Citation: Wei Zhang, Liquan Liu, Yangwei Liao, Wan Shu, Xiaofeng Tang, Kejun Dong, Zhihao Ming, Xianjin Xiao, Hongbo Wang. Thermodynamics-guided two-way interlocking DNA cascade system for universal multiplexed mutation detection[J]. Chinese Chemical Letters, ;2022, 33(1): 334-338. doi: 10.1016/j.cclet.2021.06.067 shu

Thermodynamics-guided two-way interlocking DNA cascade system for universal multiplexed mutation detection

Wei Zhang ^a ,
Liquan Liu ^b ,
Yangwei Liao ^b ,
Wan Shu ^a ,
Xiaofeng Tang ^b ,
Kejun Dong ^a ,
Zhihao Ming ^b ,
Xianjin Xiao ^{a, b, *,} ,
Hongbo Wang ^a

a.
Department of Obstetrics and Gynecology, Union Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan 430022, China
b.
Institute of Reproductive Health, Tongji Medical College, Huazhong University of Science and Technology, Wuhan 430030, China

xiaoxianjin@hust.edu.cn

Received Date: 26 March 2021
Revised Date: 30 May 2021
Accepted Date: 24 June 2021
Available Online: 2 July 2021

Figures(4)

Detection of point mutations in driver genes is of great significance for the early diagnosis, treatment, and prognostic evaluation of cancer. However, current detection methods do not offer versatility, specificity, and rapid performance simultaneously. Thus, multiple mutation detection processes are necessary, which results in long processing times and high costs. In this study, we developed a thermodynamics-guided two-way interlocking DNA cascade system for universal multiplexed mutation detection (TTI-CS). This strategy is based on the DNA probe, which changes the thermodynamic balance of the DNA cascade by the designed bubble structure, thereby achieving a good distinction between mutant and wild-type DNA. The designed method greatly shortens the detection time through two-way intrusion. In addition, this method only changes two inexpensive trigger and bridge sequences, which replace the specific and expensive nucleic acid probes used in analyses based on traditional DNA probe methods, thereby enabling multiple detections. We performed the detection of synthetic single-stranded DNA for the five mutation points and successfully detected in endometrial cancer specimens. The detection limit of this method is 0.1%, which better meets the needs of clinical low-abundance multiple mutation detection. Overall, TTI-CS is currently one of the best methods for detecting multiple mutation detections.
- Nucleic acid probes,
- DNA cascade system,
- Universality,
- Low-abundance,
- Multiple mutation detection
1. [1]
  Y.S. Chun, G. Passot, S. Yamashita, et al., Ann Surg. 269 (2019) 917–923. doi: 10.1097/sla.0000000000002450
2. [2]
  W. Zhang, Z. Ming, N. Chen, et al., Nanoscale12 (2020) 20449–20455. doi: 10.1039/d0nr04691d
3. [3]
  M.T. Chang, S. Asthana, S.P. Gao, et al., Nat. Biotechnol. 34 (2016) 155–163. doi: 10.1038/nbt.3391
4. [4]
  A. Letai, Nat. Med. 23 (2016) 1028–1035.
5. [5]
  X. Li, M. Ye, W. Zhang, et al., Biosens. Bioelectron. 126 (2016) 596–607. doi: 10.1177/0003122416641371
6. [6]
  S.P. Shah, R.D. Morin, J. Khattra, et al., Nature61 (2009) 809–813. doi: 10.1038/nature08489
7. [7]
  K. Han, T.Y. Lee, D.E. Nikitopoulos, S.A. Soper and M.C. Murphy, Anal. Biochem. 417 (2011) 211–219. doi: 10.1016/j.ab.2011.06.030
8. [8]
  S. Dall'Ozzo, C. Andres, P. Bardos, H. Watier, G. Thibault, J. Immunol. Methods277 (2003) 185–192. doi: 10.1016/S0022-1759(03)00123-6
9. [9]
  B.J. Hindson, K.D. Ness, D.A. Masquelier, et al., Anal. Chem. 83 (2011) 8604–8610. doi: 10.1021/ac202028g
10. [10]
  H. Chen, J. Zhang, H.Y. Chen, B. Su, D. Lu, Ann. Transl. Med. 8 (2020) 1509. doi: 10.21037/atm-20-6754
11. [11]
  Q. Wang, D.P. Kontoyiannis, R. Li, et al., J. Clin. Microbiol. 57 (2019) e00604–e00619.
12. [12]
  S. Galbiati, A. Monguzzi, F. Damin, et al., J. Med. Genet. 53 (2016) 481–487. doi: 10.1136/jmedgenet-2015-103229
13. [13]
  J. Li, L. Wang, H. Mamon, et al., Nat. Med. 14 (2008) 579–584. doi: 10.1038/nm1708
14. [14]
  S.W. Tan, A. Ideris, A.R. Omar, K. Yusoff, M. Hair-Bejo, J. Virol. Methods160 (2009) 149–156. doi: 10.1016/j.jviromet.2009.05.006
15. [15]
  X. Xiao, A. Xu, J. Zhai, M. Zhao, Methods64 (2013) 255–259. doi: 10.1016/j.ymeth.2013.06.031
16. [16]
  J.M. Heather, B. Chain, Genomics107 (2016) 1–8. doi: 10.1016/j.ygeno.2015.11.003
17. [17]
  S. Ardui, A. Ameur, J.R. Vermeesch, M.S. Hestand, Nucleic Acids Res. 46 (2018) 2159–2168. doi: 10.1093/nar/gky066
18. [18]
  M.A. Ihle, J. Fassunke, K. Konig, et al., BMC Cancer14 (2014) 13. doi: 10.1186/1471-2407-14-13
19. [19]
  D.X. Wang, J. Wang, Y.X. Cui, et al., Anal. Chem. 91 (2019) 13165–13173. doi: 10.1021/acs.analchem.9b03453
20. [20]
  Q. Wang, L. Chen, Y. Long, H. Tian, J. Wu, Theranostics 3 (2013) 395–408. doi: 10.7150/thno.5935
21. [21]
  H. Xu, W. Deng, F. Huang, et al., Chem. Commun. 50 (2014) 14171–14174. doi: 10.1039/C4CC07272C
22. [22]
  X. Chen, N. Liu, L. Liu, et al., Nat. Commun. 10 (2019) 4675. doi: 10.1038/s41467-019-12593-9
23. [23]
  C.Y. Lee, H. Jang, H. Kim, et al., Mikrochim. Acta186 (2019) 330. doi: 10.1109/icecs46596.2019.8964682
24. [24]
  X. Tang, N. Chen, R. Liu, et al., Anal. Chim. Acta 134 (2020) 28–33.
25. [25]
  X. Weng, X. Xu, P. Huang, et al., Anal. Sci. 36 (2020) 697–702. doi: 10.2116/analsci.19p422
26. [26]
  M.T. Chang, S. Asthana, S.P. Gao, et al., Nat. Biotechnol. 34 (2016) 155–63. doi: 10.1038/nbt.3391
27. [27]
  N. Liu, X. Zhang, X. Tang, et al., Chem. Commun. 56 (2020) 14397–14400. doi: 10.1039/d0cc06216b
28. [28]
  H.L. Hondow, S.B. Fox, G. Mitchell, et al., BMC Cancer265 (2011) 1471–2407.
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2. [2]
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12. [12]
  Huakang Zong , Xinyue Li , Yanlin Zhang , Faxun Wang , Xingxing Yu , Guotao Duan , Yuanyuan Luo . Pt/Ti₃C₂ electrode material used for H₂S sensor with low detection limit and high stability. Chinese Chemical Letters, 2025, 36(5): 110195-. doi: 10.1016/j.cclet.2024.110195
13. [13]
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15. [15]
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16. [16]
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17. [17]
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19. [19]
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