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Effector CD8 T cells dedifferentiate into long-lived memory cells
Abstract
Memory CD8 T cells that circulate in the blood and are present in lymphoid organs are an essential component of long-lived T cell immunity. These memory CD8 T cells remain poised to rapidly elaborate effector functions upon re-exposure to pathogens, but also have many properties in common with naive cells, including pluripotency and the ability to migrate to the lymph nodes and spleen. Thus, memory cells embody features of both naive and effector cells, fuelling a long-standing debate centred on whether memory T cells develop from effector cells or directly from naive cells. Here we show that long-lived memory CD8 T cells are derived from a subset of effector T cells through a process of dedifferentiation. To assess the developmental origin of memory CD8 T cells, we investigated changes in DNA methylation programming at naive and effector cell-associated genes in virus-specific CD8 T cells during acute lymphocytic choriomeningitis virus infection in mice. Methylation profiling of terminal effector versus memory-precursor CD8 T cell subsets showed that, rather than retaining a naive epigenetic state, the subset of cells that gives rise to memory cells acquired de novo DNA methylation programs at naive-associated genes and became demethylated at the loci of classically defined effector molecules. Conditional deletion of the de novo methyltransferase Dnmt3a at an early stage of effector differentiation resulted in reduced methylation and faster re-expression of naive-associated genes, thereby accelerating the development of memory cells. Longitudinal phenotypic and epigenetic characterization of the memory-precursor effector subset of virus-specific CD8 T cells transferred into antigen-free mice revealed that differentiation to memory cells was coupled to erasure of de novo methylation programs and re-expression of naive-associated genes. Thus, epigenetic repression of naive-associated genes in effector CD8 T cells can be reversed in cells that develop into long-lived memory CD8 T cells while key effector genes remain demethylated, demonstrating that memory T cells arise from a subset of fate-permissive effector T cells.
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“These phenotypic changes correlate with increased expression of the master transcription factors TCF1 (encoded by Tcf7) or EOMES in absence of DNMT3A or TET2, respectively[164][165][166]183,187.”
From Clonal haematopoiesis and dysregulation of the immune system (2023) · cites this paper as [165]
In the citing paper
“In antigen-stimulated mouse CD8 + T cells and human chimeric antigen receptor (CAR) T cells, deficiency in DNMT3A or TET2 is associated with normal primary immune responses but enhanced secondary responses with increased memory precursor and central memory T cell differentiation 163-166,183,187 .”
From Clonal haematopoiesis and dysregulation of the immune system (2023) · cites this paper as [165]
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Citations
Cites
BEDTools: a flexible suite of utilities for comparing genomic features
Quinlan, A. R., & Hall, I. M. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq033 · Cited by 27,437
Okano, M., Bell, D. W., Haber, D. A., & Li, E. (1999) · Cell · doi:10.1016/s0092-8674(00)81656-6 · Cited by 6,143
Molecular Signature of CD8+ T Cell Exhaustion during Chronic Viral Infection
Wherry, E. J., Ha, S.-J., Kaech, S. M., Haining, W. N., Sarkar, S., Kalia, V., Subramaniam, S., Blattman, J. N., Barber, D. L., & Ahmed, R. (2007) · Immunity · doi:10.1016/j.immuni.2007.09.006 · Cited by 2,103
Self-citationCounting Antigen-Specific CD8 T Cells: A Reevaluation of Bystander Activation during Viral Infection
Murali‐Krishna, K., Altman, J. D., Suresh, M., Sourdive, D. J. D., Zajac, A. J., Miller, J. D., Slansky, J. E., & Ahmed, R. (1998) · Immunity · doi:10.1016/s1074-7613(00)80470-7 · Cited by 1,934
Self-citationJoshi, N. S., Cui, W., Chandele, A., Lee, H. K., Urso, D. R., Hagman, J., Gapin, L., & Kaech, S. M. (2007) · Immunity · doi:10.1016/j.immuni.2007.07.010 · Cited by 1,861
Kaech, S. M., Tan, J. T., Wherry, E. J., Konieczny, B. T., Surh, C. D., & Ahmed, R. (2003) · Nature Immunology · doi:10.1038/ni1009 · Cited by 1,830
Self-citationWherry, E. J., Blattman, J. N., Murali-Krishna, K., van der Most, R., & Ahmed, R. (2003) · Journal of Virology · doi:10.1128/jvi.77.8.4911-4927.2003 · Cited by 1,610
Self-citationEssential role for de novo DNA methyltransferase Dnmt3a in paternal and maternal imprinting
Kaneda, M., Okano, M., Hata, K., Sado, T., Tsujimoto, N., Li, E., & Sasaki, H. (2004) · Nature · doi:10.1038/nature02633 · Cited by 1,392
Molecular Signature of CD8+ T Cell Exhaustion during Chronic Viral Infection
Wherry, E. J., Ha, S.-J., Kaech, S. M., Haining, W. N., Sarkar, S., Kalia, V., Subramaniam, S., Blattman, J. N., Barber, D. L., & Ahmed, R. (2007) · Immunity · doi:10.1016/j.immuni.2007.11.006 · Cited by 1,354
Self-citationBSMAP: whole genome bisulfite sequence MAPping program
Xi, Y., & Li, W. (2009) · BMC Bioinformatics · doi:10.1186/1471-2105-10-232 · Cited by 1,238
Tolerance induction in double specific T-cell receptor transgenic mice varies with antigen
Pircher, H., Bürki, K., Lang, R., Hengartner, H., & Zinkernagel, R. M. (1989) · Nature · doi:10.1038/342559a0 · Cited by 1,019
Molecular and Functional Profiling of Memory CD8 T Cell Differentiation
Kaech, S. M., Hemby, S., Kersh, E., & Ahmed, R. (2002) · Cell · doi:10.1016/s0092-8674(02)01139-x · Cited by 982
Self-citationAsymmetric T Lymphocyte Division in the Initiation of Adaptive Immune Responses
Chang, J. T., Palanivel, V., Kinjyo, I., Schambach, F., Intlekofer, A. M., Banerjee, A., Longworth, S. A., Vinup, K. E., Mrass, P., Oliaro, J., et al. (2007) · Science · doi:10.1126/science.1139393 · Cited by 845
Functional and genomic profiling of effector CD8 T cell subsets with distinct memory fates
Sarkar, S., Kalia, V., Haining, W. N., Konieczny, B. T., Subramaniam, S., & Ahmed, R. (2008) · The Journal of Experimental Medicine · doi:10.1084/jem.20071641 · Cited by 660
Self-citationRutishauser, R. L., Martins, G. A., Kalachikov, S. M., Chandele, A., Parish, I. A., Meffre, E., Jacob, J., Calame, K. L., & Kaech, S. M. (2009) · Immunity · doi:10.1016/j.immuni.2009.05.014 · Cited by 612
Feng, H., Conneely, K. N., & Wu, H. (2014) · Nucleic Acids Research · doi:10.1093/nar/gku154 · Cited by 596
Kruppel-like factor 2 regulates thymocyte and T-cell migration
Carlson, C. M., Endrizzi, B. T., Wu, J., Ding, X., Weinreich, M. A., Walsh, E. R., Wani, M. A., Lingrel, J. B., Hogquist, K. A., & Jameson, S. C. (2006) · Nature · doi:10.1038/nature04882 · Cited by 593
Estimating the Precursor Frequency of Naive Antigen-specific CD8 T Cells
Blattman, J. N., Antia, R., Sourdive, D. J. D., Wang, X., Kaech, S. M., Murali-Krishna, K., Altman, J. D., & Ahmed, R. (2002) · The Journal of Experimental Medicine · doi:10.1084/jem.20001021 · Cited by 583
Self-citationOrigin and differentiation of human memory CD8 T cells after vaccination
Akondy, R. S., Fitch, M., Edupuganti, S., Yang, S., Kissick, H. T., Li, K. W., Youngblood, B. A., Abdelsamed, H. A., McGuire, D. J., Cohen, K. W., et al. (2017) · Nature · doi:10.1038/nature24633 · Cited by 517
Self-citationYoungblood, B., Oestreich, K. J., Ha, S.-J., Duraiswamy, J., Akondy, R. S., West, E. E., Wei, Z., Lu, P., Austin, J. W., Riley, J. L., et al. (2011) · Immunity · doi:10.1016/j.immuni.2011.06.015 · Cited by 419
Self-citationYang, C. Y., Best, J. A., Knell, J., Yang, E., Sheridan, A. D., Jesionek, A. K., Li, H. S., Rivera, R. R., Lind, K. C., D’Cruz, L. M., et al. (2011) · Nature Immunology · doi:10.1038/ni.2158 · Cited by 411
Disparate Individual Fates Compose Robust CD8 + T Cell Immunity
Buchholz, V. R., Floßdorf, M., Hensel, I., Kretschmer, L., Weißbrich, B., Gräf, P., Verschoor, A., Schiemann, M., Höfer, T., & Busch, D. H. (2013) · Science · doi:10.1126/science.1235454 · Cited by 406
Heterogeneous Differentiation Patterns of Individual CD8 + T Cells
Gerlach, C., Rohr, J. C., Perié, L., van Rooij, N., van Heijst, J. W. J., Velds, A., Urbanus, J., Naik, S. H., Jacobs, H., Beltman, J. B., et al. (2013) · Science · doi:10.1126/science.1235487 · Cited by 365
Wu, H., Xu, T., Feng, H., Chen, L., Li, B., Yao, B., Qin, Z., Jin, P., & Conneely, K. N. (2015) · Nucleic Acids Research · doi:10.1093/nar/gkv715 · Cited by 347
Modelling T-cell memory by genetic marking of memory T cells in vivo
Jacob, J., & Baltimore, D. (1999) · Nature · doi:10.1038/21208 · Cited by 308
Wirth, T. C., Xue, H.-H., Rai, D., Sabel, J. T., Bair, T., Harty, J. T., & Badovinac, V. P. (2010) · Immunity · doi:10.1016/j.immuni.2010.06.014 · Cited by 261
Transcriptional regulator Id2 mediates CD8+ T cell immunity
Cannarile, M. A., Lind, N. A., Rivera, R. R., Sheridan, A. D., Camfield, K. A., Wu, B. B., Cheung, K. P., Ding, Z., & Goldrath, A. W. (2006) · Nature Immunology · doi:10.1038/ni1403 · Cited by 250
The precursors of memory: models and controversies
Ahmed, R., Bevan, M. J., Reiner, S. L., & Fearon, D. T. (2009) · Nature reviews. Immunology · doi:10.1038/nri2619 · Cited by 207
Self-citationArsenio, J., Kakaradov, B., Metz, P. J., Kim, S. H., Yeo, G. W.-M., & Chang, J. T. (2014) · Nature Immunology · doi:10.1038/ni.2842 · Cited by 201
Rapid Demethylation of the IFN-γ Gene Occurs in Memory but Not Naive CD8 T Cells
Kersh, E. N., Fitzpatrick, D. R., Murali‐Krishna, K., Shires, J., Speck, S. H., Boss, J. M., & Ahmed, R. (2006) · The Journal of Immunology · doi:10.4049/jimmunol.176.7.4083 · Cited by 189
Self-citationChang, J. T., Ciocca, M. L., Kinjyo, I., Palanivel, V., McClurkin, C. E., DeJong, C. S., Mooney, E. C., Kim, J. S., Steinel, N. C., Oliaro, J., et al. (2011) · Immunity · doi:10.1016/j.immuni.2011.03.017 · Cited by 189
T‐cell memory differentiation: insights from transcriptional signatures and epigenetics
Youngblood, B., Hale, J. S., & Ahmed, R. (2013) · Immunology · doi:10.1111/imm.12074 · Cited by 172
Self-citationMemory CD8+ T cell differentiation
Obar, J. J., & Lefrançois, L. (2010) · Annals of the New York Academy of Sciences · doi:10.1111/j.1749-6632.2009.05126.x · Cited by 161
Ladle, B. H., Li, K.-P., Phillips, M. J., Pucsek, A. B., Haile, A., Powell, J. D., Jaffee, E. M., Hildeman, D. A., & Gamper, C. J. (2016) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1524490113 · Cited by 152
DNA Methylation Analysis by MethyLight Technology
Trinh, B. N., Long, T. I., & Laird, P. W. (2001) · Methods · doi:10.1006/meth.2001.1268 · Cited by 140
Matloubian, M., Somasundaram, T., Kolhekar, S. R., Selvakumar, R., & Ahmed, R. (1990) · The Journal of Experimental Medicine · doi:10.1084/jem.172.4.1043 · Cited by 123
Self-citationImpaired Memory CD8 T Cell Development in the Absence of Methyl-CpG-Binding Domain Protein 2
Kersh, E. N. (2006) · The Journal of Immunology · doi:10.4049/jimmunol.177.6.3821 · Cited by 49
Transcriptional regulation of mouse l-selectin
Dang, X., Raffler, N., & Ley, K. F. (2008) · Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms · doi:10.1016/j.bbagrm.2008.10.004 · Cited by 22
Identification of Novel Isoforms of Mouse L-selectin with Different Carboxyl-terminal Tails
Furukawa, Y., Umemoto, E., Jang, M. H., Tohya, K., Miyasaka, M., & Hirata, T. (2008) · Journal of Biological Chemistry · doi:10.1074/jbc.m801745200 · Cited by 12
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Turning Cold into Hot: Firing up the Tumor Microenvironment
Duan, Q., Zhang, H., Zheng, J., & Zhang, L. (2020) · Trends in Cancer · doi:10.1016/j.trecan.2020.02.022 · Cited by 934
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Yao, C., Sun, H.-W., Lacey, N. E., Ji, Y., Moseman, E. A., Shih, H.-Y., Heuston, E. F., Kirby, M., Anderson, S., Cheng, J., et al. (2019) · Nature Immunology · doi:10.1038/s41590-019-0403-4 · Cited by 549
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Metadata
- Authors
- Youngblood, B., Hale, J. S., Kissick, H. T., Ahn, E., Xu, X., Wieland, A., Araki, K., West, E. E., Ghoneim, H. E., Fan, Y., Dogra, P., Davis, C. W., Konieczny, B. T., Antia, R., Cheng, X., & Ahmed, R.
- Venue
- Nature
- Published
- 2017-12-13
- Volume
- 552
- Issue
- 7685
- Pages
- 404-409
- ISSN
- 0028-0836
- 1476-4687
- PMC
- PMC5965677
- Cited by
- 471
- References
- 39
- Language
- en
- Licence
- www.springer.com/tdm (tdm)
- www.springer.com/tdm (vor)
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