmacotherapy · doi:10.1016/j.biopha.2014.03.015 · Cited by 6
Epigenetics and One Carbon Metabolism: The Role of Folate and Vitamin B12
Yiğit, A., & Güneş, F. E. (2018) · Turkiye Klinikleri Journal of Internal Medicine · doi:10.5336/intermed.2018-62699 · Cited by 1
One‑carbon pathway gene expression analyses in blood samples of subjects with trisomy 21
Vione, B., Gaudesi, A. M., Antonaros, F., Cicilloni, M., Vitale, L., Piovesan, A., Pelleri, M. C., Strippoli, P., Sperti, G., Ramacieri, G., et al. (2025) · Clinica Chimica Acta · doi:10.1016/j.cca.2025.120747
Shelp, G. V., Tang, J., Dong, J., Al-Issa, M., Butt, N., Poole, E. M., Burns, S. E., Pannia, E., Bakovic, M., & Cho, C. E. (2026) · Journal of Agricultural and Food Chemistry · doi:10.1021/acs.jafc.6c05111
Metadata
- Authors
- Lee, Y. L., Xu, X., Wallenstein, S., & Chen, J.
- Affiliations
- Icahn School of Medicine at Mount Sinai (US)
- Corresponding author
- Chen, Jia
- ORCID
- Venue
- Journal of Genetics and Genomics
- Publisher
- Elsevier BV
- Published
- 2009-05
- Volume
- 36
- Issue
- 5
- Pages
- 277-282
- ISSN
- 1873-5533 (ISSN-L)
- 1673-8527
- PMC
- PMC2684624
- OpenAlex
- W1969080285
- Cited by
- 15
- References
- 23
- Citations by year
- 2026: 1 · 2025: 2 · 2022: 2 · 2021: 1 · 2020: 1 · 2019: 1 · 2018: 2 · 2016: 1 · 2014: 2 · 2013: 2
- FWCI
- 0.00
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Journal of genetics and genomics/Journal of Genetics and Genomics (publishedVersion)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- Funders
- U.S. Department of Defense
- National Institutes of Health
- National Cancer Institute (R01CA109753, CA109753)
- Topics
- Health Sciences › Nursing › Nutrition and Dietetics › Folate and B Vitamins Research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Nutrition, Genetics, and Disease
- Keywords
- one-carbon metabolism, gene expression profiles, lymphocytes, DNA methylation, DNA synthesis, genetic polymorphism, mRNA expression, cardiovascular disease, cancer
- MeSH terms
- Cells, Cultured, Female, Humans, Lymphocytes, Male, Polymorphism, Genetic, Genetic Variation, Gene Dosage, One-Carbon Group Transferases, Gene Expression Profiling, Metabolic Networks and Pathways
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