About The Journal
  Aims and Scope
  Editorial Board
  Submit a Manuscript 
  Subscription Information
  Guidelines for Publication
  Ethics
Articles & Issues
  Search
  Issue
  Online First
  KJChE on
For Authors
  Instructions to Authors
  Ethical Responsibilities of
  Authors in KJChE
  Ethics in Publishing
  Peer Review Process
  Author's Checklist
  Copyright Transfer Form
Contact us
 
 
 
Issue
Korean Journal of Chemical Engineering,
Vol.39, No.6, 1361-1367, 2022
Epigenome editing and epigenetic gene regulation in disease phenotypes
Jin G, Lim BM
Proper gene control across space and time is crucial for the seamless execution of various cellular functions. Rapid advancements in genome-wide studies revealed that in addition to genetic mutations, epigenetic modifications also play an important role in cellular processes and disease development. Epigenetic modifications, including DNA methylation and post-translational modifications on histones via methylation, acetylation, phosphorylation, etc., do not alter DNA sequences. Yet, disruptions of the epigenome can still induce gene malfunction, aberrant cell differentiation, proliferation, and apoptosis, resulting in various diseases such as cancer, neurological disorders, and autoimmune diseases. This review describes the association between epigenetic modifications and disease phenotypes, current techniques to perturb the epigenome and analyze changes in gene expression, and perspectives on future epigenetic research.
Keywords: Epigenetics; Gene Regulation; CRISPR-dCas9; DNA Methylation; Histone Modification
[References]
  1. Stine ZE, Walton ZE, Altman BJ, Hsieh AL, Dang CV, Cancer Discov., 5, 1024, 2015
  2. Ingram CJE, Mulcare CA, Itan Y, Thomas MG, Swallow DM, Hum. Gene Ther., 124, 579, 2009
  3. Portela A, Esteller M, Nat. Biotechnol., 28, 1057, 2010
  4. Hunter J, Rivero-Arias O, Angelov A, Kim E, Fotheringham I, Leal J, Am. J. Med. Genet. Part A, 164, 1648, 2014
  5. Colak D, Zaninovic N, Cohen MS, Rosenwaks Z, Yang WY, Gerhardt J, Disney MD, Jaffrey SR, Science, 343, 1002, 2014
  6. Halevy T, Czech C, Benvenisty N, Stem Cell Reports, 4, 37, 2015
  7. Liu XS, Wu H, Krzisch M, Wu X, Graef J, Muffat J, Hnisz D, Li CH, Yuan B, Xu C, Li Y, Vershkov D, Cacace A, Cell,
  8. Kumari D, Usdin K, Hum. Mol. Genet., 19, 4634, 2010
  9. Avitzour M, Mor-Shaked H, Yanovsky-Dagan S, Aharoni S, Altarescu G, Renbaum P, Eldar-Geva T, Schonberger O, Levy-Lahad E, Epsztejn-Litman S, Eiges R, Stem Cell Reports, 3, 699, 2014
  10. Sheridan SD, Theriault KM, Reis SA, Zhou F, Madison JM, Daheron L, Loring JF, Haggarty SJ, PLoS One, 6, e26203, 2011
  11. Amir RE, Van den Veyver IB, Wan M, Tran CQ, Francke U, Zoghbi HY, Nat. Genet., 23, 185, 1999
  12. de Paz AM, Khajavi L, Martin H, Claveria-Gimeno R, Tom Dieck S, Cheema MS, Sanchez-Mut JV, Moksa MM, Epigenetics Chromatin, 12, 63, 2019
  13. Altuna M, Urdánoz-Casado A, de Gordoa JSR, Zelaya MV, Labarga A, Lepesant JMJ, Roldán M, Blanco-Luquin I, Clin. Epigenetics, 11, 91, 2019
  14. Sun W, Zang L, Shu Q, Li X, Genomics, 104, 347, 2014
  15. Siegel RL, Miller JD, Fuchs HE, Jemal A, CA. Cancer J. Clin., 717, 7, 2021
  16. Paydar P, Asadikaram G, Nejad HZ, Akbari H, Abolhassani M, Moazed V, Nematollahi MH, Ebrahimi G, Fallah H, J. Cell. Biochem., 120, 13726, 2019
  17. Futscher BW, Oshiro MM, Wozniak RJ, Holtan N, Hanigan CL, Duan H, Domann FE, Nat. Genet., 31, 175, 2002
  18. Futscher BW, O’Meara MM, Kim CJ, Rennels MA, Lu D, Gruman LM, Seftor REB, Hendrix MJC, Domann FE, Neoplasia, 6, 380, 2004
  19. Maass N, Biallek M, Rösel F, Schem C, Ohike N, Zhang M, Jonat W, Nagasaki K, Biochem. Biophys. Res. Commun., 297, 125, 2002
  20. Narod SA, BRCA mutations in the management of breast cancer: The state of the art (2010).
  21. Glodzik D, Bosch A, Hartman J, Aine M, Vallon-Christersson J, Reuterswärd C, Karlsson A, Mitra S, Niméus E, Holm K, Häkkinen J, Nat. Commun., 11, 3747, 2020
  22. Batra RN, Lifshitz A, Vidakovic AT, Chin SF, Sati-Batra A, Sammut SJ, Provenzano E, Ali HR, Dariush A, Bruna A, Nat. Commun., 12, 5406, 2021
  23. Hon GC, Hawkins RD, Caballero OL, Lo C, Lister R, Pelizzola M, Valsesia A, Ye Z, Kuan S, Edsall LE, Camargo AA, Genome Res., 22, 246, 2012
  24. Jin W, Li QZ, Liu Y, Zuo YC, Genomics, 112, 853, 2020
  25. Chatterjee A, Rodger EJ, Eccles MR, Semin. Cancer Biol., 51, 149, 2018
  26. Nemtsova MV, Zaletaev DV, Bure IV, Mikhaylenko DS, Kuznetsova EB, Alekseeva EA, Beloukhova MI, Deviatkin AA, Fron, 10, 1, 2019
  27. de Andres MC, Perez-Pampin E, Calaza M, Santaclara FJ, Ortea I, Gomez-Reino JJ, Gonzalez A, Arthritis Res. Ther., 17, 233, 2015
  28. Nakano K, Whitaker JW, Boyle DL, Wang W, Firestein GS, Ann. Rheum. Dis., 72, 110, 2013
  29. de la Rica L, Urquiza JM, Gómez-Cabrero D, Islam ABMMK, López-Bigas N, Tegnér J, Toes REM, Ballestar E, J. Autoimmun., 41, 6, 2013
  30. Karouzakis E, Trenkmann M, Gay RE, Michel BA, Gay S, Neidhart M, J. Immunol. Methods, 193, 4945, 2014
  31. Trenkmann M, Brock M, Gay RE, Kolling C, Speich R, Michel BA, Gay S, Huber LC, Ann. Rheum. Dis., 70, 1482, 2011
  32. Wada TT, Araki Y, Sato K, Aizaki Y, Yokota K, Kim YT, Oda H, Kurokawa R, Mimura T, Biochem. Biophys. Res. Commun., 444, 682, 2014
  33. Jinek M, Chylinski K, Fonfara I, Hauer M, Doudna JA, Charpentier E, Science, 337, 816, 2012
  34. Cong F, Ran FA, Cox D, Lin S, Barretto R, Habib N, Hsu PD, Wu X, Jiang W, Marraffini LA, Zhang F, Science, 339, 819, 2013
  35. Knott GJ, Doudna JA, Science, 361, 866, 2018
  36. Qi LS, Larson MH, Gilbert LA, Doudna JA, Weissman JS, Arkin AP, Lim WA, Cell, 152, 1173, 2013
  37. Konermann S, Brigham ME, Trevino AE, Joung J, Abudayyeh OO, Barcena C, Hsu PD, Habib N, Gootenberg JS, Nature, 517, 583, 2015
  38. Komor AC, Badran AH, Liu DR, Cell, 168, 20, 2017
  39. Choudhury SR, Cui Y, Lubecka K, Stefanska B, Irudayaraj J, Oncotarget, 7, 46545, 2015
  40. Morita S, Noguchi H, Horii T, Nakabayashi K, Kimura M, Okamura K, Sakai A, Nakashima H, Hata K, Nakashima K, Hatada I, Nat. Biotechnol., 34, 1060, 2016
  41. Hu C, Liu X, Zeng Y, Liu J, Wu F, Clin. Epigenetics, 13, 1, 2021
  42. Giri AK, Aittokallio T, Front. Pharmacol., 10, 1, 2019
  43. Sapozhnikov DM, Szyf M, Nat. Commun., 12, 2021
  44. Vojta A, Dobrinić P, Tadić V, Bočkor L, Korać P, Julg B, Klasić M, Zoldoš V, Nucleic Acids Res., 44, 5615, 2016
  45. Stepper P, Kungulovski G, Jurkowska RZ, Chandra T, Krueger F, Reinhardt R, Reik W, Jeltsch A, Jurkowski TP, Nucleic Acids Res., 45, 1703, 2017
  46. Bintu L, Yong J, Antebi YE, McCue K, Kazuki Y, Uno N, Oshimura M, Elowitz MB, Science, 351, 720, 2016
  47. Cheung P, Lau P, Mol. Endocrinol., 19, 563, 2005
  48. Cano-Rodriguez D, Gjaltema RAF, Jilderda LJ, Jellema P, Dokter-Fokkens J, Ruiters MHJ, Rots MG, Nat. Commun., 7, 12284, 2016
  49. Kwon DY, Zhao YT, Lamonica JM, Zhou Z, Nat. Commun., 8, 15315, 2017
  50. Perez-Pinera P, Kocak DD, Vockley CM, Adler AF, Kabadi AM, Polstein LR, Thakore PI, Glass KA, Ousterout DG, Nat. Methods, 10, 973, 2013
  51. Hilton IB, D’Ippolito AM, Vockley CM, Thakore PI, Crawford GE, Reddy TE, Gersbach CA, Nat. Biotechnol., 33, 510, 2015
  52. Lustberg MB, Ramaswamy B, Curr. Breast Cancer Rep., 3, 34, 2011
  53. Braun SMG, Kirkland JG, Chory EJ, Husmann D, Calarco JP, Crabtree GR, Nat. Commun., 8, 560, 2017
  54. Liang FS, Ho WQ, Crabtree GR, Sci. Signal., 4, 1, 2011
  55. Gao Y, Xiong X, Wong S, Charles EJ, Lim WA, Qi LS, Nat. Methods, 13, 1043, 2016
  56. Lo CL, Choudhury SR, Irudayaraj J, Zhou FC, Sci. Rep., 7, 42047, 2017
  57. Kennedy MJ, Hughes RM, Peteya LA, Schwartz JW, Ehlers MD, Tucker CL, Nat. Methods, 7, 973, 2010
  58. Lungu C, Pinter S, Broche J, Rathert P, Jeltsch A, Nat. Commun., 8, 649, 2017
  59. Hori Y, Otomura N, Nishida A, Nishiura M, Umeno M, Suetake I, Kikuchi K, J. Am. Chem. Soc., 140, 1686, 2018
  60. Bertrand E, Chartrand P, Schaefer M, Shenoy SM, Singer RH, Long RM, Mol. Cell., 2, 437, 1998
  61. Larson DR, Zenklusen D, Wu B, Chao JA, Singer RH, Science, 332, 475, 2011
  62. Lim B, Curr. Opin. Biotechnol., 52, 49, 2018
  63. Keller SH, Jena SG, Yamazaki Y, Lim B, Proc. Natl. Acad. Sci., 117, 15096, 2020
  64. Syed S, Wilky H, Raimundo J, Lim B, Amodeo AA, Proc. Natl. Acad. Sci., 118, e2010210, 2021
  65. Rodriguez J, Ren G, Day CR, Zhao K, Chow CC, Larson DR, Cell, 176, 213, 2019
  66. Alexander JM, Guan J, Li B, Maliskova L, Song M, Shen Y, Huang B, Lomvardas S, Weiner OD, Elife, 8, 1, 2019
참고문헌정보(참고문헌, 인용문헌)는 화학공학소재연구정보센터에 의해 제공되고 있습니다.