{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,11,13]],"date-time":"2026-11-13T11:25:50Z","timestamp":1794569150595,"version":"4.9.1"},"reference-count":66,"publisher":"Springer Science and Business Media LLC","issue":"7932","license":[{"start":{"date-parts":[[2022,9,28]],"date-time":"2022-09-28T00:00:00Z","timestamp":1664323200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springer.com\/tdm"},{"start":{"date-parts":[[2022,9,28]],"date-time":"2022-09-28T00:00:00Z","timestamp":1664323200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springer.com\/tdm"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Nature"],"published-print":{"date-parts":[[2022,10,20]]},"DOI":"10.1038\/s41586-022-05264-1","type":"journal-article","created":{"date-parts":[[2022,9,28]],"date-time":"2022-09-28T12:04:30Z","timestamp":1664366670000},"page":"555-561","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":104,"title":["An LKB1\u2013mitochondria axis controls TH17 effector function"],"prefix":"10.1038","volume":"610","author":[{"given":"Francesc","family":"Baixauli","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Klara","family":"Piletic","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8437-0732","authenticated-orcid":false,"given":"Daniel J.","family":"Puleston","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Matteo","family":"Villa","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cameron S.","family":"Field","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lea J.","family":"Flachsmann","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrea","family":"Quintana","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nisha","family":"Rana","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Joy","family":"Edwards-Hicks","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mai","family":"Matsushita","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Michal A.","family":"Stanczak","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Katarzyna M.","family":"Grzes","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Agnieszka M.","family":"Kabat","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9586-2230","authenticated-orcid":false,"given":"Mario","family":"Fabri","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"George","family":"Caputa","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Beth","family":"Kelly","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0617-3274","authenticated-orcid":false,"given":"Mauro","family":"Corrado","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yaarub","family":"Musa","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5256-2641","authenticated-orcid":false,"given":"Katarzyna J.","family":"Duda","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2634-0487","authenticated-orcid":false,"given":"Gerhard","family":"Mittler","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5151-8924","authenticated-orcid":false,"given":"David","family":"O\u2019Sullivan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hiromi","family":"Sesaki","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thomas","family":"Jenuwein","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6547-0076","authenticated-orcid":false,"given":"Joerg M.","family":"Buescher","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Edward J.","family":"Pearce","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0188-7267","authenticated-orcid":false,"given":"David E.","family":"Sanin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5592-5439","authenticated-orcid":false,"given":"Erika L.","family":"Pearce","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2022,9,28]]},"reference":[{"key":"5264_CR1","doi-asserted-by":"publisher","first-page":"1345","DOI":"10.1084\/jem.20151159","volume":"212","author":"MD Buck","year":"2015","unstructured":"Buck, M. D., O'Sullivan, D. & Pearce, E. L. T cell metabolism drives immunity. J. Exp. Med. 212, 1345\u20131360 (2015).","journal-title":"J. Exp. Med."},{"key":"5264_CR2","doi-asserted-by":"publisher","first-page":"403","DOI":"10.1038\/s41586-019-1311-3","volume":"571","author":"W Bailis","year":"2019","unstructured":"Bailis, W. et al. Distinct modes of mitochondrial metabolism uncouple T cell differentiation and function. Nature 571, 403\u2013407 (2019).","journal-title":"Nature"},{"key":"5264_CR3","doi-asserted-by":"publisher","first-page":"228","DOI":"10.1038\/nature23475","volume":"548","author":"T Xu","year":"2017","unstructured":"Xu, T. et al. Metabolic control of TH17 and induced Treg cell balance by an epigenetic mechanism. Nature 548, 228\u2013233 (2017).","journal-title":"Nature"},{"key":"5264_CR4","doi-asserted-by":"publisher","first-page":"204","DOI":"10.1038\/s41580-020-0210-7","volume":"21","author":"M Giacomello","year":"2020","unstructured":"Giacomello, M., Pyakurel, A., Glytsou, C. & Scorrano, L. The cell biology of mitochondrial membrane dynamics. Nat. Rev. Mol. Cell Biol. 21, 204\u2013224 (2020).","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"5264_CR5","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-019-13668-3","volume":"11","author":"I Martinez-Reyes","year":"2020","unstructured":"Martinez-Reyes, I. & Chandel, N. S. Mitochondrial TCA cycle metabolites control physiology and disease. Nat. Commun. 11, 102 (2020).","journal-title":"Nat. Commun."},{"key":"5264_CR6","doi-asserted-by":"publisher","first-page":"160","DOI":"10.1016\/j.cell.2013.08.032","volume":"155","author":"S Cogliati","year":"2013","unstructured":"Cogliati, S. et al. Mitochondrial cristae shape determines respiratory chain supercomplexes assembly and respiratory efficiency. Cell 155, 160\u2013171 (2013).","journal-title":"Cell"},{"key":"5264_CR7","doi-asserted-by":"publisher","first-page":"151","DOI":"10.1016\/j.trecan.2017.12.005","volume":"4","author":"D Ye","year":"2018","unstructured":"Ye, D., Guan, K. L. & Xiong, Y. Metabolism, activity, and targeting of d- and l-2-hydroxyglutarates. Trends Cancer 4, 151\u2013165 (2018).","journal-title":"Trends Cancer"},{"key":"5264_CR8","doi-asserted-by":"publisher","first-page":"235","DOI":"10.1146\/annurev-pathmechdis-012419-032711","volume":"15","author":"DC Chan","year":"2020","unstructured":"Chan, D. C. Mitochondrial dynamics and its involvement in disease. Annu. Rev. Pathol. 15, 235\u2013259 (2020).","journal-title":"Annu. Rev. Pathol."},{"key":"5264_CR9","doi-asserted-by":"publisher","first-page":"1062","DOI":"10.1126\/science.1219855","volume":"337","author":"RJ Youle","year":"2012","unstructured":"Youle, R. J. & van der Bliek, A. M. Mitochondrial fission, fusion, and stress. Science 337, 1062\u20131065 (2012).","journal-title":"Science"},{"key":"5264_CR10","doi-asserted-by":"publisher","first-page":"453","DOI":"10.1016\/j.tcb.2017.02.004","volume":"27","author":"O Matilainen","year":"2017","unstructured":"Matilainen, O., Quiros, P. M. & Auwerx, J. Mitochondria and epigenetics\u2014crosstalk in homeostasis and stress. Trends Cell Biol. 27, 453\u2013463 (2017).","journal-title":"Trends Cell Biol."},{"key":"5264_CR11","doi-asserted-by":"publisher","first-page":"987","DOI":"10.1016\/j.cmet.2020.04.007","volume":"31","author":"S Herkenne","year":"2020","unstructured":"Herkenne, S. et al. Developmental and tumor angiogenesis requires the mitochondria-shaping protein Opa1. Cell Metab. 31, 987\u20131003.e1008 (2020).","journal-title":"Cell Metab."},{"key":"5264_CR12","doi-asserted-by":"publisher","first-page":"749","DOI":"10.1083\/jcb.200704110","volume":"178","author":"Z Song","year":"2007","unstructured":"Song, Z., Chen, H., Fiket, M., Alexander, C. & Chan, D. C. OPA1 processing controls mitochondrial fusion and is regulated by mRNA splicing, membrane potential, and Yme1L. J. Cell Biol. 178, 749\u2013755 (2007).","journal-title":"J. Cell Biol."},{"key":"5264_CR13","doi-asserted-by":"publisher","first-page":"2966","DOI":"10.1038\/sj.emboj.7601184","volume":"25","author":"N Ishihara","year":"2006","unstructured":"Ishihara, N., Fujita, Y., Oka, T. & Mihara, K. Regulation of mitochondrial morphology through proteolytic cleavage of OPA1. EMBO J. 25, 2966\u20132977 (2006).","journal-title":"EMBO J."},{"key":"5264_CR14","doi-asserted-by":"crossref","first-page":"2297","DOI":"10.1242\/jcs.159186","volume":"129","author":"T MacVicar","year":"2016","unstructured":"MacVicar, T. & Langer, T. OPA1 processing in cell death and disease\u2014the long and short of it. J. Cell Sci. 129, 2297\u20132306 (2016).","journal-title":"J. Cell Sci."},{"key":"5264_CR15","doi-asserted-by":"publisher","first-page":"485","DOI":"10.1146\/annurev.immunol.021908.132710","volume":"27","author":"T Korn","year":"2009","unstructured":"Korn, T., Bettelli, E., Oukka, M. & Kuchroo, V. K. IL-17 and Th17 Cells. Annu. Rev. Immunol. 27, 485\u2013517 (2009).","journal-title":"Annu. Rev. Immunol."},{"key":"5264_CR16","doi-asserted-by":"publisher","first-page":"4168","DOI":"10.1016\/j.cell.2021.05.045","volume":"184","author":"A Wagner","year":"2021","unstructured":"Wagner, A. et al. Metabolic modeling of single Th17 cells reveals regulators of autoimmunity. Cell 184, 4168\u20134185.e4121 (2021).","journal-title":"Cell"},{"key":"5264_CR17","doi-asserted-by":"publisher","first-page":"485","DOI":"10.1016\/j.cell.2009.09.033","volume":"139","author":"II Ivanov","year":"2009","unstructured":"Ivanov, I. I. et al. Induction of intestinal Th17 cells by segmented filamentous bacteria. Cell 139, 485\u2013498 (2009).","journal-title":"Cell"},{"key":"5264_CR18","doi-asserted-by":"publisher","first-page":"381","DOI":"10.1016\/j.cell.2015.08.061","volume":"163","author":"T Sano","year":"2015","unstructured":"Sano, T. et al. An IL-23R\/IL-22 circuit regulates epithelial serum amyloid A to promote local effector Th17 responses. Cell 163, 381\u2013393 (2015).","journal-title":"Cell"},{"key":"5264_CR19","doi-asserted-by":"publisher","first-page":"255","DOI":"10.1038\/ni.1993","volume":"12","author":"K Hirota","year":"2011","unstructured":"Hirota, K. et al. Fate mapping of IL-17-producing T cells in inflammatory responses. Nat. Immunol. 12, 255\u2013263 (2011).","journal-title":"Nat. Immunol."},{"key":"5264_CR20","doi-asserted-by":"publisher","first-page":"514","DOI":"10.1038\/nature10228","volume":"475","author":"E Esplugues","year":"2011","unstructured":"Esplugues, E. et al. Control of TH17 cells occurs in the small intestine. Nature 475, 514\u2013518 (2011).","journal-title":"Nature"},{"key":"5264_CR21","doi-asserted-by":"publisher","first-page":"108","DOI":"10.1038\/nature13110","volume":"508","author":"K Birsoy","year":"2014","unstructured":"Birsoy, K. et al. Metabolic determinants of cancer cell sensitivity to glucose limitation and biguanides. Nature 508, 108\u2013112 (2014).","journal-title":"Nature"},{"key":"5264_CR22","doi-asserted-by":"publisher","first-page":"1063","DOI":"10.1016\/j.cmet.2020.11.007","volume":"32","author":"RJ Arguello","year":"2020","unstructured":"Arguello, R. J. et al. SCENITH: a flow cytometry-based method to functionally profile energy metabolism with single-cell resolution. Cell Metab. 32, 1063\u20131075.e1067 (2020).","journal-title":"Cell Metab."},{"key":"5264_CR23","doi-asserted-by":"publisher","first-page":"1400","DOI":"10.1016\/j.cell.2015.11.009","volume":"163","author":"JT Gaublomme","year":"2015","unstructured":"Gaublomme, J. T. et al. Single-cell genomics unveils critical regulators of Th17 cell pathogenicity. Cell 163, 1400\u20131412 (2015).","journal-title":"Cell"},{"key":"5264_CR24","doi-asserted-by":"publisher","first-page":"e10575","DOI":"10.7554\/eLife.10575","volume":"5","author":"XR Bao","year":"2016","unstructured":"Bao, X. R. et al. Mitochondrial dysfunction remodels one-carbon metabolism in human cells. eLife 5, e10575 (2016).","journal-title":"eLife"},{"key":"5264_CR25","doi-asserted-by":"publisher","first-page":"635","DOI":"10.1016\/j.cmet.2016.01.019","volume":"23","author":"J Nikkanen","year":"2016","unstructured":"Nikkanen, J. et al. Mitochondrial DNA replication defects disturb cellular dNTP pools and remodel one-carbon metabolism. Cell Metab. 23, 635\u2013648 (2016).","journal-title":"Cell Metab."},{"key":"5264_CR26","doi-asserted-by":"publisher","first-page":"540","DOI":"10.1016\/j.cell.2015.07.016","volume":"162","author":"K Birsoy","year":"2015","unstructured":"Birsoy, K. et al. An essential role of the mitochondrial electron transport chain in cell proliferation is to enable aspartate synthesis. Cell 162, 540\u2013551 (2015).","journal-title":"Cell"},{"key":"5264_CR27","doi-asserted-by":"publisher","first-page":"552","DOI":"10.1016\/j.cell.2015.07.017","volume":"162","author":"LB Sullivan","year":"2015","unstructured":"Sullivan, L. B. et al. Supporting aspartate biosynthesis is an essential function of respiration in proliferating cells. Cell 162, 552\u2013563 (2015).","journal-title":"Cell"},{"key":"5264_CR28","doi-asserted-by":"publisher","first-page":"641","DOI":"10.1016\/j.cell.2020.06.014","volume":"182","author":"L Wu","year":"2020","unstructured":"Wu, L. et al. Niche-selective inhibition of pathogenic Th17 cells by targeting metabolic redundancy. Cell 182, 641\u2013654.e620 (2020).","journal-title":"Cell"},{"key":"5264_CR29","doi-asserted-by":"publisher","first-page":"1327","DOI":"10.1038\/nm.3704","volume":"20","author":"L Berod","year":"2014","unstructured":"Berod, L. et al. De novo fatty acid synthesis controls the fate between regulatory T and T helper 17 cells. Nat. Med. 20, 1327\u20131333 (2014).","journal-title":"Nat. Med."},{"key":"5264_CR30","doi-asserted-by":"publisher","first-page":"869","DOI":"10.1038\/ng.890","volume":"43","author":"JW Locasale","year":"2011","unstructured":"Locasale, J. W. et al. Phosphoglycerate dehydrogenase diverts glycolytic flux and contributes to oncogenesis. Nat. Genet. 43, 869\u2013874 (2011).","journal-title":"Nat. Genet."},{"key":"5264_CR31","doi-asserted-by":"publisher","first-page":"59","DOI":"10.1111\/j.1600-065X.2012.01157.x","volume":"249","author":"J Blagih","year":"2012","unstructured":"Blagih, J., Krawczyk, C. M. & Jones, R. G. LKB1 and AMPK: central regulators of lymphocyte metabolism and function. Immunol Rev 249, 59\u201371 (2012).","journal-title":"Immunol Rev"},{"key":"5264_CR32","doi-asserted-by":"publisher","first-page":"4187","DOI":"10.4049\/jimmunol.1100367","volume":"187","author":"NJ MacIver","year":"2011","unstructured":"MacIver, N. J. et al. The liver kinase B1 is a central regulator of T cell development, activation, and metabolism. J. Immunol. 187, 4187\u20134198 (2011).","journal-title":"J. Immunol."},{"key":"5264_CR33","doi-asserted-by":"publisher","first-page":"12542","DOI":"10.1073\/pnas.1715363114","volume":"114","author":"N He","year":"2017","unstructured":"He, N. et al. Metabolic control of regulatory T cell (Treg) survival and function by Lkb1. Proc. Natl Acad. Sci. USA 114, 12542\u201312547 (2017).","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"5264_CR34","doi-asserted-by":"publisher","first-page":"602","DOI":"10.1038\/nature23665","volume":"548","author":"K Yang","year":"2017","unstructured":"Yang, K. et al. Homeostatic control of metabolic and functional fitness of Treg cells by LKB1 signalling. Nature 548, 602\u2013606 (2017).","journal-title":"Nature"},{"key":"5264_CR35","doi-asserted-by":"publisher","first-page":"390","DOI":"10.1038\/nature20132","volume":"539","author":"F Kottakis","year":"2016","unstructured":"Kottakis, F. et al. LKB1 loss links serine metabolism to DNA methylation and tumorigenesis. Nature 539, 390\u2013395 (2016).","journal-title":"Nature"},{"key":"5264_CR36","doi-asserted-by":"publisher","first-page":"563","DOI":"10.1038\/nrc2676","volume":"9","author":"DB Shackelford","year":"2009","unstructured":"Shackelford, D. B. & Shaw, R. J. The LKB1\u2013AMPK pathway: metabolism and growth control in tumour suppression. Nat. Rev. Cancer 9, 563\u2013575 (2009).","journal-title":"Nat. Rev. Cancer"},{"key":"5264_CR37","doi-asserted-by":"publisher","first-page":"9248","DOI":"10.1073\/pnas.96.16.9248","volume":"96","author":"M Tiainen","year":"1999","unstructured":"Tiainen, M., Ylikorkala, A. & Makela, T. P. Growth suppression by Lkb1 is mediated by a G1 cell cycle arrest. Proc. Natl Acad. Sci. USA 96, 9248\u20139251 (1999).","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"5264_CR38","doi-asserted-by":"publisher","first-page":"3045","DOI":"10.1038\/s41388-018-0145-z","volume":"37","author":"L Kullmann","year":"2018","unstructured":"Kullmann, L. & Krahn, M. P. Controlling the master-upstream regulation of the tumor suppressor LKB1. Oncogene 37, 3045\u20133057 (2018).","journal-title":"Oncogene"},{"key":"5264_CR39","doi-asserted-by":"publisher","first-page":"510","DOI":"10.1021\/cb500683c","volume":"10","author":"J Fan","year":"2015","unstructured":"Fan, J. et al. Human phosphoglycerate dehydrogenase produces the oncometabolite d-2-hydroxyglutarate. ACS Chem. Biol. 10, 510\u2013516 (2015).","journal-title":"ACS Chem. Biol."},{"key":"5264_CR40","doi-asserted-by":"publisher","first-page":"304","DOI":"10.1016\/j.cmet.2015.06.023","volume":"22","author":"AM Intlekofer","year":"2015","unstructured":"Intlekofer, A. M. et al. Hypoxia induces production of l-2-hydroxyglutarate. Cell Metab. 22, 304\u2013311 (2015).","journal-title":"Cell Metab."},{"key":"5264_CR41","doi-asserted-by":"publisher","first-page":"494","DOI":"10.1038\/nchembio.2307","volume":"13","author":"AM Intlekofer","year":"2017","unstructured":"Intlekofer, A. M. et al. l-2-Hydroxyglutarate production arises from noncanonical enzyme function at acidic pH. Nat. Chem. Biol. 13, 494\u2013500 (2017).","journal-title":"Nat. Chem. Biol."},{"key":"5264_CR42","doi-asserted-by":"publisher","first-page":"809","DOI":"10.1016\/j.cmet.2020.02.017","volume":"31","author":"L Yang","year":"2020","unstructured":"Yang, L. et al. Serine catabolism feeds NADH when respiration is impaired. Cell Metab. 31, 809\u2013821.e806 (2020).","journal-title":"Cell Metab."},{"key":"5264_CR43","doi-asserted-by":"publisher","first-page":"63","DOI":"10.1016\/j.cell.2016.05.035","volume":"166","author":"MD Buck","year":"2016","unstructured":"Buck, M. D. et al. Mitochondrial dynamics controls T cell fate through metabolic programming. Cell 166, 63\u201376 (2016).","journal-title":"Cell"},{"key":"5264_CR44","doi-asserted-by":"publisher","first-page":"2554","DOI":"10.1073\/pnas.1312570111","volume":"111","author":"B Faubert","year":"2014","unstructured":"Faubert, B. et al. Loss of the tumor suppressor LKB1 promotes metabolic reprogramming of cancer cells via HIF-1\u03b1. Proc. Natl Acad. Sci. USA 111, 2554\u20132559 (2014).","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"5264_CR45","doi-asserted-by":"publisher","first-page":"1780","DOI":"10.1016\/j.cell.2018.10.001","volume":"175","author":"MO Johnson","year":"2018","unstructured":"Johnson, M. O. et al. Distinct regulation of Th17 and Th1 cell differentiation by glutaminase-dependent metabolism. Cell 175, 1780\u20131795.e1719 (2018).","journal-title":"Cell"},{"key":"5264_CR46","doi-asserted-by":"publisher","first-page":"24","DOI":"10.1016\/j.tcb.2020.09.010","volume":"31","author":"SC Baksh","year":"2021","unstructured":"Baksh, S. C. & Finley, L. W. S. Metabolic coordination of cell fate by \u03b1-ketoglutarate-dependent dioxygenases. Trends Cell Biol. 31, 24\u201336 (2021).","journal-title":"Trends Cell Biol."},{"key":"5264_CR47","doi-asserted-by":"publisher","first-page":"570","DOI":"10.1016\/j.cell.2017.04.004","volume":"169","author":"MD Buck","year":"2017","unstructured":"Buck, M. D., Sowell, R. T., Kaech, S. M. & Pearce, E. L. Metabolic instruction of immunity. Cell 169, 570\u2013586 (2017).","journal-title":"Cell"},{"key":"5264_CR48","doi-asserted-by":"publisher","first-page":"385","DOI":"10.1038\/ni.1715","volume":"10","author":"RL Reinhardt","year":"2009","unstructured":"Reinhardt, R. L., Liang, H. E. & Locksley, R. M. Cytokine-secreting follicular T cells shape the antibody repertoire. Nat. Immunol. 10, 385\u2013393 (2009).","journal-title":"Nat. Immunol."},{"key":"5264_CR49","doi-asserted-by":"publisher","first-page":"419","DOI":"10.1016\/j.immuni.2005.09.006","volume":"23","author":"K Mohrs","year":"2005","unstructured":"Mohrs, K., Wakil, A. E., Killeen, N., Locksley, R. M. & Mohrs, M. A two-step process for cytokine production revealed by IL-4 dual-reporter mice. Immunity 23, 419\u2013429 (2005).","journal-title":"Immunity"},{"key":"5264_CR50","doi-asserted-by":"publisher","first-page":"5126","DOI":"10.1073\/pnas.0501701102","volume":"102","author":"YY Wan","year":"2005","unstructured":"Wan, Y. Y. & Flavell, R. A. Identifying Foxp3-expressing suppressor T cells with a bicistronic reporter. Proc. Natl Acad. Sci. USA 102, 5126\u20135131 (2005).","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"5264_CR51","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-018-04366-7","volume":"9","author":"LV Sinclair","year":"2018","unstructured":"Sinclair, L. V., Neyens, D., Ramsay, G., Taylor, P. M. & Cantrell, D. A. Single cell analysis of kynurenine and system L amino acid transport in T cells. Nat. Commun. 9, 1981 (2018).","journal-title":"Nat. Commun."},{"key":"5264_CR52","doi-asserted-by":"publisher","first-page":"W160","DOI":"10.1093\/nar\/gkw257","volume":"44","author":"F Ramirez","year":"2016","unstructured":"Ramirez, F. et al. deepTools2: a next generation web server for deep-sequencing data analysis. Nucleic Acids Res. 44, W160\u2013W165 (2016).","journal-title":"Nucleic Acids Res."},{"key":"5264_CR53","doi-asserted-by":"publisher","first-page":"15","DOI":"10.1093\/bioinformatics\/bts635","volume":"29","author":"A Dobin","year":"2013","unstructured":"Dobin, A. et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 29, 15\u201321 (2013).","journal-title":"Bioinformatics"},{"key":"5264_CR54","doi-asserted-by":"publisher","first-page":"923","DOI":"10.1093\/bioinformatics\/btt656","volume":"30","author":"Y Liao","year":"2014","unstructured":"Liao, Y., Smyth, G. K. & Shi, W. featureCounts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics 30, 923\u2013930 (2014).","journal-title":"Bioinformatics"},{"key":"5264_CR55","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-014-0550-8","volume":"15","author":"MI Love","year":"2014","unstructured":"Love, M. I., Huber, W. & Anders, S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 15, 550 (2014).","journal-title":"Genome Biol."},{"key":"5264_CR56","doi-asserted-by":"publisher","first-page":"44","DOI":"10.1038\/nprot.2008.211","volume":"4","author":"W Huang da","year":"2009","unstructured":"Huang da, W., Sherman, B. T. & Lempicki, R. A. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat. Protoc. 4, 44\u201357 (2009).","journal-title":"Nat. Protoc."},{"key":"5264_CR57","doi-asserted-by":"publisher","first-page":"21.29.21","DOI":"10.1002\/0471142727.mb2129s109","volume":"109","author":"JD Buenrostro","year":"2015","unstructured":"Buenrostro, J. D., Wu, B., Chang, H. Y. & Greenleaf, W. J. ATAC\u2013seq: a method for assaying chromatin accessibility genome-wide. Curr. Protoc. Mol. Biol. 109, 21.29.21\u201321.29.29 (2015).","journal-title":"Curr. Protoc. Mol. Biol."},{"key":"5264_CR58","doi-asserted-by":"publisher","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","volume":"30","author":"AM Bolger","year":"2014","unstructured":"Bolger, A. M., Lohse, M. & Usadel, B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30, 2114\u20132120 (2014).","journal-title":"Bioinformatics"},{"key":"5264_CR59","doi-asserted-by":"publisher","first-page":"357","DOI":"10.1038\/nmeth.1923","volume":"9","author":"B Langmead","year":"2012","unstructured":"Langmead, B. & Salzberg, S. L. Fast gapped-read alignment with Bowtie 2. Nat. Methods 9, 357\u2013359 (2012).","journal-title":"Nat. Methods"},{"key":"5264_CR60","doi-asserted-by":"publisher","first-page":"2078","DOI":"10.1093\/bioinformatics\/btp352","volume":"25","author":"H Li","year":"2009","unstructured":"Li, H. et al. The Sequence Alignment\/Map format and SAMtools. Bioinformatics 25, 2078\u20132079 (2009).","journal-title":"Bioinformatics"},{"key":"5264_CR61","doi-asserted-by":"publisher","first-page":"R137","DOI":"10.1186\/gb-2008-9-9-r137","volume":"9","author":"Y Zhang","year":"2008","unstructured":"Zhang, Y. et al. Model-based analysis of ChIP-Seq (MACS). Genome Biol. 9, R137 (2008).","journal-title":"Genome Biol."},{"key":"5264_CR62","doi-asserted-by":"publisher","first-page":"e95","DOI":"10.1093\/nar\/gku351","volume":"42","author":"AT Lun","year":"2014","unstructured":"Lun, A. T. & Smyth, G. K. De novo detection of differentially bound regions for ChIP-seq data using peaks and windows: controlling error rates correctly. Nucleic Acids Res. 42, e95 (2014).","journal-title":"Nucleic Acids Res."},{"key":"5264_CR63","doi-asserted-by":"publisher","first-page":"e45","DOI":"10.1093\/nar\/gkv1191","volume":"44","author":"AT Lun","year":"2016","unstructured":"Lun, A. T. & Smyth, G. K. csaw: a Bioconductor package for differential binding analysis of ChIP-seq data using sliding windows. Nucleic Acids Res. 44, e45 (2016).","journal-title":"Nucleic Acids Res."},{"key":"5264_CR64","doi-asserted-by":"publisher","first-page":"841","DOI":"10.1093\/bioinformatics\/btq033","volume":"26","author":"AR Quinlan","year":"2010","unstructured":"Quinlan, A. R. & Hall, I. M. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26, 841\u2013842 (2010).","journal-title":"Bioinformatics"},{"key":"5264_CR65","doi-asserted-by":"publisher","first-page":"576","DOI":"10.1016\/j.molcel.2010.05.004","volume":"38","author":"S Heinz","year":"2010","unstructured":"Heinz, S. et al. Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. Mol. Cell 38, 576\u2013589 (2010).","journal-title":"Mol. Cell"},{"key":"5264_CR66","doi-asserted-by":"publisher","first-page":"76","DOI":"10.1021\/acs.jproteome.7b00369","volume":"17","author":"YR Musa","year":"2018","unstructured":"Musa, Y. R., Boller, S., Puchalska, M., Grosschedl, R. & Mittler, G. Comprehensive proteomic investigation of Ebf1 heterozygosity in pro-B lymphocytes utlizing data independent acquisition. J. Proteome Res. 17, 76\u201385 (2018).","journal-title":"J. Proteome Res."}],"container-title":["Nature"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.nature.com\/articles\/s41586-022-05264-1.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41586-022-05264-1","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41586-022-05264-1.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,10,4]],"date-time":"2024-10-04T17:31:32Z","timestamp":1728063092000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/s41586-022-05264-1"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,9,28]]},"references-count":66,"journal-issue":{"issue":"7932","published-print":{"date-parts":[[2022,10,20]]}},"alternative-id":["5264"],"URL":"https:\/\/doi.org\/10.1038\/s41586-022-05264-1","relation":{"has-review":[{"id-type":"doi","id":"10.3410\/f.742343679.793596512","asserted-by":"object"}]},"ISSN":["0028-0836","1476-4687"],"issn-type":[{"value":"0028-0836","type":"print"},{"value":"1476-4687","type":"electronic"}],"subject":[],"published":{"date-parts":[[2022,9,28]]},"assertion":[{"value":"30 July 2020","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"22 August 2022","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"28 September 2022","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"E.L.P. is member of the scientific advisory boards of ImmunoMet Therapeutics. E.L.P. and E.J.P. are founders of and scientific advisors to Rheos Medicines.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}]}}