{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,31]],"date-time":"2026-10-31T12:48:55Z","timestamp":1793450935316,"version":"4.5.0"},"reference-count":93,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2025,3,25]],"date-time":"2025-03-25T00:00:00Z","timestamp":1742860800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"},{"start":{"date-parts":[[2025,3,25]],"date-time":"2025-03-25T00:00:00Z","timestamp":1742860800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Nat Commun"],"DOI":"10.1038\/s41467-025-58151-4","type":"journal-article","created":{"date-parts":[[2025,3,25]],"date-time":"2025-03-25T11:02:51Z","timestamp":1742900571000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":7,"title":["Transcriptional characterization of cocaine withdrawal versus extinction within nucleus accumbens in male rats"],"prefix":"10.1038","volume":"16","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-6062-2205","authenticated-orcid":false,"given":"Freddyson J.","family":"Mart\u00ednez-Rivera","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0954-2298","authenticated-orcid":false,"given":"Leanne M.","family":"Holt","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8860-5973","authenticated-orcid":false,"given":"Ang\u00e9lica","family":"Minier-Toribio","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Molly","family":"Estill","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4506-5652","authenticated-orcid":false,"given":"Szu-Ying","family":"Yeh","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Solange","family":"Tofani","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Rita","family":"Futamura","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Caleb J.","family":"Browne","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Philipp","family":"Mews","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5190-2851","authenticated-orcid":false,"given":"Li","family":"Shen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7905-2000","authenticated-orcid":false,"given":"Eric J.","family":"Nestler","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2025,3,25]]},"reference":[{"key":"58151_CR1","doi-asserted-by":"publisher","first-page":"217","DOI":"10.1038\/npp.2009.110","volume":"35","author":"GF Koob","year":"2010","unstructured":"Koob, G. F. & Volkow, N. D. Neurocircuitry of Addiction. Neuropsychopharmacol 35, 217\u2013238 (2010).","journal-title":"Neuropsychopharmacol"},{"key":"58151_CR2","doi-asserted-by":"publisher","first-page":"285","DOI":"10.1016\/j.neubiorev.2010.01.011","volume":"35","author":"KM Myers","year":"2010","unstructured":"Myers, K. M. & Carlezon, W. A. Jr. Extinction of drug- and withdrawal-paired cues in animal models: Relevance to the treatment of addiction. Neurosci. Biobehav. Rev. 35, 285\u2013302 (2010).","journal-title":"Neurosci. Biobehav. Rev."},{"key":"58151_CR3","doi-asserted-by":"publisher","first-page":"251","DOI":"10.1016\/j.ddmod.2009.03.001","volume":"5","author":"RA Fuchs","year":"2008","unstructured":"Fuchs, R. A., Lasseter, H. C., Ramirez, D. R. & Xie, X. Relapse to drug seeking following prolonged abstinence: the role of environmental stimuli. Drug Discov. Today Dis. Models 5, 251\u2013258 (2008).","journal-title":"Drug Discov. Today Dis. Models"},{"key":"58151_CR4","doi-asserted-by":"publisher","first-page":"21","DOI":"10.1111\/j.1601-183X.2012.00873.x","volume":"12","author":"JE Eipper\u2010Mains","year":"2013","unstructured":"Eipper\u2010Mains, J. E. et al. Effects of cocaine and withdrawal on the mouse nucleus accumbens transcriptome. Genes Brain Behav. 12, 21\u201333 (2013).","journal-title":"Genes Brain Behav."},{"key":"58151_CR5","doi-asserted-by":"publisher","first-page":"609","DOI":"10.1038\/nrn3381","volume":"14","author":"SJ Russo","year":"2013","unstructured":"Russo, S. J. & Nestler, E. J. The brain reward circuitry in mood disorders. Nat. Rev. Neurosci. 14, 609\u2013625 (2013).","journal-title":"Nat. Rev. Neurosci."},{"key":"58151_CR6","doi-asserted-by":"publisher","first-page":"439","DOI":"10.1007\/s00213-018-4929-1","volume":"236","author":"NJ Marchant","year":"2019","unstructured":"Marchant, N. J., Campbell, E. J., Pelloux, Y., Bossert, J. M. & Shaham, Y. Context-induced relapse after extinction versus punishment: similarities and differences. Psychopharmacology 236, 439\u2013448 (2019).","journal-title":"Psychopharmacology"},{"key":"58151_CR7","doi-asserted-by":"publisher","first-page":"816","DOI":"10.1124\/pr.116.012484","volume":"68","author":"MD Scofield","year":"2016","unstructured":"Scofield, M. D. et al. The Nucleus Accumbens: Mechanisms of Addiction across Drug Classes Reflect the Importance of Glutamate Homeostasis. Pharm. Rev. 68, 816\u2013871 (2016).","journal-title":"Pharm. Rev."},{"key":"58151_CR8","doi-asserted-by":"publisher","first-page":"184","DOI":"10.2174\/1874473710902020184","volume":"2","author":"CM Reichel","year":"2009","unstructured":"Reichel, C. M. & Bevins, R. A. Forced abstinence model of relapse to study pharmacological treatments of substance use disorder. Curr. Drug Abus. Rev. 2, 184\u2013194 (2009).","journal-title":"Curr. Drug Abus. Rev."},{"key":"58151_CR9","doi-asserted-by":"publisher","DOI":"10.1126\/sciadv.add8946","volume":"9","author":"P Mews","year":"2023","unstructured":"Mews, P. et al. Convergent abnormalities in striatal gene networks in human cocaine use disorder and mouse cocaine administration models. Sci. Adv. 9, eadd8946 (2023).","journal-title":"Sci. Adv."},{"key":"58151_CR10","doi-asserted-by":"publisher","first-page":"8463","DOI":"10.1523\/JNEUROSCI.2666-19.2020","volume":"40","author":"C Garcia-Keller","year":"2020","unstructured":"Garcia-Keller, C. et al. Relapse-Associated Transient Synaptic Potentiation Requires Integrin-Mediated Activation of Focal Adhesion Kinase and Cofilin in D1-Expressing Neurons. J. Neurosci. 40, 8463\u20138477 (2020).","journal-title":"J. Neurosci."},{"key":"58151_CR11","doi-asserted-by":"publisher","first-page":"377","DOI":"10.1016\/j.biopsych.2019.03.982","volume":"86","author":"C Garcia-Keller","year":"2019","unstructured":"Garcia-Keller, C. et al. Extracellular Matrix Signaling Through \u03b23 Integrin Mediates Cocaine Cue-Induced Transient Synaptic Plasticity and Relapse. Biol. Psychiatry 86, 377\u2013387 (2019).","journal-title":"Biol. Psychiatry"},{"key":"58151_CR12","doi-asserted-by":"publisher","first-page":"2041","DOI":"10.1523\/JNEUROSCI.2822-18.2018","volume":"39","author":"TR Pardo-Garcia","year":"2019","unstructured":"Pardo-Garcia, T. R. et al. Ventral Pallidum Is the Primary Target for Accumbens D1 Projections Driving Cocaine Seeking. J. Neurosci. 39, 2041\u20132051 (2019).","journal-title":"J. Neurosci."},{"key":"58151_CR13","doi-asserted-by":"publisher","first-page":"441","DOI":"10.1016\/j.biopsych.2015.02.016","volume":"78","author":"MD Scofield","year":"2015","unstructured":"Scofield, M. D. et al. Gq-DREADD Selectively Initiates Glial Glutamate Release and Inhibits Cue-induced Cocaine Seeking. Biol. Psychiatry 78, 441\u2013451 (2015).","journal-title":"Biol. Psychiatry"},{"key":"58151_CR14","doi-asserted-by":"publisher","first-page":"7100","DOI":"10.1523\/JNEUROSCI.0791-18.2018","volume":"38","author":"D Roberts-Wolfe","year":"2018","unstructured":"Roberts-Wolfe, D., Bobadilla, A.-C., Heinsbroek, J. A., Neuhofer, D. & Kalivas, P. W. Drug Refraining and Seeking Potentiate Synapses on Distinct Populations of Accumbens Medium Spiny Neurons. J. Neurosci. 38, 7100\u20137107 (2018).","journal-title":"J. Neurosci."},{"key":"58151_CR15","doi-asserted-by":"publisher","first-page":"46","DOI":"10.3389\/fpsyt.2013.00046","volume":"4","author":"JT Gass","year":"2013","unstructured":"Gass, J. T. & Chandler, L. J. The Plasticity of Extinction: Contribution of the Prefrontal Cortex in Treating Addiction through Inhibitory Learning. Front Psychiatry 4, 46 (2013).","journal-title":"Front Psychiatry"},{"key":"58151_CR16","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-018-27903-2","volume":"8","author":"KM Cahill","year":"2018","unstructured":"Cahill, K. M., Huo, Z., Tseng, G. C., Logan, R. W. & Seney, M. L. Improved identification of concordant and discordant gene expression signatures using an updated rank-rank hypergeometric overlap approach. Sci. Rep. 8, 9588 (2018).","journal-title":"Sci. Rep."},{"key":"58151_CR17","doi-asserted-by":"publisher","first-page":"104584","DOI":"10.1016\/j.neubiorev.2022.104584","volume":"135","author":"DR Peart","year":"2022","unstructured":"Peart, D. R., Andrade, A. K., Logan, C. N., Knackstedt, L. A. & Murray, J. E. Regulation of cocaine-related behaviours by estrogen and progesterone. Neurosci. Biobehav. Rev. 135, 104584 (2022).","journal-title":"Neurosci. Biobehav. Rev."},{"key":"58151_CR18","doi-asserted-by":"publisher","first-page":"e0139103","DOI":"10.1371\/journal.pone.0139103","volume":"10","author":"AN Brown","year":"2015","unstructured":"Brown, A. N., Vied, C., Dennis, J. H. & Bhide, P. G. Nucleosome Repositioning: A Novel Mechanism for Nicotine- and Cocaine-Induced Epigenetic Changes. PLoS One 10, e0139103 (2015).","journal-title":"PLoS One"},{"key":"58151_CR19","doi-asserted-by":"publisher","first-page":"1161","DOI":"10.1177\/02698811221123047","volume":"36","author":"LA Atehortua Martinez","year":"2022","unstructured":"Atehortua Martinez, L. A. et al. Individual differences in cocaine-induced conditioned place preference in male rats: Behavioral and transcriptomic evidence. J. Psychopharmacol. 36, 1161\u20131175 (2022).","journal-title":"J. Psychopharmacol."},{"key":"58151_CR20","doi-asserted-by":"publisher","first-page":"7558","DOI":"10.1073\/pnas.121635798","volume":"98","author":"CK Hwang","year":"2001","unstructured":"Hwang, C. K. et al. Dopamine receptor regulating factor, DRRF: A zinc finger transcription factor. Proc. Natl Acad. Sci. USA 98, 7558\u20137563 (2001).","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"58151_CR21","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0099986","volume":"9","author":"H Chen","year":"2014","unstructured":"Chen, H., Qiang, H., Fan, K., Wang, S. & Zheng, Z. The snoRNA MBII-52 regulates cocaine-induced conditioned place preference and locomotion in mice. PLoS One 9, e99986 (2014).","journal-title":"PLoS One"},{"key":"58151_CR22","doi-asserted-by":"publisher","first-page":"220","DOI":"10.1016\/j.pscychresns.2014.01.005","volume":"221","author":"PA Narayana","year":"2014","unstructured":"Narayana, P. A. et al. Chronic cocaine administration causes extensive white matter damage in brain: diffusion tensor imaging and immunohistochemistry studies. Psychiatry Res 221, 220\u2013230 (2014).","journal-title":"Psychiatry Res"},{"key":"58151_CR23","doi-asserted-by":"publisher","first-page":"12","DOI":"10.1111\/jnc.14454","volume":"147","author":"FA Vigil","year":"2018","unstructured":"Vigil, F. A. & Giese, K. P. Calcium\/calmodulin-dependent kinase II and memory destabilization: a new role in memory maintenance. J. Neurochem 147, 12\u201323 (2018).","journal-title":"J. Neurochem"},{"key":"58151_CR24","doi-asserted-by":"publisher","first-page":"22","DOI":"10.1016\/j.drugalcdep.2018.12.022","volume":"197","author":"TA Gentile","year":"2019","unstructured":"Gentile, T. A. et al. Synthetic cathinone MDPV enhances reward function through purinergic P2X7 receptor-dependent pathway and increases P2X7 gene expression in nucleus accumbens. Drug Alcohol Depend. 197, 22\u201327 (2019).","journal-title":"Drug Alcohol Depend."},{"key":"58151_CR25","doi-asserted-by":"publisher","first-page":"e1800255","DOI":"10.1002\/bies.201800255","volume":"41","author":"J Rice","year":"2019","unstructured":"Rice, J. & Gu, C. Function and Mechanism of Myelin Regulation in Alcohol Abuse and Alcoholism. Bioessays 41, e1800255 (2019).","journal-title":"Bioessays"},{"key":"58151_CR26","doi-asserted-by":"publisher","first-page":"2943","DOI":"10.1016\/j.neuron.2021.08.008","volume":"109","author":"S-J Xu","year":"2021","unstructured":"Xu, S.-J. et al. Chromatin-mediated alternative splicing regulates cocaine-reward behavior. Neuron 109, 2943\u20132966.e8 (2021).","journal-title":"Neuron"},{"key":"58151_CR27","doi-asserted-by":"publisher","first-page":"926570","DOI":"10.3389\/fnsyn.2022.926570","volume":"14","author":"B Barylko","year":"2022","unstructured":"Barylko, B. et al. Palmitoylation-regulated interactions of the pseudokinase calmodulin kinase-like vesicle-associated with membranes and Arc\/Arg3.1. Front. Synaptic Neurosci. 14, 926570 (2022).","journal-title":"Synaptic Neurosci."},{"key":"58151_CR28","first-page":"448","volume":"8","author":"SR Hauser","year":"2014","unstructured":"Hauser, S. R. et al. The 5-HT7 receptor as a potential target for treating drug and alcohol abuse. Front Neurosci. 8, 448 (2014).","journal-title":"Front Neurosci."},{"key":"58151_CR29","doi-asserted-by":"publisher","first-page":"959","DOI":"10.1038\/nn.4036","volume":"18","author":"AM Gancarz","year":"2015","unstructured":"Gancarz, A. M. et al. Activin receptor signaling regulates cocaine-primed behavioral and morphological plasticity. Nat. Neurosci. 18, 959\u2013961 (2015).","journal-title":"Nat. Neurosci."},{"key":"58151_CR30","doi-asserted-by":"publisher","first-page":"1746","DOI":"10.1038\/s41386-021-01027-0","volume":"46","author":"A Kozlova","year":"2021","unstructured":"Kozlova, A. et al. Sex-specific nicotine sensitization and imprinting of self-administration in rats inform GWAS findings on human addiction phenotypes. Neuropsychopharmacology 46, 1746\u20131756 (2021).","journal-title":"Neuropsychopharmacology"},{"key":"58151_CR31","doi-asserted-by":"publisher","first-page":"1371","DOI":"10.3390\/genes13081371","volume":"13","author":"HE Rymut","year":"2022","unstructured":"Rymut, H. E. et al. Prefrontal Cortex Response to Prenatal Insult and Postnatal Opioid Exposure. Genes (Basel) 13, 1371 (2022).","journal-title":"Genes (Basel)"},{"key":"58151_CR32","doi-asserted-by":"publisher","first-page":"1883","DOI":"10.1038\/s41386-022-01401-6","volume":"47","author":"R Icick","year":"2022","unstructured":"Icick, R. et al. Genetic overlap between mood instability and alcohol-related phenotypes suggests shared biological underpinnings. Neuropsychopharmacology 47, 1883\u20131891 (2022).","journal-title":"Neuropsychopharmacology"},{"key":"58151_CR33","doi-asserted-by":"publisher","first-page":"8019","DOI":"10.1523\/JNEUROSCI.16-24-08019.1996","volume":"16","author":"MT Berhow","year":"1996","unstructured":"Berhow, M. T., Hiroi, N., Kobierski, L. A., Hyman, S. E. & Nestler, E. J. Influence of cocaine on the JAK-STAT pathway in the mesolimbic dopamine system. J. Neurosci. 16, 8019\u20138026 (1996).","journal-title":"J. Neurosci."},{"key":"58151_CR34","doi-asserted-by":"publisher","first-page":"605","DOI":"10.1016\/S0031-9384(02)00764-3","volume":"76","author":"S Mart\u0131\u0301nez-Sanchis","year":"2002","unstructured":"Mart\u0131\u0301nez-Sanchis, S., Aragon, C. M. G. & Salvador, A. Cocaine-induced locomotor activity is enhanced by exogenous testosterone. Physiol. Behav. 76, 605\u2013609 (2002).","journal-title":"Physiol. Behav."},{"key":"58151_CR35","doi-asserted-by":"publisher","first-page":"96","DOI":"10.1016\/j.physbeh.2010.09.025","volume":"102","author":"R Men\u00e9ndez-Delmestre","year":"2011","unstructured":"Men\u00e9ndez-Delmestre, R. & Segarra, A. C. Testosterone is essential for cocaine sensitization in male rats. Physiol. Behav. 102, 96\u2013104 (2011).","journal-title":"Physiol. Behav."},{"key":"58151_CR36","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-020-68144-6","volume":"10","author":"S Dash","year":"2020","unstructured":"Dash, S. et al. Cocaine-regulated microRNA miR-124 controls poly (ADP-ribose) polymerase-1 expression in neuronal cells. Sci. Rep. 10, 11197 (2020).","journal-title":"Sci. Rep."},{"key":"58151_CR37","doi-asserted-by":"publisher","first-page":"3","DOI":"10.1007\/s00213-002-1224-x","volume":"168","author":"Y Shaham","year":"2003","unstructured":"Shaham, Y., Shalev, U., Lu, L., De Wit, H. & Stewart, J. The reinstatement model of drug relapse: history, methodology and major findings. Psychopharmacology 168, 3\u201320 (2003).","journal-title":"Psychopharmacology"},{"key":"58151_CR38","doi-asserted-by":"publisher","first-page":"339","DOI":"10.1124\/mi.6.6.7","volume":"6","author":"PW Kalivas","year":"2006","unstructured":"Kalivas, P. W., Peters, J. & Knackstedt, L. Animal models and brain circuits in drug addiction. Mol. Inter. 6, 339\u2013344 (2006).","journal-title":"Mol. Inter."},{"key":"58151_CR39","doi-asserted-by":"publisher","first-page":"417","DOI":"10.1038\/nrn3492","volume":"14","author":"S Maren","year":"2013","unstructured":"Maren, S., Phan, K. L. & Liberzon, I. The contextual brain: implications for fear conditioning, extinction and psychopathology. Nat. Rev. Neurosci. 14, 417\u2013428 (2013).","journal-title":"Nat. Rev. Neurosci."},{"key":"58151_CR40","doi-asserted-by":"publisher","first-page":"107573","DOI":"10.1016\/j.neuropsychologia.2020.107573","volume":"147","author":"AC Hennings","year":"2020","unstructured":"Hennings, A. C., McClay, M., Lewis-Peacock, J. A. & Dunsmoor, J. E. Contextual reinstatement promotes extinction generalization in healthy adults but not PTSD. Neuropsychologia 147, 107573 (2020).","journal-title":"Neuropsychologia"},{"key":"58151_CR41","doi-asserted-by":"publisher","first-page":"1029","DOI":"10.1016\/j.biopsych.2021.08.008","volume":"91","author":"E Visser","year":"2022","unstructured":"Visser, E. et al. Extinction of Cocaine Memory Depends on a Feed-Forward Inhibition Circuit Within the Medial Prefrontal Cortex. Biol. Psychiatry 91, 1029\u20131038 (2022).","journal-title":"Biol. Psychiatry"},{"key":"58151_CR42","doi-asserted-by":"publisher","first-page":"411","DOI":"10.1016\/j.tins.2011.06.001","volume":"34","author":"CL Pickens","year":"2011","unstructured":"Pickens, C. L. et al. Neurobiology of the incubation of drug craving. Trends Neurosci. 34, 411\u2013420 (2011).","journal-title":"Trends Neurosci."},{"key":"58151_CR43","doi-asserted-by":"publisher","first-page":"352","DOI":"10.1016\/j.biopsych.2005.12.015","volume":"60","author":"ME Bouton","year":"2006","unstructured":"Bouton, M. E., Westbrook, R. F., Corcoran, K. A. & Maren, S. Contextual and Temporal Modulation of Extinction: Behavioral and Biological Mechanisms. Biol. Psychiatry 60, 352\u2013360 (2006).","journal-title":"Biol. Psychiatry"},{"key":"58151_CR44","doi-asserted-by":"publisher","first-page":"e630","DOI":"10.1038\/tp.2015.130","volume":"5","author":"TM Furlong","year":"2015","unstructured":"Furlong, T. M., Pan, M. J. & Corbit, L. H. The effects of compound stimulus extinction and inhibition of noradrenaline reuptake on the renewal of alcohol seeking. Transl. Psychiatry 5, e630\u2013e630 (2015).","journal-title":"Transl. Psychiatry"},{"key":"58151_CR45","doi-asserted-by":"publisher","first-page":"321","DOI":"10.1016\/j.neulet.2008.12.006","volume":"450","author":"AT Wiggins","year":"2009","unstructured":"Wiggins, A. T., Pacchioni, A. M. & Kalivas, P. W. Integrin expression is altered after acute and chronic cocaine. Neurosci. Lett. 450, 321\u2013323 (2009).","journal-title":"Neurosci. Lett."},{"key":"58151_CR46","doi-asserted-by":"publisher","first-page":"9","DOI":"10.1016\/j.bbr.2010.07.039","volume":"216","author":"YH Huang","year":"2011","unstructured":"Huang, Y. H., Schl\u00fcter, O. M. & Dong, Y. Cocaine-induced homeostatic regulation and dysregulation of nucleus accumbens neurons. Behav. Brain Res 216, 9\u201318 (2011).","journal-title":"Behav. Brain Res"},{"key":"58151_CR47","doi-asserted-by":"publisher","first-page":"147","DOI":"10.1016\/j.drugalcdep.2015.04.009","volume":"152","author":"BS Cummings","year":"2015","unstructured":"Cummings, B. S. et al. Differential effects of cocaine exposure on the abundance of phospholipid species in rat brain and blood. Drug Alcohol Depend. 152, 147\u2013156 (2015).","journal-title":"Drug Alcohol Depend."},{"key":"58151_CR48","doi-asserted-by":"publisher","first-page":"29","DOI":"10.1016\/j.mcn.2017.08.004","volume":"85","author":"Y Lin","year":"2017","unstructured":"Lin, Y. et al. Cocaine modifies brain lipidome in mice. Mol. Cell. Neurosci. 85, 29\u201344 (2017).","journal-title":"Mol. Cell. Neurosci."},{"key":"58151_CR49","doi-asserted-by":"publisher","first-page":"4316","DOI":"10.1523\/JNEUROSCI.3291-17.2018","volume":"38","author":"J Wang","year":"2018","unstructured":"Wang, J. et al. Cascades of Homeostatic Dysregulation Promote Incubation of Cocaine Craving. J. Neurosci. 38, 4316\u20134328 (2018).","journal-title":"J. Neurosci."},{"key":"58151_CR50","doi-asserted-by":"publisher","first-page":"1768","DOI":"10.1038\/s41386-021-01031-4","volume":"46","author":"RR Campbell","year":"2021","unstructured":"Campbell, R. R. et al. Cocaine induces paradigm-specific changes to the transcriptome within the ventral tegmental area. Neuropsychopharmacol 46, 1768\u20131779 (2021).","journal-title":"Neuropsychopharmacol"},{"key":"58151_CR51","doi-asserted-by":"publisher","first-page":"687","DOI":"10.1038\/s41380-021-01163-5","volume":"27","author":"CD Teague","year":"2022","unstructured":"Teague, C. D. & Nestler, E. J. Key transcription factors mediating cocaine-induced plasticity in the nucleus accumbens. Mol. Psychiatry 27, 687\u2013709 (2022).","journal-title":"Mol. Psychiatry"},{"key":"58151_CR52","doi-asserted-by":"publisher","first-page":"11042","DOI":"10.1073\/pnas.191352698","volume":"98","author":"EJ Nestler","year":"2001","unstructured":"Nestler, E. J., Barrot, M. & Self, D. W. \u0394FosB: A sustained molecular switch for addiction. Proc. Natl Acad. Sci. USA 98, 11042\u201311046 (2001).","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"58151_CR53","doi-asserted-by":"publisher","first-page":"12655","DOI":"10.1523\/JNEUROSCI.3926-07.2007","volume":"27","author":"JM Bossert","year":"2007","unstructured":"Bossert, J. M., Poles, G. C., Wihbey, K. A., Koya, E. & Shaham, Y. Differential effects of blockade of dopamine D1-family receptors in nucleus accumbens core or shell on reinstatement of heroin seeking induced by contextual and discrete cues. J. Neurosci. 27, 12655\u201312663 (2007).","journal-title":"J. Neurosci."},{"key":"58151_CR54","doi-asserted-by":"publisher","DOI":"10.1016\/j.nlm.2019.107031","volume":"163","author":"FJ Mart\u00ednez-Rivera","year":"2019","unstructured":"Mart\u00ednez-Rivera, F. J. et al. Neuroplasticity transcript profile of the ventral striatum in the extinction of opioid-induced conditioned place preference. Neurobiol. Learn Mem. 163, 107031 (2019).","journal-title":"Neurobiol. Learn Mem."},{"key":"58151_CR55","doi-asserted-by":"publisher","first-page":"432","DOI":"10.1002\/syn.21917","volume":"70","author":"J Bilodeau","year":"2016","unstructured":"Bilodeau, J. & Schwendt, M. Post-cocaine changes in regulator of G-protein signaling (RGS) proteins in the dorsal striatum: Relevance for cocaine-seeking and protein kinase C-mediated phosphorylation. Synapse 70, 432\u2013440 (2016).","journal-title":"Synapse"},{"key":"58151_CR56","doi-asserted-by":"publisher","first-page":"119","DOI":"10.3389\/fnmol.2016.00119","volume":"9","author":"Y Zhang","year":"2016","unstructured":"Zhang, Y. et al. Transcriptomics of Environmental Enrichment Reveals a Role for Retinoic Acid Signaling in Addiction. Front Mol. Neurosci. 9, 119 (2016).","journal-title":"Front Mol. Neurosci."},{"key":"58151_CR57","doi-asserted-by":"publisher","first-page":"18","DOI":"10.1016\/j.physbeh.2017.10.018","volume":"203","author":"JR Bagley","year":"2019","unstructured":"Bagley, J. R. et al. Estradiol increases choice of cocaine over food in male rats. Physiol. Behav. 203, 18\u201324 (2019).","journal-title":"Physiol. Behav."},{"key":"58151_CR58","doi-asserted-by":"publisher","first-page":"391","DOI":"10.1016\/j.cell.2007.09.018","volume":"131","author":"V Krishnan","year":"2007","unstructured":"Krishnan, V. et al. Molecular adaptations underlying susceptibility and resistance to social defeat in brain reward regions. Cell 131, 391\u2013404 (2007).","journal-title":"Cell"},{"key":"58151_CR59","doi-asserted-by":"publisher","first-page":"75","DOI":"10.1016\/S0166-4328(02)00286-3","volume":"137","author":"G Di Chiara","year":"2002","unstructured":"Di Chiara, G. Nucleus accumbens shell and core dopamine: differential role in behavior and addiction. Behavioural Brain Res. 137, 75\u2013114 (2002).","journal-title":"Behavioural Brain Res."},{"key":"58151_CR60","doi-asserted-by":"publisher","first-page":"279","DOI":"10.1101\/lm.1041309","volume":"16","author":"J Peters","year":"2009","unstructured":"Peters, J., Kalivas, P. W. & Quirk, G. J. Extinction circuits for fear and addiction overlap in prefrontal cortex. Learn Mem. 16, 279\u2013288 (2009).","journal-title":"Learn Mem."},{"key":"58151_CR61","doi-asserted-by":"publisher","first-page":"1288","DOI":"10.1126\/science.1186909","volume":"328","author":"J Peters","year":"2010","unstructured":"Peters, J., Dieppa-Perea, L. M., Melendez, L. M. & Quirk, G. J. Induction of fear extinction with hippocampal-infralimbic BDNF. Science 328, 1288\u20131290 (2010).","journal-title":"Science"},{"key":"58151_CR62","doi-asserted-by":"publisher","first-page":"68","DOI":"10.1016\/j.brainres.2014.10.058","volume":"1628","author":"JM Barker","year":"2015","unstructured":"Barker, J. M., Taylor, J. R., De Vries, T. J. & Peters, J. Brain-derived neurotrophic factor and addiction: Pathological versus therapeutic effects on drug seeking. Brain Res 1628, 68\u201381 (2015).","journal-title":"Brain Res"},{"key":"58151_CR63","doi-asserted-by":"publisher","first-page":"238","DOI":"10.1124\/pr.111.005108","volume":"64","author":"AE Autry","year":"2012","unstructured":"Autry, A. E. & Monteggia, L. M. Brain-derived neurotrophic factor and neuropsychiatric disorders. Pharm. Rev. 64, 238\u2013258 (2012).","journal-title":"Pharm. Rev."},{"key":"58151_CR64","doi-asserted-by":"publisher","DOI":"10.1016\/j.addicn.2022.100006","volume":"2","author":"JF McGinty","year":"2022","unstructured":"McGinty, J. F. BDNF as a therapeutic candidate for cocaine use disorders. Addiction Neurosci. 2, 100006 (2022).","journal-title":"Addiction Neurosci."},{"key":"58151_CR65","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-017-06370-1","volume":"7","author":"JB Kaushal","year":"2017","unstructured":"Kaushal, J. B. et al. The regulation of Hh\/Gli1 signaling cascade involves Gsk3\u03b2- mediated mechanism in estrogen-derived endometrial hyperplasia. Sci. Rep. 7, 6557 (2017).","journal-title":"Sci. Rep."},{"key":"58151_CR66","doi-asserted-by":"publisher","DOI":"10.1186\/1476-4598-13-137","volume":"13","author":"Y Sun","year":"2014","unstructured":"Sun, Y. et al. Estrogen promotes stemness and invasiveness of ER-positive breast cancer cells through Gli1 activation. Mol. Cancer 13, 137 (2014).","journal-title":"Mol. Cancer"},{"key":"58151_CR67","doi-asserted-by":"publisher","first-page":"374","DOI":"10.1016\/j.ccr.2011.12.028","volume":"21","author":"Y Wang","year":"2012","unstructured":"Wang, Y. et al. The crosstalk of mTOR\/S6K1 and Hedgehog pathways. Cancer Cell 21, 374\u2013387 (2012).","journal-title":"Cancer Cell"},{"key":"58151_CR68","doi-asserted-by":"publisher","first-page":"295","DOI":"10.1038\/s41401-021-00760-y","volume":"43","author":"H-C Li","year":"2022","unstructured":"Li, H.-C. et al. mTOR regulates cocaine-induced behavioural sensitization through the SynDIG1-GluA2 interaction in the nucleus accumbens. Acta Pharm. Sin. 43, 295\u2013306 (2022).","journal-title":"Acta Pharm. Sin."},{"key":"58151_CR69","doi-asserted-by":"publisher","first-page":"11850","DOI":"10.1074\/jbc.RA117.001211","volume":"293","author":"Y Pan","year":"2018","unstructured":"Pan, Y. et al. The role of Twist1 in mutant huntingtin-induced transcriptional alterations and neurotoxicity. J. Biol. Chem. 293, 11850\u201311866 (2018).","journal-title":"J. Biol. Chem."},{"key":"58151_CR70","doi-asserted-by":"publisher","first-page":"3","DOI":"10.1038\/sj.npp.1301544","volume":"33","author":"CA McClung","year":"2008","unstructured":"McClung, C. A. & Nestler, E. J. Neuroplasticity Mediated by Altered Gene Expression. Neuropsychopharmacol 33, 3\u201317 (2008).","journal-title":"Neuropsychopharmacol"},{"key":"58151_CR71","doi-asserted-by":"publisher","first-page":"623","DOI":"10.1038\/nrn3111","volume":"12","author":"AJ Robison","year":"2011","unstructured":"Robison, A. J. & Nestler, E. J. Transcriptional and epigenetic mechanisms of addiction. Nat. Rev. Neurosci. 12, 623\u2013637 (2011).","journal-title":"Nat. Rev. Neurosci."},{"key":"58151_CR72","doi-asserted-by":"publisher","first-page":"2229","DOI":"10.1007\/s12031-021-01799-6","volume":"71","author":"A Bingor","year":"2021","unstructured":"Bingor, A., Azriel, M., Amiad, L. & Yaka, R. Potentiated Response of ERK\/MAPK Signaling is Associated with Prolonged Withdrawal from Cocaine Behavioral Sensitization. J. Mol. Neurosci. 71, 2229\u20132236 (2021).","journal-title":"J. Mol. Neurosci."},{"key":"58151_CR73","doi-asserted-by":"publisher","first-page":"74","DOI":"10.3389\/fnbeh.2020.00074","volume":"14","author":"SS Kokane","year":"2020","unstructured":"Kokane, S. S. & Perrotti, L. I. Sex Differences and the Role of Estradiol in Mesolimbic Reward Circuits and Vulnerability to Cocaine and Opiate Addiction. Front Behav. Neurosci. 14, 74 (2020).","journal-title":"Front Behav. Neurosci."},{"key":"58151_CR74","doi-asserted-by":"publisher","first-page":"581","DOI":"10.3389\/fncel.2019.00581","volume":"13","author":"R Jarvis","year":"2019","unstructured":"Jarvis, R. et al. Cocaine Self-administration and Extinction Inversely Alter Neuron to Glia Exosomal Dynamics in the Nucleus Accumbens. Front Cell Neurosci. 13, 581 (2019).","journal-title":"Front Cell Neurosci."},{"key":"58151_CR75","unstructured":"NIDA. Principles of Drug Addiction Treatment: A Research-Based Guide: Third Edition. (2018)."},{"key":"58151_CR76","doi-asserted-by":"publisher","first-page":"eaba4221","DOI":"10.1126\/sciadv.aba4221","volume":"6","author":"KE Savell","year":"2020","unstructured":"Savell, K. E. et al. A dopamine-induced gene expression signature regulates neuronal function and cocaine response. Sci. Adv. 6, eaba4221 (2020).","journal-title":"Sci. Adv."},{"key":"58151_CR77","doi-asserted-by":"publisher","first-page":"102786","DOI":"10.1016\/j.conb.2023.102786","volume":"83","author":"RR Campbell","year":"2023","unstructured":"Campbell, R. R. & Lobo, M. K. Neurobiological mechanisms underlying psychostimulant use. Curr. Opin. Neurobiol. 83, 102786 (2023).","journal-title":"Curr. Opin. Neurobiol."},{"key":"58151_CR78","doi-asserted-by":"publisher","first-page":"5634","DOI":"10.1523\/JNEUROSCI.0024-19.2019","volume":"39","author":"ES Calipari","year":"2019","unstructured":"Calipari, E. S. et al. Synaptic Microtubule-Associated Protein EB3 and SRC Phosphorylation Mediate Structural and Behavioral Adaptations During Withdrawal From Cocaine Self-Administration. J. Neurosci. 39, 5634\u20135646 (2019).","journal-title":"J. Neurosci."},{"key":"58151_CR79","unstructured":"Paxinos, G. & Watson, C. The Rat Brain in Stereotaxic Coordinates. (Elsevier, Amsterdam, 2007)."},{"key":"58151_CR80","doi-asserted-by":"publisher","first-page":"477","DOI":"10.1016\/0306-4522(94)00355-9","volume":"64","author":"WE Cullinan","year":"1995","unstructured":"Cullinan, W. E., Herman, J. P., Battaglia, D. F., Akil, H. & Watson, S. J. Pattern and time course of immediate early gene expression in rat brain following acute stress. Neuroscience 64, 477\u2013505 (1995).","journal-title":"Neuroscience"},{"key":"58151_CR81","doi-asserted-by":"publisher","unstructured":"Perrin-Terrin, A.-S. et al. The c-FOS Protein Immunohistological Detection: A Useful Tool As a Marker of Central Pathways Involved in Specific Physiological Responses In Vivo and Ex Vivo. J. Vis. Exp. 53613 https:\/\/doi.org\/10.3791\/53613 (2016).","DOI":"10.3791\/53613"},{"key":"58151_CR82","doi-asserted-by":"publisher","first-page":"695","DOI":"10.1016\/j.tins.2006.10.005","volume":"29","author":"L Lu","year":"2006","unstructured":"Lu, L., Koya, E., Zhai, H., Hope, B. T. & Shaham, Y. Role of ERK in cocaine addiction. Trends Neurosci. 29, 695\u2013703 (2006).","journal-title":"Trends Neurosci."},{"key":"58151_CR83","doi-asserted-by":"publisher","first-page":"37","DOI":"10.1016\/j.jbior.2016.05.001","volume":"62","author":"S Bahrami","year":"2016","unstructured":"Bahrami, S. & Drabl\u00f8s, F. Gene regulation in the immediate-early response process. Adv. Biol. Regul. 62, 37\u201349 (2016).","journal-title":"Adv. Biol. Regul."},{"key":"58151_CR84","doi-asserted-by":"publisher","first-page":"367","DOI":"10.1016\/j.biopsych.2022.12.021","volume":"94","author":"S-Y Yeh","year":"2023","unstructured":"Yeh, S.-Y. et al. Cell Type-Specific Whole-Genome Landscape of \u0394FOSB Binding in the Nucleus Accumbens After Chronic Cocaine Exposure. Biol. Psychiatry 94, 367\u2013377 (2023).","journal-title":"Biol. Psychiatry"},{"key":"58151_CR85","doi-asserted-by":"publisher","unstructured":"Holt, L. M. et al. Astrocytic CREB in nucleus accumbens promotes susceptibility to chronic stress. bioRxiv 2024.01.15.575728 https:\/\/doi.org\/10.1101\/2024.01.15.575728 (2024).","DOI":"10.1101\/2024.01.15.575728"},{"key":"58151_CR86","doi-asserted-by":"publisher","first-page":"867","DOI":"10.1016\/j.biopsych.2018.04.009","volume":"84","author":"DM Walker","year":"2018","unstructured":"Walker, D. M. et al. Cocaine Self-administration Alters Transcriptome-wide Responses in the Brain\u2019s Reward Circuitry. Biol. Psychiatry 84, 867\u2013880 (2018).","journal-title":"Biol. Psychiatry"},{"key":"58151_CR87","doi-asserted-by":"publisher","first-page":"e3","DOI":"10.1016\/j.biopsych.2021.08.006","volume":"91","author":"DM Walker","year":"2022","unstructured":"Walker, D. M., Cunningham, A. M. & Nestler, E. J. Reply to: Multiple Comparisons and Inappropriate Statistical Testing Lead to Spurious Sex Differences in Gene Expression. Biol. Psychiatry 91, e3\u2013e5 (2022).","journal-title":"Biol. Psychiatry"},{"key":"58151_CR88","doi-asserted-by":"publisher","DOI":"10.1126\/sciadv.adg8558","volume":"9","author":"CJ Browne","year":"2023","unstructured":"Browne, C. J. et al. Transcriptional signatures of heroin intake and relapse throughout the brain reward circuitry in male mice. Sci. Adv. 9, eadg8558 (2023).","journal-title":"Sci. Adv."},{"key":"58151_CR89","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-018-27293-5","volume":"8","author":"AT McKenzie","year":"2018","unstructured":"McKenzie, A. T. et al. Brain Cell Type Specific Gene Expression and Co-expression Network Architectures. Sci. Rep. 8, 8868 (2018).","journal-title":"Sci. Rep."},{"key":"58151_CR90","doi-asserted-by":"publisher","first-page":"2322","DOI":"10.1093\/bioinformatics\/bty109","volume":"34","author":"JG P\u00e9rez-Silva","year":"2018","unstructured":"P\u00e9rez-Silva, J. G., Araujo-Voces, M. & Quesada, V. nVenn: generalized, quasi-proportional Venn and Euler diagrams. Bioinformatics 34, 2322\u20132324 (2018).","journal-title":"Bioinformatics"},{"key":"58151_CR91","doi-asserted-by":"publisher","first-page":"W39","DOI":"10.1093\/nar\/gkv416","volume":"43","author":"TL Bailey","year":"2015","unstructured":"Bailey, T. L., Johnson, J., Grant, C. E. & Noble, W. S. The MEME Suite. Nucleic Acids Res 43, W39\u2013W49 (2015).","journal-title":"Nucleic Acids Res"},{"key":"58151_CR92","doi-asserted-by":"publisher","first-page":"e1004574","DOI":"10.1371\/journal.pcbi.1004574","volume":"11","author":"W-M Song","year":"2015","unstructured":"Song, W.-M. & Zhang, B. Multiscale Embedded Gene Co-expression Network Analysis. PLoS Comput Biol. 11, e1004574 (2015).","journal-title":"PLoS Comput Biol."},{"key":"58151_CR93","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-7-S1-S7","volume":"7","author":"AA Margolin","year":"2006","unstructured":"Margolin, A. A. et al. ARACNE: An Algorithm for the Reconstruction of Gene Regulatory Networks in a Mammalian Cellular Context. BMC Bioinforma. 7, S7 (2006).","journal-title":"BMC Bioinforma."}],"container-title":["Nature Communications"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.nature.com\/articles\/s41467-025-58151-4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41467-025-58151-4","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41467-025-58151-4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,3,28]],"date-time":"2025-03-28T05:13:39Z","timestamp":1743138819000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/s41467-025-58151-4"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,3,25]]},"references-count":93,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2025,12]]}},"alternative-id":["58151"],"URL":"https:\/\/doi.org\/10.1038\/s41467-025-58151-4","relation":{},"ISSN":["2041-1723"],"issn-type":[{"value":"2041-1723","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,3,25]]},"assertion":[{"value":"18 March 2024","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"10 March 2025","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"25 March 2025","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors declare no competing interests.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}],"article-number":"2886"}}