Kandel ER, Dudai Y, Mayford MR (2014) The molecular and systems biology of memory. Cell 157(1):163–186. https://doi.org/10.1016/j.cell.2014.03.001

Article  CAS  PubMed  Google Scholar 

Gershman SJ, Balbi PE, Gallistel CR, Gunawardena J (2021) Reconsidering the evidence for learning in single cells. Elife 10:e61907. https://doi.org/10.7554/eLife.61907

Article  CAS  PubMed  PubMed Central  Google Scholar 

D’Urso A, Takahashi YH, Xiong B, Marone J, Coukos R, Randise-Hinchliff C, Wang JP, Shilatifard A, Brickner JH (2016) Set1/COMPASS and mediator are repurposed to promote epigenetic transcriptional memory. Elife 5:e16691. https://doi.org/10.7554/eLife.16691

Article  PubMed  PubMed Central  Google Scholar 

Chernova TA, Chernoff YO, Wilkinson KD (2017) Prion-based memory of heat stress in yeast. Prion 11(3):151–161. https://doi.org/10.1080/19336896.2017.1328342

Article  CAS  PubMed  PubMed Central  Google Scholar 

Liu N, Avramova Z (2016) Molecular mechanism of the priming by jasmonic acid of specific dehydration stress response genes in Arabidopsis. Epigenetics Chromatin 9:8. https://doi.org/10.1186/s13072-016-0057-5

Article  CAS  PubMed  PubMed Central  Google Scholar 

Stief A, Altmann S, Hoffmann K, Pant BD, Scheible WR, Bäurle I (2014) Arabidopsis miR156 regulates tolerance to recurring environmental stress through SPL transcription factors. Plant Cell 26(4):1792–1807. https://doi.org/10.1105/tpc.114.123851

Article  CAS  PubMed  PubMed Central  Google Scholar 

Li P, Yang H, Wang L, Liu H, Huo H, Zhang C, Liu A, Zhu A, Hu J, Lin Y, Liu L (2019) Physiological and transcriptome analyses reveal short-term responses and formation of memory under drought stress in rice. Front Genet 10:55. https://doi.org/10.3389/fgene.2019.00055

Article  CAS  PubMed  PubMed Central  Google Scholar 

Kamada R, Yang W, Zhang Y, Patel MC, Yang Y, Ouda R, Dey A, Wakabayashi Y, Sakaguchi K, Fujita T, Tamura T, Zhu J, Ozato K (2018) Interferon stimulation creates chromatin marks and establishes transcriptional memory. Proc Natl Acad Sci U S A 115(39):E9162–E9171. https://doi.org/10.1073/pnas.1720930115

Article  CAS  PubMed  PubMed Central  ADS  Google Scholar 

Pace L, Goudot C, Zueva E, Gueguen P, Burgdorf N, Waterfall JJ, Quivy JP, Almouzni G, Amigorena S (2018) The epigenetic control of stemness in CD8(+) T cell fate commitment. Science 359(6372):177–186

Article  CAS  PubMed  ADS  Google Scholar 

Csermely P, Kunsic N, Mendik P, Kerestély M, Faragó T, Veres DV, Tompa P (2020) Learning of signaling networks: molecular mechanisms. Trends Biochem Sci 45(4):284–294. https://doi.org/10.1016/j.tibs.2019.12.005

Article  PubMed  Google Scholar 

Tompa P (2016) The principle of conformational signaling. Chem Soc Rev 45(15):4252–4284. https://doi.org/10.1039/c6cs00011h

Article  CAS  PubMed  Google Scholar 

Van Roey K, Gibson TJ, Davey NE (2012) Motif switches: decision-making in cell regulation. Curr Opin Struct Biol 22(3):378–385. https://doi.org/10.1016/j.sbi.2012.03.004

Article  CAS  PubMed  Google Scholar 

Caudron F, Barral Y (2014) Mnemons: encoding memory by protein super-assembly. Microb Cell 1(3):100–102. https://doi.org/10.15698/mic2014.01.134

Article  CAS  PubMed  PubMed Central  Google Scholar 

Reichert P, Caudron F (2021) Mnemons and the memorization of past signaling events. Curr Opin Cell Biol 69(4):127–135. https://doi.org/10.1016/j.ceb.2021.01.005

Article  CAS  PubMed  Google Scholar 

Lau Y, Oamen HP, Grogg M, Parfenova I, Saarikangas J, Hannay R, Nichols RA, Hilvert D, Barral Y, Caudron F (2022) Whi3 mnemon association with endoplasmic reticulum membranes confines the memory of deceptive courtship to the yeast mother cell. Curr Biol 32(5):963–974. https://doi.org/10.1016/j.cub.2022.01.002

Article  CAS  PubMed  PubMed Central  Google Scholar 

Csermely P, Korcsmáros T, Kiss HJ, London G, Nussinov R (2013) Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review. Pharmacol The 138(3):333–408. https://doi.org/10.1016/j.pharmthera.2013.01.016

Article  CAS  Google Scholar 

Mendik P, Dobronyi L, Hári F, Kerepesi C, Maia-Moço L, Buszlai D, Csermely P, Veres DV (2019) Translocatome: a novel resource for the analysis of protein translocation between cellular organelles. Nucleic Acids Res 47(D1):D495–D505. https://doi.org/10.1093/nar/gky1044

Article  CAS  PubMed  Google Scholar 

Qu Y, Jiang J, Liu X, Yang X, Tang C (2020) Non-epigenetic mechanisms enable short memories of the environment for cell cycle commitment. bioRxiv. https://doi.org/10.1101/2020.08.14.250704v1

Article  Google Scholar 

Paneni F, Mocharla P, Akhmedov A, Costantino S, Osto E, Volpe M, Lüscher TF, Cosentino F (2012) Gene silencing of the mitochondrial adaptor p66(Shc) suppresses vascular hyperglycemic memory in diabetes. Circ Res 111(3):278–289. https://doi.org/10.1161/circresaha.112.266593

Article  CAS  PubMed  Google Scholar 

Ramon S, Bancos S, Serhan CN, Phipps RP (2014) Lipoxin A4 modulates adaptive immunity by decreasing memory B-cell responses via an ALX/FPR2-dependent mechanism. Eur J Immunol 44(2):357–369. https://doi.org/10.1002/eji.201343316

Article  CAS  PubMed  PubMed Central  Google Scholar 

Pallett MA, Ren H, Zhang RY, Scutts SR, Gonzalez L, Zhu Z, Maluquer de Motes C, Smith GL (2019) Vaccinia virus BBK E3 ligase adaptor A55 targets importin-dependent NF-κB activation and inhibits CD8+ T-Cell memory. J Virol 93(10):e00051-e119. https://doi.org/10.1128/JVI.00051-19

Article  CAS  PubMed  PubMed Central  Google Scholar 

Li CX, Talele NP, Boo S, Koehler A, Knee-Walden E, Balestrini JL, Speight P, Kapus A, Hinz B (2017) MicroRNA-21 preserves the fibrotic mechanical memory of mesenchymal stem cells. Nat Mater 16(3):379–389. https://doi.org/10.1038/nmat4780

Article  CAS  PubMed  ADS  Google Scholar 

Seeley JJ, Baker RG, Mohamed G, Bruns T, Hayden MS, Deshmukh SD, Freedberg DE, Ghosh S (2018) Induction of innate immune memory via microRNA targeting of chromatin remodelling factors. Nature 559(7712):114–119. https://doi.org/10.1038/s41586-018-0253-5

Article  CAS  PubMed  PubMed Central  ADS  Google Scholar 

Hudson WH, Prokhnevska N, Gensheimer J, Akondy R, McGuire DJ, Ahmed R, Kissick HT (2019) Expression of novel long noncoding RNAs defines virus-specific effector and memory CD8+ T cells. Nat Commun 10(1):196. https://doi.org/10.1038/s41467-018-07956-7

Article  CAS  PubMed  PubMed Central  ADS  Google Scholar 

Berenguer J, Celià-Terrassa T (2021) Cell memory of epithelial-mesenchymal plasticity in cancer. Curr Op Cell Biol 69(4):103–110. https://doi.org/10.1016/j.ceb.2021.01.001

Article  CAS  PubMed  Google Scholar 

Sump B, Brickner DG, D’Urso A, Kim SH, Brickner JH (2022) Mitotically heritable, RNA polymerase II-independent H3K4 dimethylation stimulates INO1 transcriptional memory. Elife 11:e77646. https://doi.org/10.7554/eLife.77646

Article  CAS  PubMed  PubMed Central  Google Scholar 

Friedrich T, Oberkofler V, Trindade I, Altmann S, Brzezinka K, Lämke J, Gorka M, Kappel C, Sokolowska E, Skirycz A, Graf A, Bäurle I (2021) Heteromeric HSFA2/HSFA3 complexes drive transcriptional memory after heat stress in Arabidopsis. Nat Commun 12(1):3426. https://doi.org/10.1038/s41467-021-23786-6

Article  CAS  PubMed  PubMed Central  ADS  Google Scholar 

Gialitakis M, Arampatzi P, Makatounakis T, Papamatheakis J (2010) Gamma interferon-dependent transcriptional memory via relocalization of a gene locus to PML nuclear bodies. Mol Cell Biol 30(8):2046–2056. https://doi.org/10.1128/MCB.00906-09

Article  CAS  PubMed  PubMed Central  Google Scholar 

Komori HK, Hart T, LaMere SA, Chew PV, Salomon DR (2015) Defining CD4 T cell memory by the epigenetic landscape of CpG DNA methylation. J Immunol 194(4):1565–1579. https://doi.org/10.4049/jimmunol.1401162

Article  CAS  PubMed  Google Scholar 

Nuñez JK, Chen J, Pommier GC, Cogan JZ, Replogle JM, Adriaens C, Ramadoss GN, Shi Q, Hung KL, Samelson AJ, Pogson AN, Kim JYS, Chung A, Leonetti MD, Chang HY, Kampmann M, Bernstein BE, Hovestadt V, Gilbert LA, Weissman JS (2021) Genome-wide programmable transcriptional memory by CRISPR-based epigenome editing. Cell 184(9):2503–2519. https://doi.org/10.1016/j.cell.2021.03.025

Article  CAS  PubMed  PubMed Central