Kaminski, M. M., Abudayyeh, O. O., Gootenberg, J. S., Zhang, F. & Collins, J. J. CRISPR-based diagnostics. Nat. Biomed. Eng. 5, 643–656 (2021).
Article CAS PubMed Google Scholar
Larson, M. H. et al. CRISPR interference (CRISPRi) for sequence-specific control of gene expression. Nat. Protoc. 8, 2180–2196 (2013).
Article CAS PubMed PubMed Central Google Scholar
Gootenberg, J. S. et al. Nucleic acid detection with CRISPR–Cas13a/C2c2. Science 356, 438–442 (2017).
Article CAS PubMed PubMed Central Google Scholar
Hsu, P. D., Lander, E. S. & Zhang, F. Development and applications of CRISPR–Cas9 for genome engineering. Cell 157, 1262–1278 (2014).
Article CAS PubMed PubMed Central Google Scholar
Kellner, M. J., Koob, J. G., Gootenberg, J. S., Abudayyeh, O. O. & Zhang, F. SHERLOCK: nucleic acid detection with CRISPR nucleases. Nat. Protoc. 14, 2986–3012 (2019).
Article CAS PubMed PubMed Central Google Scholar
Zheng, Y. et al. CRISPR interference-based specific and efficient gene inactivation in the brain. Nat. Neurosci. 21, 447–454 (2018).
Article CAS PubMed Google Scholar
Guilinger, J. P., Thompson, D. B. & Liu, D. R. Fusion of catalytically inactive Cas9 to FokI nuclease improves the specificity of genome modification. Nat. Biotechnol. 32, 577–582 (2014).
Article CAS PubMed PubMed Central Google Scholar
Chen, B. H. et al. Dynamic imaging of genomic loci in living human cells by an optimized CRISPR/Cas system. Cell 155, 1479–1491 (2013).
Article CAS PubMed PubMed Central Google Scholar
Deng, W. L., Shi, X. H., Tjian, R., Lionnet, T. & Singer, R. H. CASFISH: CRISPR/Cas9-mediated in situ labeling of genomic loci in fixed cells. Proc. Natl Acad. Sci. USA 112, 11870–11875 (2015).
Article CAS PubMed PubMed Central Google Scholar
Fu, Y. et al. High-frequency off-target mutagenesis induced by CRISPR–Cas nucleases in human cells. Nat. Biotechnol. 31, 822–826 (2013).
Article CAS PubMed PubMed Central Google Scholar
Zhu, Z. et al. PAM-free loop-mediated isothermal amplification coupled with CRISPR/Cas12a cleavage (Cas-PfLAMP) for rapid detection of rice pathogens. Biosens. Bioelectron. 204, 114076 (2022).
Article CAS PubMed Google Scholar
Mitsis, P. G. & Kwagh, J. G. Characterization of the interaction of lambda exonuclease with the ends of DNA. Nucleic Acids Res. 27, 3057–3063 (1999).
Article CAS PubMed PubMed Central Google Scholar
Zhang, J., McCabe, K. A. & Bell, C. E. Crystal structures of λ exonuclease in complex with DNA suggest an electrostatic ratchet mechanism for processivity. Proc. Natl Acad. Sci. USA 108, 11872–11877 (2011).
Article CAS PubMed PubMed Central Google Scholar
Pan, X. et al. A structure–activity analysis for probing the mechanism of processive double-stranded DNA digestion by λ exonuclease trimers. Biochemistry 54, 6139–6148 (2015).
Article CAS PubMed Google Scholar
Tian, J. et al. dsDNA/ssDNA-switchable isothermal colorimetric biosensor based on a universal primer and λ exonuclease. Sens. Actuators B Chem. 323, 128674 (2020).
Liu, L., Lei, J., Gao, F. & Ju, H. A DNA machine for sensitive and homogeneous DNA detection via λ exonuclease assisted amplification. Talanta 115, 819–822 (2013).
Article CAS PubMed Google Scholar
Yu, Y. et al. Digestion of dynamic substrate by exonuclease reveals high single-mismatch selectivity. Anal. Chem. 90, 13655–13662 (2018).
Article CAS PubMed Google Scholar
Roy, R., Hohng, S. & Ha, T. A practical guide to single-molecule FRET. Nat. Methods 5, 507–516 (2008).
Article CAS PubMed PubMed Central Google Scholar
Hohlbein, J., Craggs, T. D. & Cordes, T. Alternating-laser excitation: single-molecule FRET and beyond. Chem. Soc. Rev. 43, 1156–1171 (2014).
Article CAS PubMed Google Scholar
Sustarsic, M. & Kapanidis, A. N. Taking the ruler to the jungle: single-molecule FRET for understanding biomolecular structure and dynamics in live cells. Curr. Opin. Struct. Biol. 34, 52–59 (2015).
Article CAS PubMed Google Scholar
Wu, T. et al. Noncanonical substrate preference of λ exonuclease for 5′-nonphosphate-ended dsDNA and a mismatch-induced acceleration effect on the enzymatic reaction. Nucleic Acids Res. 46, 3119–3129 (2018).
Article CAS PubMed PubMed Central Google Scholar
Wu, T. et al. DNA terminal structure-mediated enzymatic reaction for ultra-sensitive discrimination of single nucleotide variations in circulating cell-free DNA. Nucleic Acids Res. 46, e24 (2018).
Article CAS PubMed Google Scholar
Zhang, J. J., McCabe, K. A. & Bell, C. E. Crystal structures of λ exonuclease in complex with DNA suggest an electrostatic ratchet mechanism for processivity. Proc. Natl Acad. Sci. USA 108, 11872–11877 (2011).
Article CAS PubMed PubMed Central Google Scholar
Zhang, J., Pan, X. & Bell, C. E. Crystal structure of λ exonuclease in complex with DNA and Ca2+. Biochemistry 53, 7415–7425 (2014).
Article CAS PubMed Google Scholar
Singh, D. et al. Mechanisms of improved specificity of engineered Cas9s revealed by single-molecule FRET analysis. Nat. Struct. Mol. Biol. 25, 347–354 (2018).
Article CAS PubMed PubMed Central Google Scholar
Cromwell, C. R. et al. Incorporation of bridged nucleic acids into CRISPR RNAs improves Cas9 endonuclease specificity. Nat. Commun. 9, 1448 (2018).
Article PubMed PubMed Central Google Scholar
Kim, Y.-M., Choi, K. H., Jang, Y.-J., Yu, J. & Jeong, S. Specific modulation of the anti-DNA autoantibody–nucleic acids interaction by the high affinity RNA aptamer. Biochem. Biophys. Res. Commun. 300, 516–523 (2003).
Article CAS PubMed Google Scholar
Machinek, R. R., Ouldridge, T. E., Haley, N. E., Bath, J. & Turberfield, A. J. Programmable energy landscapes for kinetic control of DNA strand displacement. Nat. Commun. 5, 5324 (2014).
Article CAS PubMed Google Scholar
Monis, P. T. & Giglio, S. Nucleic acid amplification-based techniques for pathogen detection and identification. Infect. Genet. Evol. 6, 2–12 (2006).
Article CAS PubMed Google Scholar
Nouri, R. et al. CRISPR-based detection of SARS-CoV-2: a review from sample to result. Biosens. Bioelectron. 178, 11301
留言 (0)