Genomic allele-specific base editing with imperfect gRNA

Xuxu Chen; Dongdong Zhao; Xueting Hou; Ju Li; Shiming Pu; Jidong Fei; Siwei Li; Zuping Zhou; Changhao Bi; Xueli Zhang

doi:10.1016/j.jgg.2023.05.010

Genomic allele-specific base editing with imperfect gRNA

doi: 10.1016/j.jgg.2023.05.010

Xuxu Chen^1,2,3,4,
Dongdong Zhao^5,6,7,
Xueting Hou^8,9,10,11,
Ju Li¹²,
Shiming Pu^13,14,
Jidong Fei^15,16,17,
Siwei Li^15,16,17,
Zuping Zhou^18,19, ,,
Changhao Bi^20,21,22, ,,
Xueli Zhang^20,21,22, ,

1. School of Life Sciences, Guangxi Normal University, Guilin, Guangxi 541006, China;
2. Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
3. National Technology Innovation Center of Synthetic Biology, Tianjin 300308, China;
4. Key Laboratory of Systems Microbial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
5. Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
6. National Technology Innovation Center of Synthetic Biology, Tianjin 300308, China;
7. Key Laboratory of Systems Microbial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
8. School of Life Sciences, Guangxi Normal University, Guilin, Guangxi 541006, China;
9. Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
10. National Technology Innovation Center of Synthetic Biology, Tianjin 300308, China;
11. Hubei College of Chinese Medicine, JingZhou, Hubei 434020, China;
12. College of Life Science, Tianjin Normal University, Tianjin 300387, China;
13. School of Life Sciences, Guangxi Normal University, Guilin, Guangxi 541006, China;
14. Guangxi Universities Key Laboratory of Stem Cell and Biopharmaceutical Technology, Guangxi Normal University, Guilin, Guangxi 541006, China;
15. Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
16. National Technology Innovation Center of Synthetic Biology, Tianjin 300308, China;
17. Key Laboratory of Systems Microbial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
18. School of Life Sciences, Guangxi Normal University, Guilin, Guangxi 541006, China;
19. Guangxi Universities Key Laboratory of Stem Cell and Biopharmaceutical Technology, Guangxi Normal University, Guilin, Guangxi 541006, China;
20. Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
21. National Technology Innovation Center of Synthetic Biology, Tianjin 300308, China;
22. Key Laboratory of Systems Microbial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China

基金项目:

This work was financially supported by the National Key Research and Development Program of China (2018YFA0904900), the National Natural Science Foundation of China (32225031, 32171449, 81903776), the Tianjin Synthetic Biotechnology Innovation Capacity Improvement Project (TSBICIP-KJGG-017), the Tianjin Natural Science Foundation (20JCYBJC00310), and the Youth Innovation Promotion Association CAS (2022177).

详细信息

通讯作者:
Zuping Zhou,E-mail:192455010@qq.com

Changhao Bi,E-mail:bi_ch@tib.cas.cn

Xueli Zhang,E-mail:zhang_xl@tib.cas.cn

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- 文章访问数: 117
- HTML全文浏览量: 44
- PDF下载量: 11
- 被引次数: 0
出版历程
- 收稿日期: 2023-02-14
- 录用日期: 2023-05-22
- 修回日期: 2023-05-19
- 刊出日期: 2023-06-01

Genomic allele-specific base editing with imperfect gRNA

Xuxu Chen^1,2,3,4,
Dongdong Zhao^5,6,7,
Xueting Hou^8,9,10,11,
Ju Li¹²,
Shiming Pu^13,14,
Jidong Fei^15,16,17,
Siwei Li^15,16,17,
Zuping Zhou^{18,19
, ,},
Changhao Bi^{20,21,22
, ,},
Xueli Zhang^{20,21,22
, ,}

1. School of Life Sciences, Guangxi Normal University, Guilin, Guangxi 541006, China;
2. Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
3. National Technology Innovation Center of Synthetic Biology, Tianjin 300308, China;
4. Key Laboratory of Systems Microbial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
5. Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
6. National Technology Innovation Center of Synthetic Biology, Tianjin 300308, China;
7. Key Laboratory of Systems Microbial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
8. School of Life Sciences, Guangxi Normal University, Guilin, Guangxi 541006, China;
9. Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
10. National Technology Innovation Center of Synthetic Biology, Tianjin 300308, China;
11. Hubei College of Chinese Medicine, JingZhou, Hubei 434020, China;
12. College of Life Science, Tianjin Normal University, Tianjin 300387, China;
13. School of Life Sciences, Guangxi Normal University, Guilin, Guangxi 541006, China;
14. Guangxi Universities Key Laboratory of Stem Cell and Biopharmaceutical Technology, Guangxi Normal University, Guilin, Guangxi 541006, China;
15. Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
16. National Technology Innovation Center of Synthetic Biology, Tianjin 300308, China;
17. Key Laboratory of Systems Microbial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
18. School of Life Sciences, Guangxi Normal University, Guilin, Guangxi 541006, China;
19. Guangxi Universities Key Laboratory of Stem Cell and Biopharmaceutical Technology, Guangxi Normal University, Guilin, Guangxi 541006, China;
20. Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China;
21. National Technology Innovation Center of Synthetic Biology, Tianjin 300308, China;
22. Key Laboratory of Systems Microbial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China

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参考文献(17)

Anzalone, A.V., Koblan, L.W.,Liu, D.R., 2020. Genome editing with CRISPR-Cas nucleases, base editors, transposases and prime editors. Nat. Biotechnol. 38, 824-844.

Anzalone, A.V., Randolph, P.B., Davis, J.R., Sousa, A.A., Koblan, L.W., Levy, J.M., Chen, P.J., Wilson, C., Newby, G.A., Raguram, A., et al., 2019. Search-and-replace genome editing without double-strand breaks or donor DNA. Nature 576, 149-157.

Bae, S., Park, J.,Kim, J.S., 2014. Cas-OFFinder: a fast and versatile algorithm that searches for potential off-target sites of Cas9 RNA-guided endonucleases. Bioinformatics 30, 1473-1475.

Chen, L., Zhang, S., Xue, N., Hong, M., Zhang, X., Zhang, D., Yang, J., Bai, S., Huang, Y., Meng, H., et al., 2022. Engineering a precise adenine base editor with minimal bystander editing. Nat. Chem. Biol. 19, 101-110.

Gaudelli, N.M., Komor, A.C., Rees, H.A., Packer, M.S., Badran, A.H., Bryson, D.I.,Liu, D.R., 2017. Programmable base editing of A·T to G·C in genomic DNA without DNA cleavage. Nature 551, 464-471.

Huang, T.P., Zhao, K.T., Miller, S.M., Gaudelli, N.M., Oakes, B.L., Fellmann, C., Savage, D.F.,Liu, D.R., 2019. Circularly permuted and pam-modified Cas9 variants broaden the targeting scope of base editors. Nat. Biotechnol. 37, 626-631.

Jones, S.K., Hawkins, J.A., Johnson, N.V., Jung, C., Hu, K., Rybarski, J.R., Chen, J.S., Doudna, J.A., Press, W.H.,Finkelstein, I.J., 2020. Massively parallel kinetic profiling of natural and engineered CRISPR nucleases. Nat. Biotechnol. 39, 84-93.

Kim, Y.B., Komor, A.C., Levy, J.M., Packer, M.S., Zhao, K.T.,Liu, D.R., 2017. Increasing the genome-targeting scope and precision of base editing with engineered Cas9-cytidine deaminase fusions. Nat. Biotechnol. 35, 371-376.

Komor, A.C., Kim, Y.B., Packer, M.S., Zuris, J.A.,Liu, D.R., 2016. Programmable editing of a target base in genomic DNA without double-stranded DNA cleavage. Nature 533, 420-424.

Kurt, I.C., Zhou, R., Iyer, S., Garcia, S.P., Miller, B.R., Langner, L.M., Grunewald, J.,Joung, J.K., 2021. CRISPR C-to-G base editors for inducing targeted DNA transversions in human cells. Nat. Biotechnol. 39, 41-46.

Nishida, K., Arazoe, T., Yachie, N., Banno, S., Kakimoto, M., Tabata, M., Mochizuki, M., Miyabe, A., Araki, M., Hara, K.Y., et al., 2016. Targeted nucleotide editing using hybrid prokaryotic and vertebrate adaptive immune systems. Science 353, aaf8729.

Porto, E.M., Komor, A.C., Slaymaker, I.M.,Yeo, G.W., 2020. Base editing: advances and therapeutic opportunities. Nat. Rev. Drug Discov. 19, 839-859.

Rabinowitz, R.,Offen, D., 2021. Single-base resolution: increasing the specificity of the CRISPR-Cas system in gene editing. Mol. Ther. 29, 937-948.

Sun, W.,Wang, Y., 2022. Superfi-Cas9: high fidelity meets high activity. CRISPR J. 5, 171-173.

Wu, Y., Liang, D., Wang, Y., Bai, M., Tang, W., Bao, S., Yan, Z., Li, D.,Li, J., 2013. Correction of a genetic disease in mouse via use of CRISPR-Cas9. Cell Stem Cell 13, 659-662.

Zhao, D., Jiang, G., Li, J., Chen, X., Li, S., Wang, J., Zhou, Z., Pu, S., Dai, Z., Ma, Y., et al., 2022. Imperfect guide-RNA (igRNA) enables CRISPR single-base editing with ABE and CBE. Nucleic Acids Res. 50, 4161-4170.

Zhao, D., Li, J., Li, S., Xin, X., Hu, M., Price, M.A., Rosser, S.J., Bi, C.,Zhang, X., 2021. Glycosylase base editors enable C-to-A and C-to-G base changes. Nat. Biotechnol. 39, 35-40.

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