Abstract
Genome editing technologies, particularly CRISPR-Cas (clustered regularly interspaced short palindromic repeats (CRISPR) associated nucleases), are redefining the boundaries of therapeutic gene therapy. CRISPR-Cas is a robust, straightforward, and programmable genome editing tool capable of mediating site-specific DNA modifications. The rapid advancements from discovery to clinical adaptation have expanded the therapeutic landscape to treat genetically defined diseases. Together with the technical developments in human DNA and RNA sequencing, CRISPR-directed gene therapy enables a new era to realize precision medicine where pathogenic mutations underlying monogenic disorders can potentially be corrected. Also, protective or therapeutic genomic alterations can be introduced as preventative or curative therapy. Despite its high therapeutic potential, CRISPR-CasĀ“ clinical translation is still in its infancy and is highly dependent on its efficiency, specificity in gene corrections, and cell-specific delivery. Therefore, this chapter focuses on the challenges and opportunities the CRISPR-Cas toolbox offers together with delivery vehicles to realize its use for therapeutic gene editing. Furthermore, we discuss the obstacles the CRISPR-Cas system faces for successful clinical translation and summarize its current clinical progress.
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References
Matthews E, Brassington R, Kuntzer T, Jichi F, Manzur AY (2016) Corticosteroids for the treatment of Duchenne muscular dystrophy. Cochrane Database Syst Rev 5:CD003725
Eichhorn EJ, Gheorghiade M (2002) Digoxin. Prog Cardiovasc Dis 44(4):251ā266
Uddin F, Rudin CM, Sen T (2020) CRISPR gene therapy: applications, limitations, and implications for the future. Front Oncol 10:1387
Goswami R, Subramanian G, Silayeva L, Newkirk I, Doctor D, Chawla K, Chattopadhyay S, Chandra D, Chilukuri N, Betapudi V (2019) Gene therapy leaves a vicious cycle. Front Oncol 9:297
Stoddard BL (2011) Homing endonucleases: from microbial genetic invaders to reagents for targeted DNA modification. Structure 19(1):7ā15
Urnov FD, Rebar EJ, Holmes MC, Zhang HS, Gregory PD (2010) Genome editing with engineered zinc finger nucleases. Nat Rev Genet 11(9):636ā646
Bogdanove AJ, Voytas DF (2011) TAL effectors: customizable proteins for DNA targeting. Science 333(6051):1843ā1846
Mali P, Yang L, Esvelt KM, Aach J, Guell M, DiCarlo JE, Norville JE, Church GM (2013) RNA-guided human genome engineering via Cas9. Science 339(6121):823ā826
Adli M (2018) The CRISPR tool kit for genome editing and beyond. Nat Commun 9(1):1ā13
Cong L, Ran FA, Cox D, Lin S, Barretto R, Habib N, Hsu PD, Wu X, Jiang W, Marraffini LA, Zhang F (2013) Multiplex genome engineering using CRISPR/Cas systems. Science 339(6121):819ā823
Doudna JA, Charpentier E (2014) The new frontier of genome engineering with CRISPR-Cas9. Science 346:6213
Cox DBT, Platt RJ, Zhang F (2015) Therapeutic genome editing: prospects and challenges. Nat Med 21(2):121ā131
Oude Blenke E, Evers MJW, Mastrobattista E, van der Oost J (2016) CRISPR-Cas9 gene editing: delivery aspects and therapeutic potential. J Control Release 244:139ā148
Lee K, Conboy M, Park HM, Jiang F, Kim HJ, Dewitt MA, Mackley VA, Chang K, Rao A, Skinner C (2017) Nanoparticle delivery of Cas9 ribonucleoprotein and donor DNA in vivo induces homology-directed DNA repair. Nat Biomed Eng 1:889
Li L, He Z-Y, Wei X-W, Gao G-P, Wei Y-Q (2015) Challenges in CRISPR/CAS9 delivery: potential roles of nonviral vectors. Hum Gene Ther 26(7):452ā462
Hsu PD, Lander ES, Zhang F (2014) Development and applications of CRISPR-Cas9 for genome engineering. Cell 157(6):1262ā1278
Xiao-Jie L, Hui-Ying X, Zun-Ping K, Jin-Lian C, Li-Juan J (2015) CRISPR-Cas9: a new and promising player in gene therapy. J Med Genet 52(5):289ā296
Amoasii L, Hildyard JCW, Li H, Sanchez-Ortiz E, Mireault A, Caballero D, Harron R, Stathopoulou TR, Massey C, Shelton JM, Bassel-Duby R, Piercy RJ, Olson EN (2018) Gene editing restores dystrophin expression in a canine model of Duchenne muscular dystrophy. Science 362(6410):86ā91
Min Y-L, Bassel-Duby R, Olson EN (2019) CRISPR correction of Duchenne muscular dystrophy. Annu Rev Med 70:239ā255
Long C, Amoasii L, Mireault AA, McAnally JR, Li H, Sanchez-Ortiz E, Bhattacharyya S, Shelton JM, Bassel-Duby R, Olson EN (2016) Postnatal genome editing partially restores dystrophin expression in a mouse model of muscular dystrophy. Science 351(6271):400ā403
Bengtsson NE, Hall JK, Odom GL, Phelps MP, Andrus CR, Hawkins RD, Hauschka SD, Chamberlain JR, Chamberlain JS (2017) Muscle-specific CRISPR/Cas9 dystrophin gene editing ameliorates pathophysiology in a mouse model for Duchenne muscular dystrophy. Nat Commun 8(1):1ā10
Nelson CE, Hakim CH, Ousterout DG, Thakore PI, Moreb EA, Rivera RMC, Madhavan S, Pan X, Ran FA, Yan WX (2016) In vivo genome editing improves muscle function in a mouse model of Duchenne muscular dystrophy. Science 351(6271):403ā407
Shao Y, Wang L, Guo N, Wang S, Yang L, Li Y, Wang M, Yin S, Han H, Zeng L, Zhang L, Hui L, Ding Q, Zhang J, Geng H, Liu M, Li D (2018) Cas9-nickaseāmediated genome editing corrects hereditary tyrosinemia in rats. J Biol Chem 293(18):6883ā6892
Rupp LJ, Schumann K, Roybal KT, Gate RE, Ye CJ, Lim WA, Marson A (2017) CRISPR/Cas9-mediated PD-1 disruption enhances anti-tumor efficacy of human chimeric antigen receptor T cells. Sci Rep 7(1):1ā10
Mancuso P, Chen C, Kaminski R, Gordon J, Liao S, Robinson JA, Smith MD, Liu H, Sariyer IK, Sariyer R, Peterson TA, Donadoni M, Williams JB, Siddiqui S, Bunnell BA, Ling B, MacLean AG, Burdo TH, Khalili K (2020) CRISPR based editing of SIV proviral DNA in ART treated non-human primates. Nat Commun 11(1):1ā11
Chadwick AC, Wang X, Musunuru K (2017) In vivo base editing of PCSK9 (proprotein convertase subtilisin/Kexin type 9) as a therapeutic alternative to genome editing. Arterioscler Thromb Vasc Biol 37(9):1741ā1747
Chadwick AC, Evitt NH, Lv W, Musunuru K (2018) Reduced blood lipid levels with in vivo CRISPR-Cas9 base editing of ANGPTL3. Circulation 137(9):975ā977
Ding Q, Strong A, Patel KM, Ng SL, Gosis BS, Regan SN, Cowan CA, Rader DJ, Musunuru K (2014) Permanent alteration of PCSK9 with in vivo CRISPR-Cas9 genome editing. Circ Res 115(5):488ā492
Xie C, Zhang YP, Song L, Luo J, Qi W, Hu J, Lu D, Yang Z, Zhang J, Xiao J, Zhou B, Du JL, Jing N, Liu Y, Wang Y, Li BL, Song BL, Yan Y (2016) Genome editing with CRISPR/Cas9 in postnatal mice corrects PRKAG2 cardiac syndrome. Cell Res 26(10):1099ā1111
Zeng Y, Li J, Li G, Huang S, Yu W, Zhang Y, Chen D, Chen J, Liu J, Huang X (2018) Correction of the Marfan syndrome pathogenic FBN1 mutation by base editing in human cells and heterozygous embryos. Mol Ther 26(11):2631ā2637
Doudna JA (2020) The promise and challenge of therapeutic genome editing. Nature 578(7794):229ā236
Mohanraju P, Makarova KS, Zetsche B, Zhang F, Koonin EV, Van der Oost J (2016) Diverse evolutionary roots and mechanistic variations of the CRISPR-Cas systems. Science 353:6299
Shmakov S, Smargon A, Scott D, Cox D, Pyzocha N, Yan W, Abudayyeh OO, Gootenberg JS, Makarova KS, Wolf YI, Severinov K, Zhang F, Koonin EV (2017) Diversity and evolution of class 2 CRISPR-Cas systems. Nat Rev Microbiol 15(3):169ā182
Bin MS, Kim DY, Ko JH, Kim YS (2019) Recent advances in the CRISPR genome editing tool set. Exp Mol Med 51(11):1ā11
Jinek M, Chylinski K, Fonfara I, Hauer M, Doudna JA, Charpentier E (2012) A programmable dual-RNAāguided DNA endonuclease in adaptive bacterial immunity. Science 337(6096):816ā821
Kleinstiver BP, Prew MS, Tsai SQ, Topkar VV, Nguyen NT, Zheng Z, Gonzales APW, Li Z, Peterson RT, Yeh JRJ, Aryee MJ, Joung JK (2015) Engineered CRISPR-Cas9 nucleases with altered PAM specificities. Nature 523(7561):481ā485
Lee JK, Jeong E, Lee J, Jung M, Shin E, Kim Y, Lee K, Jung I, Kim D, Kim S, Kim JS (2018) Directed evolution of CRISPR-Cas9 to increase its specificity. Nat Commun 9(1):1ā10
Slaymaker IM, Gao L, Zetsche B, Scott DA, Yan WX, Zhang F (2016) Rationally engineered Cas9 nucleases with improved specificity. Science 351(6268):84ā88
Kleinstiver BP, Pattanayak V, Prew MS, Tsai SQ, Nguyen NT, Zheng Z, Joung JK (2016) High-fidelity CRISPR-Cas9 nucleases with no detectable genome-wide off-target effects. Nature 529(7587):490ā495
Nishimasu H, Shi X, Ishiguro S, Gao L, Hirano S, Okazaki S, Noda T, Abudayyeh OO, Gootenberg JS, Mori H (2018) Engineered CRISPR-Cas9 nuclease with expanded targeting space. Science 361(6408):1259ā1262
Hu JH, Miller SM, Geurts MH, Tang W, Chen L, Sun N, Zeina CM, Gao X, Rees HA, Lin Z, Liu DR (2018) Evolved Cas9 variants with broad PAM compatibility and high DNA specificity. Nature 556(7699):57ā63
KulcsĆ”r PI, TĆ”las A, HuszĆ”r K, Ligeti Z, TĆ³th E, Weinhardt N, Fodor E, Welker E (2017) Crossing enhanced and high fidelity SpCas9 nucleases to optimize specificity and cleavage. Enome Biol 18(1):1ā17
Vakulskas CA, Dever DP, Rettig GR, Turk R, Jacobi AM, Collingwood MA, Bode NM, McNeill MS, Yan S, Camarena J (2018) A high-fidelity Cas9 mutant delivered as a ribonucleoprotein complex enables efficient gene editing in human hematopoietic stem and progenitor cells. Nat Med 24(8):1216ā1122
Chen JS, Dagdas YS, Kleinstiver BP, Welch MM, Sousa AA, Harrington LB, Sternberg SH, Joung JK, Yildiz A, Doudna JA (2017) Enhanced proofreading governs CRISPR-Cas9 targeting accuracy. Nature 550(7676):407ā410
Casini A, Olivieri M, Petris G, Montagna C, Reginato G, Maule G, Lorenzin F, Prandi D, Romanel A, Demichelis F, Inga A, Cereseto A (2018) A highly specific SpCas9 variant is identified by in vivo screening in yeast. Nat Biotechnol 36(3):265
Walton RT, Christie KA, Whittaker MN, Kleinstiver BP (2020) Unconstrained genome targeting with near-PAMless engineered CRISPR-Cas9 variants. Science 368(6488):290ā296
Hu Z, Wang S, Zhang C, Gao N, Li M, Wang D, Wang D, Liu D, Liu H, Ong SG, Wang H, Wang Y (2020) A compact cas9 ortholog from staphylococcus auricularis (sauricas9) expands the DNA targeting scope. PLoS Biol 18(3):e3000686
Jakimo N, Chatterjee P, Nip L, Jacobson JM (2018) A Cas9 with complete PAM recognition for adenine dinucleotides. BioRxiv:429654
Ran FA, Cong L, Yan WX, Scott DA, Gootenberg JS, Kriz AJ, Zetsche B, Shalem O, Wu X, Makarova KS, Koonin EV, Sharp PA, Zhang F (2015) In vivo genome editing using Staphylococcus aureus Cas9. Nature 520(7546):186ā191
Kleinstiver BP, Prew MS, Tsai SQ, Nguyen NT, Topkar VV, Zheng Z, Joung JK (2015) Broadening the targeting range of Staphylococcus aureus CRISPR-Cas9 by modifying PAM recognition. Nat Biotechnol 33(12):1293ā1298
Chatterjee P, Jakimo N, Jacobson JM (2018) Minimal PAM specificity of a highly similar SpCas9 ortholog. Sci Adv 4(10):766
Chatterjee P, Jakimo N, Lee J, Amrani N, RodrĆguez T, Koseki SRT, Tysinger E, Qing R, Hao S, Sontheimer EJ, Jacobson J (2020) An engineered ScCas9 with broad PAM range and high specificity and activity. Nat Biotechnol 38(10):1154ā1158
Kim E, Koo T, Park SW, Kim D, Kim K, Cho HY, Song DW, Lee KJ, Jung MH, Kim S, Kim JH, Kim JH, Kim JS (2017) In vivo genome editing with a small Cas9 orthologue derived from Campylobacter jejuni. Nat Commun 8(1):1ā12
Acharya S, Mishra A, Paul D, Ansari AH, Azhar M, Kumar M, Rauthan R, Sharma N, Aich M, Sinha D (2019) Francisella novicida Cas9 interrogates genomic DNA with very high specificity and can be used for mammalian genome editing. Proc Natl Acad Sci 116(42):20959ā20968
Hirano H, Gootenberg JS, Horii T, Abudayyeh OO, Kimura M, Hsu PD, Nakane T, Ishitani R, Hatada I, Zhang F, Nishimasu H, Nureki O (2016) Structure and Engineering of Francisella novicida Cas9. Cell 164(5):950ā961
Hou Z, Zhang Y, Propson NE, Howden SE, Chu LF, Sontheimer EJ, Thomson JA (2013) Efficient genome engineering in human pluripotent stem cells using Cas9 from Neisseria meningitidis. Proc Natl Acad Sci 110(39):15644ā15649
Edraki A, Mir A, Ibraheim R, Gainetdinov I, Yoon Y, Song CQ, Cao Y, Gallant J, Xue W, Rivera-PĆ©rez JA, Sontheimer EJ (2019) A compact, high-accuracy Cas9 with a dinucleotide PAM for in vivo genome editing. Mol Cell 73(4):714ā726
MĆ¼ller M, Lee CM, Gasiunas G, Davis TH, Cradick TJ, Siksnys V, Bao G, Cathomen T, Mussolino C (2016) Streptococcus thermophilus CRISPR-Cas9 systems enable specific editing of the human genome. Mol Ther 24(3):636ā644
Karvelis T, Gasiunas G, Young J, Bigelyte G, Silanskas A, Cigan M, Siksnys V (2015) Rapid characterization of CRISPR-Cas9 protospacer adjacent motif sequence elements. Genome Biol 16(1):1ā13
Gao N, Zhang C, Hu Z, Li M, Wei J, Wang Y, Liu H (2020) Characterization of Brevibacillus laterosporus Cas9 (BlatCas9) for mammalian genome editing. Front Cell Dev Biol 8:1131
Harrington LB, Paez-Espino D, Staahl BT, Chen JS, Ma E, Kyrpides NC, Doudna JA (2017) A thermostable Cas9 with increased lifetime in human plasma. Nat Commun 8(1):1ā8
Zuo Z, Liu J (2016) Cas9-catalyzed DNA cleavage generates staggered ends: evidence from molecular dynamics simulations. Sci Rep 6(1):1ā9
Ding Q, Strong A, Patel KM, Ng S-L, Gosis BS, Regan SN, Rader DJ, Musunuru K (2014) Permanent alteration of PCSK9 with in vivo CRISPR-Cas9 genome editing. Circ Res 115(5):488ā492
Yin H, Xue W, Chen S, Bogorad RL, Benedetti E, Grompe M, Koteliansky V, Sharp PA, Jacks T, Anderson DG (2014) Genome editing with Cas9 in adult mice corrects a disease mutation and phenotype. Nat Biotechnol 32(6):551ā553
Yin H, Song C-Q, Dorkin JR, Zhu LJ, Li Y, Wu Q, Park A, Yang J, Suresh S, Bizhanova A (2016) Therapeutic genome editing by combined viral and non-viral delivery of CRISPR system components in vivo. Nat Biotechnol 34(3):328ā333
Tabebordbar M, Zhu K, Cheng JKW, Chew WL, Widrick JJ, Yan WX, Maesner C, Wu EY, Xiao R, Ran FA (2016) In vivo gene editing in dystrophic mouse muscle and muscle stem cells. Science 351(6271):407ā411
Maeder ML, Stefanidakis M, Wilson CJ, Baral R, Barrera LA, Bounoutas GS, Bumcrot D, Chao H, Ciulla DM, DaSilva JA (2019) Development of a gene-editing approach to restore vision loss in Leber congenital amaurosis type 10. Nat Med 25(2):229ā233
Qi LS, Larson MH, Gilbert LA, Doudna JA, Weissman JS, Arkin AP, Lim WA (2013) Repurposing CRISPR as an RNA-Ī³uided platform for sequence-specific control of gene expression. Cell 152(5):1173ā1183
Bikard D, Jiang W, Samai P, Hochschild A, Zhang F, Marraffini LA (2013) Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system. Nucleic Acids Res 41(15):7429ā7437
Wang D, Zhang F, Gao G (2020) CRISPR-based therapeutic genome editing: strategies and in vivo delivery by AAV vectors. Cell 181(1):136ā150
Komor AC, Kim YB, Packer MS, Zuris JA, Liu DR (2016) Programmable editing of a target base in genomic DNA without double-stranded DNA cleavage. Nature 533(7603):420ā424
Rees HA, Liu DR (2018) Base editing: precision chemistry on the genome and transcriptome of living cells. Nat Rev Genet 19(12):770ā788
Gaudelli NM, Komor AC, Rees HA, Packer MS, Badran AH, Bryson DI, Liu DR (2017) Programmable base editing of T to G C in genomic DNA without DNA cleavage. Nature 551(7681):464ā471
Anzalone AV, Randolph PB, Davis JR, Sousa AA, Koblan LW, Levy JM, Chen PJ, Wilson C, Newby GA, Raguram A (2019) Search-and-replace genome editing without double-strand breaks or donor DNA. Nature 576(7785):149ā157
Zetsche B, Gootenberg JS, Abudayyeh OO, Slaymaker IM, Makarova KS, Essletzbichler P, Volz SE, Joung J, Van Der Oost J, Regev A, Koonin EV, Zhang F (2015) Cpf1 Is a single RNA-guided endonuclease of a class 2 CRISPR-Cas system. Cell 163(3):759ā771
Liu Y, Han J, Chen Z, Wu H, Dong H, Nie G (2017) Engineering cell signaling using tunable CRISPRāCpf1-based transcription factors. Nat Commun 8(1):1ā8
Zhang Y, Long C, Li H, McAnally JR, Baskin KK, Shelton JM, Bassel-Duby R, Olson EN (2017) CRISPR-Cpf1 correction of muscular dystrophy mutations in human cardiomyocytes and mice. Sci Adv 3(4):e1602814
Zetsche B, Heidenreich M, Mohanraju P, Fedorova I, Kneppers J, DeGennaro EM, Winblad N, Choudhury SR, Abudayyeh OO, Gootenberg JS (2017) Multiplex gene editing by CRISPRāCpf1 using a single crRNA array. Nat Biotechnol 35(1):31ā34
Strecker J, Ladha A, Gardner Z, Schmid-Burgk JL, Makarova KS, Koonin EV, Zhang F (2019) RNA-guided DNA insertion with CRISPR-associated transposases. Science 365(6448):48ā53
Teng F, Cui T, Feng G, Guo L, Xu K, Gao Q, Li T, Li J, Zhou Q, Li W (2018) Repurposing CRISPR-Cas12b for mammalian genome engineering. Cell Dis 4(1):1ā15
Shmakov S, Abudayyeh OO, Makarova KS, Wolf YI, Gootenberg JS, Semenova E, Minakhin L, Joung J, Konermann S, Severinov K (2015) Discovery and functional characterization of diverse class 2 CRISPR-Cas systems. Mol Cell 60(3):385ā397
Strecker J, Jones S, Koopal B, Schmid-Burgk J, Zetsche B, Gao L, Makarova KS, Koonin EV, Zhang F (2019) Engineering of CRISPR-Cas12b for human genome editing. Nat Commun 10(1):1ā8
Yamano T, Zetsche B, Ishitani R, Zhang F, Nishimasu H, Nureki O (2017) Structural basis for the canonical and non-canonical PAM recognition by CRISPR-Cpf1. Mol Cell 67(4):633ā645
Kim HK, Song M, Lee J, Menon AV, Jung S, Kang Y-M, Choi JW, Woo E, Koh HC, Nam J-W (2017) In vivo high-throughput profiling of CRISPR-Cpf1 activity. Nat Methods 14(2):153ā159
Tu M, Lin L, Cheng Y, He X, Sun H, Xie H, Fu J, Liu C, Li J, Chen D, Xi H, Xue D, Liu Q, Zhao J, Gao C, Song Z, Qu J, Gu F (2017) A ānew lease of lifeā: FnCpf1 possesses DNA cleavage activity for genome editing in human cells. Nucleic Acids Res 45(19):11295ā11304
Li P, Zhang L, Li Z, Xu C, Du X, Wu S (2019) Cas12a mediates efficient and precise endogenous gene tagging via MITI: microhomology-dependent targeted integrations. Cell Mol Life Sci 2019:1ā10
Gao L, Cox DBT, Yan WX, Manteiga JC, Schneider MW, Yamano T, Nishimasu H, Nureki O, Crosetto N, Zhang F (2017) Engineered Cpf1 variants with altered PAM specificities. Nat Biotechnol 35(8):789ā792
Teng F, Li J, Cui T, Xu K, Guo L, Gao Q, Feng G, Chen C, Han D, Zhou Q, Li W (2019) Enhanced mammalian genome editing by new Cas12a orthologs with optimized crRNA scaffolds. Genome Biol 20(1):1ā6
Zetsche B, Strecker J, Abudayyeh OO, Gootenberg JS, Scott DA, Zhang F (2019) A survey of genome editing activity for 16 Cas12a orthologs. Keio J Med 69(3):59ā65
Yang H, Gao P, Rajashankar KR, Patel DJ (2016) PAM-dependent target DNA recognition and cleavage by C2c1 CRISPR-Cas endonuclease. Cell 167(7):1814ā1828
Harrington LB, Ma E, Chen JS, Witte IP, Gertz D, Paez-Espino D, Al-Shayeb B, Kyrpides NC, Burstein D, Banfield JF, Doudna JA (2020) A scoutRNA is required for some type V CRISPR-Cas systems. Mol Cell 79(3):416ā424
Liu J-J, Orlova N, Oakes BL, Ma E, Spinner HB, Baney KLM, Chuck J, Tan D, Knott GJ, Harrington LB (2019) CasX enzymes comprise a distinct family of RNA-guided genome editors. Nature 566(7743):218ā223
Huynh N, Depner N, Larson R, King-Jones K (2020) A versatile toolkit for CRISPR-Cas13-based RNA manipulation in Drosophila. Genome Biol 21(1):1ā29
Shmakov SA, Sitnik V, Makarova KS, Wolf YI, Severinov KV, Koonin EV (2017) The CRISPR spacer space is dominated by sequences from species-specific mobilomes. MBio 8:5
Cox DBT, Gootenberg JS, Abudayyeh OO, Franklin B, Kellner MJ, Joung J, Zhang F (2017) RNA editing with CRISPR-Cas13. Science 358(6366):1019ā1027
Abudayyeh OO, Gootenberg JS, Essletzbichler P, Han S, Joung J, Belanto JJ, Verdine V, Cox DBT, Kellner MJ, Regev A, Lander ES, Voytas DF, Ting AY, Zhang F (2017) RNA targeting with CRISPR-Cas13. Nature 550(7675):280ā284
Abudayyeh OO, Gootenberg JS, Konermann S, Joung J, Slaymaker IM, Cox DBT, Shmakov S, Makarova KS, Semenova E, Minakhin L, Severinov K, Regev A, Lander ES, Koonin EV, Zhang F (2016) C2c2 is a single-component programmable RNA-guided RNA-targeting CRISPR effector. Science 353:6299
Lin P, Qin S, Pu Q, Wang Z, Wu Q, Gao P, Schettler J, Guo K, Li R, Li G (2020) CRISPR-Cas13 inhibitors block RNA editing in bacteria and mammalian cells. Mol Cell 78(5):850ā861
Gootenberg JS, Abudayyeh OO, Kellner MJ, Joung J, Collins JJ, Zhang F (2018) Multiplexed and portable nucleic acid detection platform with Cas13, Cas12a, and Csm6. Science 360(6387):439ā444
Kellner MJ, Koob JG, Gootenberg JS, Abudayyeh OO, Zhang F (2019) SHERLOCK: nucleic acid detection with CRISPR nucleases. Nat Protoc 14(10):2986ā3012
Liu C, Zhang L, Liu H, Cheng K (2017) Delivery strategies of the CRISPR-Cas9 gene-editing system for therapeutic applications. J Control Release 266:17ā26
Yip BH (2020) Recent advances in CRISPR/Cas9 delivery strategies. Biomol Ther 10(6):839
Mout R, Ray M, Lee Y-W, Scaletti F, Rotello VM (2017) In vivo delivery of CRISPR/Cas9 for therapeutic gene editing: progress and challenges. Bioconjug Chem 28(4):880ā884
Li L, Hu S, Chen X (2018) Non-viral delivery systems for CRISPR/Cas9-based genome editing: challenges and opportunities. Biomaterials 171:207ā218
Cullis PR, Hope MJ (2017) Lipid nanoparticle systems for enabling gene therapies. Mol Ther 25(7):1467ā1475
Rosenblum D, Gutkin A, Dammes N, Peer D (2020) Progress and challenges towards CRISPR/Cas clinical translation. Adv Drug Deliv Rev 154-155:176ā186
Li L, Natarajan P, Allen C, Peshwa MV (2014) CGMP-compliant, clinical scale, non-viral platform for efficient gene editing using CRISPR/Cas9. Cytotherapy 16(4):S37
Boo SH, Kim YK (2020) The emerging role of RNA modifications in the regulation of mRNA stability. Exp Mol Med 52(3):400ā408
Hendel A, Bak RO, Clark JT, Kennedy AB, Ryan DE, Roy S, Steinfeld I, Lunstad BD, Kaiser RJ, Wilkens AB, Bacchetta R, Tsalenko A, Dellinger D, Bruhn L, Porteus MH (2015) Chemically modified guide RNAs enhance CRISPR-Cas genome editing in human primary cells. Nat Biotechnol 33(9):3290
Liang X, Potter J, Kumar S, Zou Y, Quintanilla R, Sridharan M, Carte J, Chen W, Roark N, Ranganathan S, Ravinder N, Chesnut JD (2015) Rapid and highly efficient mammalian cell engineering via Cas9 protein transfection. J Biotechnol 208:44ā53
Kim S, Kim D, Cho SW, Kim J, Kim JS (2014) Highly efficient RNA-guided genome editing in human cells via delivery of purified Cas9 ribonucleoproteins. Genome Res 24(6):1012ā1019
Zhang S, Shen J, Li D, Cheng Y (2021) Strategies in the delivery of Cas9 ribonucleoprotein for CRISPR/Cas9 genome editing. Theranostics 11(2):614ā648
Xu CL, Ruan MZC, Mahajan VB, Tsang SH (2019) Viral delivery systems for CRISPR. Viruses 11(1):28
Yang Y, Wang L, Bell P, McMenamin D, He Z, White J, Yu H, Xu C, Morizono H, Musunuru K (2016) A dual AAV system enables the Cas9-mediated correction of a metabolic liver disease in newborn mice. Nat Biotechnol 34(3):334ā338
Nakai H, Montini E, Fuess S, Storm TA, Grompe M, Kay MA (2003) AAV serotype 2 vectors preferentially integrate into active genes in mice. Nat Genet 34(3):297ā302
Liu J, Chang J, Jiang Y, Meng X, Sun T, Mao L, Xu Q, Wang M (2019) Fast and efficient CRISPR/Cas9 genome editing in vivo enabled by bioreducible lipid and messenger RNA nanoparticles. Adv Mater 31(33):1902575
Timin AS, Muslimov AR, Lepik KV, Epifanovskaya OS, Shakirova AI, Mock U, Riecken K, Okilova MV, Sergeev VS, Afanasyev BV (2018) Efficient gene editing via non-viral delivery of CRISPRāCas9 system using polymeric and hybrid microcarriers. Nanomedicine 14(1):97ā108
Wells DJ (2004) Gene therapy progress and prospects: electroporation and other physical methods. Gene Ther 11(18):1363ā1369
Horii T, Arai Y, Yamazaki M, Morita S, Kimura M, Itoh M, Abe Y, Hatada I (2014) Validation of microinjection methods for generating knockout mice by CRISPR/Cas-mediated genome engineering. Sci Rep 4(1):1ā6
Niola F, DagnƦs-Hansen F, Frƶdin M (2019) In vivo editing of the adult mouse liver using CRISPR/Cas9 and hydrodynamic tail vein injection. In: CRISPR gene editing. Humana Press, New York, pp 329ā341
Dever DP, Bak RO, Reinisch A, Camarena J, Washington G, Nicolas CE, Pavel-Dinu M, Saxena N, Wilkens AB, Mantri S (2016) CRISPR/Cas9 Ī²-globin gene targeting in human haematopoietic stem cells. Nature 539(7629):384ā389
Liu F, Song YK, Liu D (1999) Hydrodynamics-based transfection in animals by systemic administration of plasmid DNA. Gene Ther 6(7):1258ā1266
Suda T, Liu D (2007) Hydrodynamic gene delivery: its principles and applications. Mol Ther 15(12):2063ā2069
Khorsandi SE, Bachellier P, Weber JC, Greget M, Jaeck D, Zacharoulis D, Rountas C, Helmy S, Helmy A, Al-Waracky M (2008) Minimally invasive and selective hydrodynamic gene therapy of liver segments in the pig and human. Cancer Gene Ther 15(4):225ā230
Yin H, Kanasty RL, Eltoukhy AA, Vegas AJ, Dorkin JR, Anderson DG (2014) Non-viral vectors for gene-based therapy. Nat Rev Genet 15(8):541ā555
Wang H-X, Song Z, Lao Y-H, Xu X, Gong J, Cheng D, Chakraborty S, Park JS, Li M, Huang D, Yin L, Cheng J, Leong KW (2018) Nonviral gene editing via CRISPR/Cas9 delivery by membrane-disruptive and endosomolytic helical polypeptide. Proc Natl Acad Sci 115(19):4903ā4908
Sokolova V, Epple M (2008) Inorganic nanoparticles as carriers of nucleic acids into cells. Angew Chem Int Ed 47(8):1382ā1395
Li W, Szoka FC (2007) Lipid-based nanoparticles for nucleic acid delivery. Pharm Res 24(3):438ā449
Mintzer MA, Simanek EE (2008) Nonviral vectors for gene delivery. Chem Rev 109(2):259ā302
Pack DW, Hoffman AS, Pun S, Stayton PS (2005) Design and development of polymers for gene delivery. Nat Rev Drug Discov 4(7):581ā593
Lee CC, MacKay JA, FrĆ©chet JMJ, Szoka FC (2005) Designing dendrimers for biological applications. Nat Biotechnol 23(12):1517ā1526
Thomas M, Klibanov AM (2003) Non-viral gene therapy: polycation-mediated DNA delivery. Appl Microbiol Biotechnol 62(1):27ā34
Yang Q, Fang J, Lei Z, Sluijter JPG, Schiffelers R (2020) Repairing the heart: State-of the art delivery strategies for biological therapeutics. Adv Drug Deliv Rev 160:1ā18
Sun W, Ji W, Hall JM, Hu Q, Wang C, Beisel CL, Gu Z (2015) Self-assembled DNA nanoclews for the efficient delivery of CRISPRāCas9 for genome editing. Angew Chem 127(41):12197ā12201
Wang M, Zuris JA, Meng F, Rees H, Sun S, Deng P, Han Y, Gao X, Pouli D, Wu Q, Georgakoudi I, Liu DR, Xu Q (2016) Efficient delivery of genome-editing proteins using bioreducible lipid nanoparticles. Proc Natl Acad Sci 113(11):2868ā2873
Montagna C, Petris G, Casini A, Maule G, Franceschini GM, Zanella I, Conti L, Arnoldi F, Burrone OR, Zentilin L (2018) VSV-G-enveloped vesicles for traceless delivery of CRISPR-Cas9. Mol Ther Nucl Acids 12:453ā462
Campbell LA, Coke LM, Richie CT, Fortuno LV, Park AY, Harvey BK (2018) Gesicle-mediated delivery of CRISPR/Cas9 ribonucleoprotein complex for inactivating the HIV provirus. Mol Ther 27(1):1ā13
Mout R, Ray M, Yesilbag Tonga G, Lee Y-W, Tay T, Sasaki K, Rotello VM (2017) Direct cytosolic delivery of CRISPR/Cas9-ribonucleoprotein for efficient gene editing. ACS Nano 11(3):2452ā2458
DāAstolfo DS, Pagliero RJ, Pras A, Karthaus WR, Clevers H, Prasad V, Lebbink RJ, Rehmann H, Geijsen N (2015) Efficient intracellular delivery of native proteins. Cell 161(3):674ā690
Wilbie D, Walther J, Mastrobattista E (2019) Delivery aspects of CRISPR/Cas for in vivo genome editing. Acc Chem Res 52(6):1555ā1564
Axford DS, Morris DP, McMurry JL (2017) Cell penetrating peptide-mediated nuclear delivery of Cas9 to enhance the utility of CRISPR/Cas genome editing. FASEB J 31:909ā904
Tsai SQ, Joung JK (2016) Defining and improving the genome-wide specificities of CRISPRāCas9 nucleases. Nat Rev Genet 17(5):300ā312
Fu Y, Sander JD, Reyon D, Cascio VM, Joung JK (2014) Improving CRISPR-Cas nuclease specificity using truncated guide RNAs. Nat Biotechnol 32(3):279ā284
Liang X, Potter J, Kumar S, Ravinder N, Chesnut JD (2017) Enhanced CRISPR/Cas9-mediated precise genome editing by improved design and delivery of gRNA, Cas9 nuclease, and donor DNA. J Biotechnol 241:136ā146
Yan WX, Mirzazadeh R, Garnerone S, Scott D, Schneider MW, Kallas T, Custodio J, Wernersson E, Li Y, Gao L, Federova Y, Zetsche B, Zhang F, Bienko M, Crosetto N (2017) BLISS is a versatile and quantitative method for genome-wide profiling of DNA double-strand breaks. Nat Commun 8(1):1ā9
Hu J, Meyers RM, Dong J, Panchakshari RA, Alt FW, Frock RL (2016) Detecting DNA double-stranded breaks in mammalian genomes by linear amplification-mediated high-throughput genome-wide translocation sequencing. Nat Protoc 11(5):853
Tsai SQ, Zheng Z, Nguyen NT, Liebers M, Topkar VV, Thapar V, Wyvekens N, Khayter C, Iafrate AJ, Le LP, Aryee MJ, Joung JK (2015) GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases. Nat Biotechnol 33(2):187ā197
Kim D, Kim J-S (2018) DIG-seq: a genome-wide CRISPR off-target profiling method using chromatin DNA. Genome Res 28(12):1894ā1900
Scott DA, Zhang F (2017) Implications of human genetic variation in CRISPR-based therapeutic genome editing. Nat Med 23(9):1095
Hossain MA (2021) CRISPR-Cas9: a fascinating journey from bacterial immune system to human gene editing. Prog Mol Biol Transl Sci 178:63ā83
Richardson CD, Ray GJ, DeWitt MA, Curie GL, Corn JE (2016) Enhancing homology-directed genome editing by catalytically active and inactive CRISPR-Cas9 using asymmetric donor DNA. Nat Biotechnol 34(3):339ā344
Chu VT, Weber T, Wefers B, Wurst W, Sander S, Rajewsky K, KĆ¼hn R (2015) Increasing the efficiency of homology-directed repair for CRISPR-Cas9-induced precise gene editing in mammalian cells. Nat Biotechnol 33(3):543ā548
Mehta A, Merkel OM (2020) Immunogenicity of Cas9 protein. J Pharm Sci 109(1):62ā67
Wagner DL, Amini L, Wendering DJ, Burkhardt LM, AkyĆ¼z L, Reinke P, Volk HD, Schmueck-Henneresse M (2019) High prevalence of Streptococcus pyogenes Cas9-reactive T cells within the adult human population. Nat Med 25(2):242ā248
Crudele JM, Chamberlain JS (2018) Cas9 immunity creates challenges for CRISPR gene editing therapies. Nat Commun 9(1):1ā3
Simhadri VL, McGill J, McMahon S, Wang J, Jiang H, Sauna ZE (2018) Prevalence of pre-existing antibodies to CRISPR-associated nuclease Cas9 in the USA population. Mol Ther Methods Clin Dev 10:105ā112
Charlesworth CT, Deshpande PS, Dever DP, Camarena J, Lemgart VT, Cromer MK, Vakulskas CA, Collingwood MA, Zhang L, Bode NM, Behlke MA, Dejene B, Cieniewicz B, Romano R, Lesch BJ, Gomez-Ospina N, Mantri S, Pavel-Dinu M, Weinberg KI, Porteus MH (2019) Identification of preexisting adaptive immunity to Cas9 proteins in humans. Nat Med 25(2):249ā254
Tay LS, Palmer N, Panwala R, Chew WL, Mali P (2020) Translating CRISPR-Cas therapeutics: approaches and challenges. CRISPR J 3(4):253ā275
Moreno AM, Palmer N, AlemĆ”n F, Chen G, Pla A, Jiang N, Leong Chew W, Law M, Mali P (2019) Immune-orthogonal orthologues of AAV capsids and of Cas9 circumvent the immune response to the administration of gene therapy. Nat Biomed Eng 3(10):806ā816
Li A, Tanner MR, Lee CM, Hurley AE, De Giorgi M, Jarrett KE, Davis TH, Doerfler AM, Bao G, Beeton C, Lagor WR (2020) AAV-CRISPR gene editing is negated by pre-existing immunity to Cas9. Mol Ther 28(6):1432ā1441
Ferdosi SR, Ewaisha R, Moghadam F, Krishna S, Park JG, Ebrahimkhani MR, Kiani S, Anderson KS (2019) Multifunctional CRISPR-Cas9 with engineered immunosilenced human T cell epitopes. Nat Commun 10(1):1ā10
Moretti A, Fonteyne L, Giesert F, Hoppmann P, Meier AB, Bozoglu T, Baehr A, Schneider CM, Sinnecker D, Klett K, Frƶhlich T, Rahman FA, Haufe T, Sun S, Jurisch V, Kessler B, Hinkel R, Dirschinger R, Martens E, Jilek C, Graf A, Krebs S, Santamaria G, Kurome M, Zakhartchenko V, Campbell B, Voelse K, Wolf A, Ziegler T, Reichert S, Lee S, Flenkenthaler F, Dorn T, Jeremias I, Blum H, Dendorfer A, Schnieke A, Krause S, Walter MC, Klymiuk N, Laugwitz KL, Wolf E, Wurst W, Kupatt C (2020) Somatic gene editing ameliorates skeletal and cardiac muscle failure in pig and human models of Duchenne muscular dystrophy. Nat Med 26(2):207ā214
McGreevy JW, Hakim CH, McIntosh MA, Duan D (2015) Animal models of Duchenne muscular dystrophy: from basic mechanisms to gene therapy. Dis Model Mech 8(3):195ā213
Sharma G, Sharma AR, Bhattacharya M, Lee S-S, Chakraborty C (2021) CRISPR-Cas9: a preclinical and clinical perspective for the treatment of human diseases. Mol Ther 29:571ā586
Gregory-Evans K, Emran Bashar A, Tan M (2012) Ex vivo gene therapy and vision. Curr Gene Ther 12(2):103ā115
Ji J, Ng SH, Sharma V, Neculai D, Hussein S, Sam M, Trinh Q, Church GM, Mcpherson JD, Nagy A (2012) Elevated coding mutation rate during the reprogramming of human somatic cells into induced pluripotent stem cells. Stem Cells 30(3):435ā440
Gore A, Li Z, Fung H-L, Young JE, Agarwal S, Antosiewicz-Bourget J, Canto I, Giorgetti A, Israel MA, Kiskinis E (2011) Somatic coding mutations in human induced pluripotent stem cells. Nature 471(7336):63ā67
SaviÄ N, Schwank G (2016) Advances in therapeutic CRISPR/Cas9 genome editing. Transl Res 168:15ā21
Huch M, Gehart H, Van Boxtel R, Hamer K, Blokzijl F, Verstegen MMA, Ellis E, Van Wenum M, Fuchs SA, de Ligt J (2015) Long-term culture of genome-stable bipotent stem cells from adult human liver. Cell 160(2):299ā312
Hoban MD, Lumaquin D, Kuo CY, Romero Z, Long J, Ho M, Young CS, Mojadidi M, Fitz-Gibbon S, Cooper AR, Lill GR, Urbinati F, Campo-Fernandez B, Bjurstrom CF, Pellegrini M, Hollis RP, Kohn DB (2016) CRISPR/Cas9-mediated correction of the sickle mutation in human CD34+ cells. Mol Ther 24(9):1561ā1569
Depil S, Duchateau P, Grupp SA, Mufti G, Poirot L (2020) āOff-the-shelfā allogeneic CAR T cells: development and challenges. Nat Rev Drug Discov 19(3):185ā199
Lin S-R, Yang H-C, Kuo Y-T, Liu C-J, Yang T-Y, Sung K-C, Lin Y-Y, Wang H-Y, Wang C-C, Shen Y-C (2014) The CRISPR/Cas9 system facilitates clearance of the intrahepatic HBV templates in vivo. Mol Ther Nucl Acids 3:e186
Xu L, Yang H, Gao Y, Chen Z, Xie L, Liu Y, Liu Y, Wang X, Li H, Lai W (2017) CRISPR/Cas9-mediated CCR5 ablation in human hematopoietic stem/progenitor cells confers HIV-1 resistance in vivo. Mol Ther 25(8):1782ā1789
Hossain MA, Bungert J (2017) Genome editing for sickle cell disease: a little BCL11A goes a long way. Mol Ther 25(3):561ā562
Xu C-F, Chen G-J, Luo Y-L, Zhang Y, Zhao G, Lu Z-D, Czarna A, Gu Z, Wang J (2021) Rational designs of in vivo CRISPR-Cas delivery systems. Adv Drug Deliv Rev 168:3ā29
Lao Y, Li M, Gao MA, Shao D, Chi C, Huang D, Chakraborty S, Ho T, Jiang W, Wang H (2018) HPV oncogene manipulation using nonvirally delivered CRISPR/Cas9 or Natronobacterium gregoryi argonaute. Adv Sci 5(7):1700540
Ren C, Li X, Mao L, Xiong J, Gao C, Shen H, Wang L, Zhu D, Ding W, Wang H (2019) An effective and biocompatible polyethylenimine based vaginal suppository for gene delivery. Nanomedicine 20:101994
Nakamura M, Bodily JM, Beglin M, Kyo S, Inoue M, Laimins LA (2009) Hypoxia-specific stabilization of HIF-1alpha by human papillomaviruses. Virology 387(2):442ā448
German DM, Mitalipov S, Mishra A, Kaul S (2019) Therapeutic genome editing in cardiovascular diseases. JACC 4(1):122ā131
Lander ES, Baylis F, Zhang F, Charpentier E, Berg P, Bourgain C, Friedrich B, Joung JK, Li J, Liu D (2019) Adopt a moratorium on heritable genome editing. Nature 567(7747):165ā168
Acknowledgments
This work was supported by the Project EVICARE (No. 725229) of the European Research Council (ERC) to J.P.G.S, co-funded by the Project SMARTCARE-II of the BioMedicalMaterials institute to JPGS, the ZonMw-TAS program (No. 116002016) to J.P.G.S./Z.L., PPS grant (No. 2018B014) to J.P.G.S./P.V/Z.L, the Dutch Ministry of Economic Affairs, Agriculture and Innovation and the Netherlands CardioVascular Research Initiative (CVON): the Dutch Heart Foundation to J.P.G.S, Dutch Federations of University Medical Centers, the Netherlands Organization for Health Research and Development, and the Royal Netherlands Academy of Sciences. We thank Marieke Roefs for her comments and suggestions to improve this review. The figures were created with BioRender.com.
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Ilahibaks, N.F., Hulsbos, M.J., Lei, Z., Vader, P., Sluijter, J.P.G. (2023). Enabling Precision Medicine with CRISPR-Cas Genome Editing Technology: A Translational Perspective. In: Xiao, J. (eds) Genome Editing in Cardiovascular and Metabolic Diseases. Advances in Experimental Medicine and Biology, vol 1396. Springer, Singapore. https://doi.org/10.1007/978-981-19-5642-3_20
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