Citation: Lie Li, Jie Wang, Huishan Jiang, Xiaohong Wen, Mei Yang, Suping Li, Qiuping Guo, Kemin Wang. DNA tetrahedron-based split aptamer probes for reliable imaging of ATP in living cells[J]. Chinese Chemical Letters, ;2023, 34(3): 107506. doi: 10.1016/j.cclet.2022.05.020 shu

DNA tetrahedron-based split aptamer probes for reliable imaging of ATP in living cells

State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Hunan University, State Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province, Changsha 410082, China

guoqping@hnu.edu.cn

kmwang@hnu.edu.cn

Received Date: 28 January 2022
Revised Date: 20 April 2022
Accepted Date: 9 May 2022
Available Online: 13 May 2022

Figures(6)

Accurate detection and imaging of adenosine triphosphate (ATP) expression levels in living cells is of great value for understanding cell metabolism, physiological activities, and pathologic mechanisms. Here, we developed a DNA tetrahedron-based split aptamer probe (TD probe) for ratiometric fluorescence imaging of ATP in living cells. The TD probe is constructed by hybridizing two split ATP aptamer probes (Apt-a and Apt-b) to a DNA tetrahedron assembled by four DNA oligonucleotides (T1, T2, T3 and T4). In the presence of ATP, the TD probe will alter its structure from the open to closed state, thus bringing the separated donor and acceptor fluorophores into close proximity for high fluorescence resonance energy transfer (FRET) signals. The TD probe exhibits low cytotoxicity, efficient cell internalization and good biological stability. Moreover, based on the FRET "off" to "on" signal output mode, the TD probe can effectively avoid false-positive signals from complex biological matrices, which is significant for long-term reliable imaging in living cells. In addition, by changing the split aptamers attached to DNA tetrahedron, the proposed strategy may be extended for detecting various intracellular targets. Collectively, this strategy provides a valuable sensing platform for biomarkers analysis in living cells, thus having great potential for early clinical diagnosis and therapeutic evaluation.
- Adenosine triphosphate,
- DNA tetrahedron,
- Split aptamer,
- Fluorescence resonance energy transfer,
- Living cell imaging
1. [1]
  S. Biswas, K. Kinbara, T. Niwa, et al., Nat. Chem. 5 (2013) 613–620. doi: 10.1038/nchem.1681
2. [2]
  L. Lu, B. Li, S. Ding, et al., Nat. Commun. 11 (2020) 4192–4203. doi: 10.1038/s41467-020-18051-1
3. [3]
  Y. Zhou, L. Zou, G. Li, et al., Anal. Chem. 93 (2021) 13960–13966. doi: 10.1021/acs.analchem.1c03284
4. [4]
  A.V. Gourine, E. Llaudet, N. Dale, et al., Nature 436 (2005) 108–111. doi: 10.1038/nature03690
5. [5]
  B.S. Khakh, R.A. North, Nature 442 (2006) 527–532. doi: 10.1038/nature04886
6. [6]
  Z. Duan, L. Tan, R. Duan, Anal. Chem. 93 (2021) 11547–11556. doi: 10.1021/acs.analchem.1c02049
7. [7]
  M.J. Gordon, X. Huang, S.L. Pentoney, et al., Science 242 (1988) 224–228. doi: 10.1126/science.242.4876.224
8. [8]
  C. Fu, L. Song, Y. Fang, Anal. Chim. Acta 399 (1999) 259–263. doi: 10.1016/S0003-2670(99)00466-3
9. [9]
  F. Özogul, K.D.A. Taylor, P.C. Quantick, et al., Int. J. Food Sci. 35 (2000) 549–554. doi: 10.1111/j.1365-2621.2000.00405.x
10. [10]
  H. Huang, Y. Tan, J. Shi, et al., Nanoscale 2 (2010) 606–612. doi: 10.1039/b9nr00393b
11. [11]
  J. Dong, M. Zhao, Trends Anal. Chem. 80 (2016) 190–203. doi: 10.1016/j.trac.2016.03.020
12. [12]
  Y. Zhou, L. Yang, J. Wei, et al., Anal. Chem. 91 (2019) 15229–15234. doi: 10.1021/acs.analchem.9b04126
13. [13]
  S. Ng, H.S. Lim, Q. Ma, et al., Theranostics 6 (2016) 1683–1702. doi: 10.7150/thno.15850
14. [14]
  Y.X. Wang, D.X. Wang, J.Y. Ma, et al., Analyst 146 (2021) 2600–2608. doi: 10.1039/D1AN00275A
15. [15]
  L.C. Bock, L.C. Griffin, J.A. Latham, et al., Nature 355 (1992) 564–566. doi: 10.1038/355564a0
16. [16]
  C.H.B. Chen, G.A. Chernis, V.Q. Hoang, et al., Proc. Natl. Acad. Sci. U. S. A. 100 (2003) 9226–9231. doi: 10.1073/pnas.1332660100
17. [17]
  N. Lin, L. Wu, X. Xu, et al., ACS Appl. Mater. Interfaces 13 (2021) 9306–9315. doi: 10.1021/acsami.0c11878
18. [18]
  L. Li, J. Wan, X. Wen, et al., Anal. Chem. 93 (2021) 7369–7377. doi: 10.1021/acs.analchem.1c01445
19. [19]
  X. Li, Y. Peng, Y. Chai, et al., Chem. Commun. 52 (2016) 3673–3676. doi: 10.1039/C6CC00110F
20. [20]
  X. Chai, Z. Fan, M.M. Yu, et al., Nano Lett. 21 (2021) 10047–10053. doi: 10.1021/acs.nanolett.1c03732
21. [21]
  C. Li, M. Numata, M. Takeuchi, et al., Angew. Chem. Int. Ed. 44 (2005) 6371–6374. doi: 10.1002/anie.200501823
22. [22]
  X. Zhang, C. Song, K. Yang, et al., Anal. Chem. 90 (2018) 4968–4971. doi: 10.1021/acs.analchem.7b05442
23. [23]
  X. Zuo, S. Song, J. Zhang, et al., J. Am. Chem. Soc. 129 (2007) 1042–1043. doi: 10.1021/ja067024b
24. [24]
  A.K. Chen, M.A. Behlke, A. Tsourkas, Nucleic Acids Res. 35 (2007) e105. doi: 10.1093/nar/gkm593
25. [25]
  L. He, D.Q. Lu, H. Liang, et al., ACS Nano 11 (2017) 4060–4066. doi: 10.1021/acsnano.7b00725
26. [26]
  F. Gao, J. Wu, Y. Yao, et al., RSC Adv. 8 (2018) 28161–28171. doi: 10.1039/C8RA05193C
27. [27]
  C.H. Zhang, H. Wang, J.W. Liu, et al., ACS Sens. 3 (2018) 2526–2531. doi: 10.1021/acssensors.8b00670
28. [28]
  L.Y. Duan, J.W. Liu, R.Q. Yu, et al., Biosens. Bioelectron. 177 (2021) 112976. doi: 10.1016/j.bios.2021.112976
29. [29]
  D. Zhu, Y. Wei, T. Sun, et al., Anal. Chem. 93 (2021) 2226–2234. doi: 10.1021/acs.analchem.0c04092
30. [30]
  C. Zhu, J. Yang, J. Zheng, et al., Anal. Chem. 91 (2019) 15599–15607. doi: 10.1021/acs.analchem.9b03659
31. [31]
  J. Deng, J. Xu, M. Ouyang, et al., Chin. Chem. Lett. 33 (2022) 773–777. doi: 10.1016/j.cclet.2021.08.046
32. [32]
  Z. Qing, J. Xu, J. Hu, et al., Angew. Chem. Int. Ed. 58 (2019) 11574–11585. doi: 10.1002/anie.201812449
33. [33]
  Z. Zhou, Y.S. Sohn, R. Nechushtai, et al., ACS Nano 14 (2020) 9021–9031. doi: 10.1021/acsnano.0c04031
34. [34]
  Z. Qing, J. Hu, J. Xu, et al., Chem. Sci. 11 (2020) 1985–1990. doi: 10.1039/C9SC04916A
35. [35]
  L. Meng, W. Ma, S. Lin, et al., ACS Appl. Mater. Interfaces 11 (2019) 6850–6857. doi: 10.1021/acsami.8b22444
36. [36]
  A.S. Walsh, H. Yin, C.M. Erben, et al., ACS Nano 5 (2011) 5427–5432. doi: 10.1021/nn2005574
37. [37]
  L. Liang, J. Li, Q. Li, et al., Angew. Chem. Int. Ed. 53 (2014) 7745–7750. doi: 10.1002/anie.201403236
38. [38]
  J. Wang, D.X. Wang, J.Y. Ma, et al., Chem. Sci. 10 (2019) 9758–9767. doi: 10.1039/C9SC02281C
39. [39]
  Q. Lin, A. Wang, S. Liu, et al., Chem. Commun. 56 (2020) 5303–5306. doi: 10.1039/D0CC01231A
40. [40]
  X. Han, Y. Jiang, S. Li, et al., Nanoscale 11 (2019) 339–347. doi: 10.1039/C8NR05546G
41. [41]
  C. Xing, Z. Chen, Y. Lin, et al., Chem. Commun. 57 (2021) 3251–3254. doi: 10.1039/D0CC08172H
42. [42]
  J. Su, F. Wu, H. Xia, et al., Chem. Sci. 11 (2020) 80–86. doi: 10.1039/C9SC04823E
43. [43]
  X. Zheng, R. Peng, X. Jiang, et al., Anal. Chem. 89 (2017) 10941–10947. doi: 10.1021/acs.analchem.7b02763
44. [44]
  N. Li, M. Wang, X. Gao, et al., Anal. Chem. 89 (2017) 6670–6677. doi: 10.1021/acs.analchem.7b00889
45. [45]
  J.W. Keum, H. Bermudez, Chem. Commun. 45 (2009) 7036–7038.
46. [46]
  M.W. Bowler, M.G. Montgomery, A.G.W. Leslie, et al., Proc. Natl. Acad. Sci. U. S. A. 103 (2006) 8646–8649. doi: 10.1073/pnas.0602915103
47. [47]
  E.J. Griffiths, G.A. Rutter, Biochim. Biophys. Acta 1787 (2009) 1324–1333. doi: 10.1016/j.bbabio.2009.01.019
48. [48]
  S. Hong, X. Zhang, R.J. Lake, et al., Chem. Sci. 11 (2020) 713–720. doi: 10.1039/C9SC04773E
1. [1]
  Xiaohong Wen , Mei Yang , Lie Li , Mingmin Huang , Wei Cui , Suping Li , Haiyan Chen , Chen Li , Qiuping Guo . Enzymatically controlled DNA tetrahedron nanoprobes for specific imaging of ATP in tumor. Chinese Chemical Letters, 2024, 35(8): 109291-. doi: 10.1016/j.cclet.2023.109291
2. [2]
  Xiaoyao Ma , Jinling Zhang , Ge Fang , He Gao , Jie Gao , Li Fu , Yuanyuan Hou , Gang Bai . Förster resonance energy transfer reveals phillygenin and swertiamarin concurrently target AKT on different binding domains to increase the anti-inflammatory effect. Chinese Chemical Letters, 2024, 35(5): 108823-. doi: 10.1016/j.cclet.2023.108823
3. [3]
  Jia-Li Xie , Tian-Jin Xie , Yu-Jie Luo , Kai Mao , Cheng-Zhi Huang , Yuan-Fang Li , Shu-Jun Zhen . Octopus-like DNA nanostructure coupled with graphene oxide enhanced fluorescence anisotropy for hepatitis B virus DNA detection. Chinese Chemical Letters, 2024, 35(6): 109137-. doi: 10.1016/j.cclet.2023.109137
4. [4]
  Boran Cheng , Lei Cao , Chen Li , Fang-Yi Huo , Qian-Fang Meng , Ganglin Tong , Xuan Wu , Lin-Lin Bu , Lang Rao , Shubin Wang . Fluorine-doped carbon quantum dots with deep-red emission for hypochlorite determination and cancer cell imaging. Chinese Chemical Letters, 2024, 35(6): 108969-. doi: 10.1016/j.cclet.2023.108969
5. [5]
  Zhixue Liu , Haiqi Chen , Lijuan Guo , Xinyao Sun , Zhi-Yuan Zhang , Junyi Chen , Ming Dong , Chunju Li . Luminescent terphen[3]arene sulfate-activated FRET assemblies for cell imaging. Chinese Chemical Letters, 2024, 35(9): 109666-. doi: 10.1016/j.cclet.2024.109666
6. [6]
  Chang Liu , Tao Wu , Lijiao Deng , Xuzi Li , Xin Fu , Shuzhen Liao , Wenjie Ma , Guoqiang Zou , Hai Yang . Programmed DNA walkers for biosensors. Chinese Chemical Letters, 2024, 35(9): 109307-. doi: 10.1016/j.cclet.2023.109307
7. [7]
  Gongcheng Ma , Qihang Ding , Yuding Zhang , Yue Wang , Jingjing Xiang , Mingle Li , Qi Zhao , Saipeng Huang , Ping Gong , Jong Seung Kim . Palladium-free chemoselective probe for in vivo fluorescence imaging of carbon monoxide. Chinese Chemical Letters, 2024, 35(9): 109293-. doi: 10.1016/j.cclet.2023.109293
8. [8]
  Lixian Fu , Yiyun Tan , Yue Ding , Weixia Qing , Yong Wang . Water–soluble and polarity–sensitive near–infrared fluorescent probe for long–time specific cancer cell membranes imaging and C. Elegans label. Chinese Chemical Letters, 2024, 35(4): 108886-. doi: 10.1016/j.cclet.2023.108886
9. [9]
  Jianqiu Li , Yi Zhang , Songen Liu , Jie Niu , Rong Zhang , Yong Chen , Yu Liu . Cucurbit[8]uril-based non-covalent heterodimer realized NIR cell imaging through topological transformation from nanowire to nanorod. Chinese Chemical Letters, 2024, 35(10): 109645-. doi: 10.1016/j.cclet.2024.109645
10. [10]
  Yiling Li , Zekun Gao , Xiuxiu Yue , Minhuan Lan , Xiuli Zheng , Benhua Wang , Shuang Zhao , Xiangzhi Song . FRET-based two-photon benzo[a] phenothiazinium photosensitizer for fluorescence imaging-guided photodynamic therapy. Chinese Chemical Letters, 2024, 35(7): 109133-. doi: 10.1016/j.cclet.2023.109133
11. [11]
  Peide Zhu , Yangjia Liu , Yaoyao Tang , Siqi Zhu , Xinyang Liu , Lei Yin , Quan Liu , Zhiqiang Yu , Quan Xu , Dixian Luo , Juncheng Wang . Bi-doped carbon quantum dots functionalized liposomes with fluorescence visualization imaging for tumor diagnosis and treatment. Chinese Chemical Letters, 2024, 35(4): 108689-. doi: 10.1016/j.cclet.2023.108689
12. [12]
  Kangmin Wang , Liqiu Wan , Jingyu Wang , Chunlin Zhou , Ke Yang , Liang Zhou , Bijin Li . Multifunctional 2-(2′-hydroxyphenyl)benzoxazoles: Ready synthesis, mechanochromism, fluorescence imaging, and OLEDs. Chinese Chemical Letters, 2024, 35(10): 109554-. doi: 10.1016/j.cclet.2024.109554
13. [13]
  Dexuan Xiao , Tianyu Chen , Tianxu Zhang , Sirong Shi , Mei Zhang , Xin Qin , Yunkun Liu , Longjiang Li , Yunfeng Lin . Transdermal treatment for malignant melanoma by aptamer-modified tetrahedral framework nucleic acid delivery of vemurafenib. Chinese Chemical Letters, 2024, 35(4): 108602-. doi: 10.1016/j.cclet.2023.108602
14. [14]
  Zhao-Xia Lian , Xue-Zhi Wang , Chuang-Wei Zhou , Jiayu Li , Ming-De Li , Xiao-Ping Zhou , Dan Li . Producing circularly polarized luminescence by radiative energy transfer from achiral metal-organic cage to chiral organic molecules. Chinese Chemical Letters, 2024, 35(8): 109063-. doi: 10.1016/j.cclet.2023.109063
15. [15]
  Chaoqun Ma , Yuebo Wang , Ning Han , Rongzhen Zhang , Hui Liu , Xiaofeng Sun , Lingbao Xing . Carbon dot-based artificial light-harvesting systems with sequential energy transfer and white light emission for photocatalysis. Chinese Chemical Letters, 2024, 35(4): 108632-. doi: 10.1016/j.cclet.2023.108632
16. [16]
  Weixu Li , Yuexin Wang , Lin Li , Xinyi Huang , Mengdi Liu , Bo Gui , Xianjun Lang , Cheng Wang . Promoting energy transfer pathway in porphyrin-based sp2 carbon-conjugated covalent organic frameworks for selective photocatalytic oxidation of sulfide. Chinese Journal of Structural Chemistry, 2024, 43(7): 100299-100299. doi: 10.1016/j.cjsc.2024.100299
17. [17]
  Yang Qin , Jiangtian Li , Xuehao Zhang , Kaixuan Wan , Heao Zhang , Feiyang Huang , Limei Wang , Hongxun Wang , Longjie Li , Xianjin Xiao . Toeless and reversible DNA strand displacement based on Hoogsteen-bond triplex. Chinese Chemical Letters, 2024, 35(5): 108826-. doi: 10.1016/j.cclet.2023.108826
18. [18]
  Jingwen Zhao , Jianpu Tang , Zhen Cui , Limin Liu , Dayong Yang , Chi Yao . A DNA micro-complex containing polyaptamer for exosome separation and wound healing. Chinese Chemical Letters, 2024, 35(9): 109303-. doi: 10.1016/j.cclet.2023.109303
19. [19]
  Wenyi Mei , Lijuan Xie , Xiaodong Zhang , Cunjian Shi , Fengzhi Wang , Qiqi Fu , Zhenjiang Zhao , Honglin Li , Yufang Xu , Zhuo Chen . Design, synthesis and biological evaluation of fluorescent derivatives of ursolic acid in living cells. Chinese Chemical Letters, 2024, 35(5): 108825-. doi: 10.1016/j.cclet.2023.108825
20. [20]
  Tian Feng , Yun-Ling Gao , Di Hu , Ke-Yu Yuan , Shu-Yi Gu , Yao-Hua Gu , Si-Yu Yu , Jun Xiong , Yu-Qi Feng , Jie Wang , Bi-Feng Yuan . Chronic sleep deprivation induces alterations in DNA and RNA modifications by liquid chromatography-mass spectrometry analysis. Chinese Chemical Letters, 2024, 35(8): 109259-. doi: 10.1016/j.cclet.2023.109259

Get Citation

PDF

XML

Metrics

PDF Downloads(3)
Abstract views(284)
HTML views(30)

通讯作者: 陈斌, bchen63@163.com

1.
沈阳化工大学材料科学与工程学院沈阳 110142