[1] GASIUNAS G,BARRANGOU R,HORVATH P,et al.Cas9-crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria[J].Proceedings of the National Academy of Sciences of the United States of America,2012,109(39):E2579-E2586. [2] ISHINO Y,SHINAGAWA H,MAKINO K,et al.Nucleotide sequence of the iap gene,responsible for alkaline phosphatase isozyme conversion in Escherichia coli,and identification of the gene product[J].Journal of Bacteriology,1987,169(12):5429-5433. [3] SHMAKOV S,SMARGON A,SCOTT D,et al.Diversity and evolution of class 2 CRISPR-Cas systems[J].Nature Reviews.Microbiology,2017,15(3):169-182. [4] BHAYA D,DAVISON M,BARRANGOU R.CRISPR-Cas systems in bacteria and archaea:Versatile small RNAs for adaptive defense and regulation[J].Annual Review of Genetics,2011,45:273-297. [5] JINEK M,CHYLINSKI K,FONFARA I,et al.A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity[J].Science,2012,337(6096):816-821. [6] CONG L,RAN F A,COX D,et al.Multiplex genome engineering using CRISPR/Cas systems[J].Science,2013,339(6121):819-823. [7] JINEK M,JIANG F,TAYLOR D W,et al.Structures of Cas9 endonucleases reveal RNA-mediated conformational activation[J].Science,2014,343(6176):1247997. [8] NISHIMASU H,CONG L,YAN W X,et al.Crystal structure of Staphylococcus aureus Cas9[J].Cell,2015,162(5):1113-1126. [9] STERNBERG S H,REDDING S,JINEK M,et al.DNA interrogation by the CRISPR RNA-guided endonuclease Cas9[J].Nature,2014,507(7490):62-67. [10] NIU Y,SHEN B,CUI Y,et al.Generation of gene-modified cynomolgus monkey via Cas9/RNA-mediated gene targeting in one-cell embryos[J].Cell,2014,156(4):836-843. [11] BARMAN A,DEB B,CHAKRABORTY S.A glance at genome editing with CRISPR-Cas9 technology[J].Current Genetics,2020,66(3):447-462. [12] WYMAN C,KANAAR R.DNA double-strand break repair:All's well that ends well[J].Annual Review of Genetics,2006,40:363-383. [13] QI L S,LARSON M H,GILBERT L A,et al.Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression[J].Cell,2013,152(5):1173-1183. [14] MORADPOUR M, ABDULAH S N A.CRISPR/dCas9 platforms in plants:Strategies and applications beyond genome editing[J].Plant Biotechnology Journal,2020,18(1):32-44. [15] PICKAR-OLIVER A,GERSBACH C A.The next generation of CRISPR-Cas technologies and applications[J].Nature Reviews.Molecular Cell Biology,2019,20(8):490-507. [16] MAKAROVA K S,HAFT D H,BARRANGOU R,et al.Evolution and classification of the CRISPR-Cas systems[J].Nature Reviews.Microbiology,2011,9(6):467-477. [17] MCCARTY N S,GRAHAM A E,STUDENÁ L,et al.Multiplexed CRISPR technologies for gene editing and transcriptional regulation[J].Nature Communications,2020,11(1):1281. [18] PEREZ-PINERA P,KOCAK D D,VOCKLEY C M,et al.RNA-guided gene activation by CRISPR-Cas9-based transcription factors[J].Nature Methods,2013,10(10):973-976. [19] MAEDER M L,LINDER S J,CASCIO V M,et al.CRISPR RNA-guided activation of endogenous human genes[J].Nature Methods,2013,10(10):977-979. [20] THAKORE P I,BLACK J B,HILTON I B,et al.Editing the epigenome:Technologies for programmable transcription and epigenetic modulation[J].Nature Methods,2016,13(2):127-137. [21] MAROUFI F,MAALI A,ABDOLLAHPOUR-ALITAPPEH M,et al.CRISPR-mediated modification of DNA methylation pattern in the new era of cancer therapy[J].Epigenomics,2020,12(20):1845-1859. [22] TANENBAUM M E,GILBERT L A,QI L S,et al.A protein-tagging system for signal amplification in gene expression and fluorescence imaging[J].Cell,2014,159(3):635-646. [23] CHAVEZ A,SCHEIMAN J,VORA S,et al.Highly efficient Cas9-mediated transcriptional programming[J].Nature Methods,2015,12(4):326-328. [24] KONERMANN S,BRIGHAM M D,TREVINO A E,et al.Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex[J].Nature,2015,517(7536):583-588. [25] BIKARD D,JIANG W,SAMAI P,et al.Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system[J].Nucleic Acids Research,2013,41(15):7429-7437. [26] DOMINGUEZ A A,LIM W A,QI L S.Beyond editing:Repurposing CRISPR-Cas9 for precision genome regulation and interrogation[J].Nature Reviews.Molecular Cell Biology,2016,17(1):5-15. [27] GILBERT L A,LARSON M H,MORSUT L,et al.CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes[J].Cell,2013,154(2):442-451. [28] GAO X,TSANG J C H,GABA F,et al.Comparison of TALE designer transcription factors and the CRISPR/dCas9 in regulation of gene expression by targeting enhancers[J].Nucleic Acids Research,2014,42(20):e155. [29] KEARNS N A,PHAM H,TABAK B,et al.Functional annotation of native enhancers with a Cas9-histone demethylase fusion[J].Nature Methods,2015,12(5):401-403. [30] THAKORE P I,D'IPPOLITO A M,SONG L,et al.Highly specific epigenome editing by CRISPR-Cas9 repressors for silencing of distal regulatory elements[J].Nature Methods,2015,12(12):1143-1149. [31] AMABILE A,MIGLIARA A,CAPASSO P,et al.Inheritable silencing of endogenous genes by hit-and-run targeted epigenetic editing[J].Cell,2016,167(1):219-232. [32] YEO N C,CHAVEZ A,LANCE-BYRNE A,et al.An enhanced CRISPR repressor for targeted mammalian gene regulation[J].Nature Methods,2018,15(8):611-616. [33] ALERASOOL N,SEGAL D,LEE H,et al.An efficient KRAB domain for CRISPRi applications in human cells[J].Nature Methods,2020,17(11):1093-1096. [34] WOLFFE A P,MATZKE M A.Epigenetics:Regulation through repression[J].Science,1999,286(5439):481-486. [35] LAPRISE S L.Implications of epigenetics and genomic imprinting in assisted reproductive technologies[J].Molecular Reproduction and Development,2009,76(11):1006-1018. [36] TUCCI V,ISLES A R,KELSEY G,et al.Genomic imprinting and physiological processes in mammals[J].Cell,2019,176(5):952-965. [37] 孔康杰,倪颖勤.表观遗传学修饰对小胶质细胞功能调控的研究进展[J].中国眼耳鼻喉科杂志,2021,21(1):60-64. KONG K J,NI Y Q.Research progress in epigenetic modifications regulating functions of microglia[J].Chinese Journal of Ophthalmology and Otolaryngology,2021,21(1):60-64.(in Chinese) [38] LI B,CAREY M,WORKMAN J L.The role of chromatin during transcription[J].Cell,2007,128(4):707-719. [39] HILTON I B,D'IPPOLITO A M,VOCKLEY C M,et al.Epigenome editing by a CRISPR-Cas9-based acetyltransferase activates genes from promoters and enhancers[J].Nature Biotechnology,2015,33(5):510-517. [40] BOHNSACK J P,PATEL V K,MORROW A L.Ethanol exposure regulates expression via histone deacetylation at the promoter in cultured cortical neurons[J].The Journal of Pharmacology and Experimental Therapeutics,2017,363(1):1-11. [41] KWON D Y,ZHAO Y-T,LAMONICA J M,et al.Locus-specific histone deacetylation using a synthetic CRISPR-Cas9-based HDAC[J].Nature Communications,2017,8:15315. [42] LIU J,SUN M,CHO K B,et al.A CRISPR-Cas9 repressor for epigenetic silencing of KRAS[J].Pharmacological Research,2021,164:105304. [43] CHEN X,WEI M,LIU X,et al.Construction and validation of the CRISPR/dCas9-EZH2 system for targeted H3K27Me3 modification[J].Biochemical and Biophysical Research Communications,2019,511(2):246-252. [44] FUKUSHIMA H S,TAKEDA H,NAKAMURA R.Targeted in vivo epigenome editing of H3K27me3[J].Epigenetics & Chromatin,2019,12(1):17. [45] GUHATHAKURTA S,KIM J,ADAMS L,et al.Targeted attenuation of elevated histone marks at SNCA alleviates α-synuclein in Parkinson's disease[J].EMBO Molecular Medicine,2021,13(2):e12188. [46] BIRD A.DNA methylation patterns and epigenetic memory[J].Genes & Development,2002,16(1):6-21. [47] ADAMS R L.Eukaryotic DNA methyltransferases——Structure and function[J].BioEssays,1995,17(2):139-145. [48] JONES P A,BAYLIN S B.The fundamental role of epigenetic events in cancer[J].Nature Reviews.Genetics,2002,3(6):415-428. [49] WALSH C P,CHAILLET J R,BESTOR T H.Transcription of IAP endogenous retroviruses is constrained by cytosine methylation[J].Nature Genetics,1998,20(2):116-117. [50] VERTINO P M,SEKOWSKI J A,COLL J M,et al.DNMT1 is a component of a multiprotein DNA replication complex[J].Cell Cycle,2002,1(6):416-423. [51] OKANO M,BELL D W,HABER D A,et al.DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development[J].Cell,1999,99(3):247-257. [52] MCDONALD J I,CELIK H,ROIS L E,et al.Reprogrammable CRISPR/Cas9-based system for inducing site-specific DNA methylation[J].Biology Open,2016,5(6):866-874. [53] VOJTA A,DOBRINIĆ P,TADIĆ V,et al.Repurposing the CRISPR-Cas9 system for targeted DNA methylation[J].Nucleic Acids Research,2016,44(12):5615-5628. [54] LIU X S,WU H,JI X,et al.Editing DNA methylation in the mammalian genome[J].Cell,2016,167(1):233-247. [55] WEI Y,LANG J,ZHANG Q,et al.DNA methylation analysis and editing in single mammalian oocytes[J].Proceedings of the National Academy of Sciences of the United States of America,2019,116(20):9883-9892. [56] MORITA S,NOGUCHI H,HORII T,et al.Targeted DNA demethylation in vivo using dCas9-peptide repeat and scFv-TET1 catalytic domain fusions[J].Nature Biotechnology,2016,34(10):1060-1065. [57] HUANG Y-H,SU J,LEI Y,et al.DNA epigenome editing using CRISPR-Cas SunTag-directed DNMT3A[J].Genome Biology,2017,18(1):176. [58] PFLUEGER C,TAN D,SWAIN T,et al.A modular dCas9-SunTag DNMT3A epigenome editing system overcomes pervasive off-target activity of direct fusion dCas9-DNMT3A constructs[J].Genome Research,2018,28(8):1193-1206. [59] STEPPER P,KUNGULOVSKI G,JURKOWSKA R Z,et al.Efficient targeted DNA methylation with chimeric dCas9-Dnmt3a-Dnmt3l methyltransferase[J].Nucleic Acids Research,2017,45(4):1703-1713. [60] WU H,ZHANG Y.Reversing DNA methylation:Mechanisms,genomics,and biological functions[J].Cell,2014,156(1-2):45-68. [61] LIU X S,WU H,KRZISCH M,et al.Rescue of fragile X syndrome neurons by DNA methylation editing of the FMR1 gene[J].Cell,2018,172(5):979-992. [62] XU X,TAO Y,GAO X,et al.A CRISPR-based approach for targeted DNA demethylation[J].Cell Discovery,2016,2:16009. [63] XU X,TAN X,TAMPE B,et al.High-fidelity CRISPR/Cas9-based gene-specific hydroxymethylation rescues gene expression and attenuates renal fibrosis[J].Nature Communications,2018,9(1):3509. |