生物纳米孔道单分子多肽磷酸化识别与测量的创新综合实验

doi:10.3866/PKU.DXHX202111089

Abstract

Abstract:

The biological nanopore technique is a revolutionary single-molecule electrochemical method. The single-molecule sequencing of DNA was accomplished following rapid developments over the last three decades, and has been extensively applied in the single-molecule sensing of biomolecules, including peptides and proteins. This paper discusses the importance of introducing nanopore-based single-molecule experiments into university classrooms and expounds on the specific content and implementation model for teaching. This innovative experimental course adopts the teaching mode of "integration of science and education" for second- and third-year undergraduates with some background in chemistry and biochemistry. The teaching plan has been carefully designed and is continuously being optimized according to teaching practices. We integrated the latest achievements in nanopore electrochemistry and related interdisciplinary fields into classroom teaching to expand students' horizons and stimulate their interests in scientific research. In addition, students were encouraged to collaborate on experimental assignments and brainstorm, which could help cultivate their academic thinking capability and comprehensive innovation ability.

Key words: Biological nanopore, Single-molecule measurement, Peptide phosphorylation, Integration of science and education, Comprehensive chemistry experiment

Zhengli Hu, Kaili Xin, Shaochuang Liu, Chengbing Zhong, Xueyuan Wu, Yi-Lun Ying, Xuanfeng Kong, Xiaodong Yu, Jianrong Zhang, Yi-Tao Long. A Comprehensive Single-molecule Experiment of Peptide Phosphorylation Detection with Biological Nanopores[J].University Chemistry, 2022, 37(7): 2111089.

Figures/Tables 8

References 47

1	张树永; 张亚先; 张剑荣. 大学化学, 2018, 33 (10), 1.
2	李育佳; 贾叙东; 陈露洪; 朱成建. 大学化学, 2019, 34 (10), 14.
3	Fang W. N. ; Jia S. S. ; Chao J. ; Wang L. Q. ; Duan X. Y. ; Li H. J. ; Li Q. ; Zuo X. L. ; Wang L. H. ; Wang L. H. ; et al Sci. Adv. 2019, 5, eaau4506. doi: 10.1126/sciadv.aau4506
4	Wen J. ; Hong L. ; Krainer G. ; Yao Q. Q. ; Knowles T. P. J. ; Wu S. ; Perrett S. J. Am. Chem. Soc. 2021, 143, 13056. doi: 10.1021/jacs.1c03078
5	Sun K. ; Ju Y. ; Chen C. ; Zhang P. ; Sawyer E. ; Luo Y. ; Geng J. Small Methods 2020, 4, 1900892. doi: 10.1002/smtd.201900892
6	Guo B. ; Sheng Y. ; Zhou K. ; Liu Q. ; Liu L. ; Wu H. C. Angew. Chem. Int. Ed. 2018, 57, 3602. doi: 10.1002/anie.201711690
7	Chen H. ; Song G. ; Zhang Y. ; Ni D. ; Zhang X. ; Huang Y. ; Lou J. Sci. China Life Sci. 2021, 64, 334. doi: 10.1007/s11427-019-1758-4
8	Cressiot B. ; Bacri L. ; Pelta J. Small Methods 2020, 4, 2000090. doi: 10.1002/smtd.202000090
9	Deamer D. ; Akeson M. ; Branton D. Nat. Biotechnol. 2016, 34, 518. doi: 10.1038/nbt.3423
10	Kasianowicz J. ; Brandin E. ; Branton D. ; Deamer D. Proc. Natl. Acad. Sci. 1996, 93, 13770. doi: 10.1073/pnas.93.24.13770
11	Zhang J. ; Hou L. ; Zuo Z. ; Ji P. ; Zhang X. ; Xue Y. ; Zhao F. Nat. Biotechnol. 2021, 39, 836. doi: 10.1038/s41587-021-00842-6
12	Riedl J. ; Ding Y. ; Fleming A. M. ; Burrows C. J. Nat. Commun. 2015, 6, 8807. doi: 10.1038/ncomms9807
13	Tan C. S. ; Fleming A. M. ; Ren H. ; Burrows C. J. ; White H. S. J. Am. Chem. Soc. 2018, 140, 14224. doi: 10.1021/jacs.8b08153
14	Long Y. T. ; Zhang M. N. Sci. China Ser. B-Chem. 2009, 52, 731. doi: 10.1007/s11426-009-0078-z
15	Chen Z. ; Wang Z. ; Xu Y. ; Zhang X. ; Tian B. ; Bai J. Chem. Sci. 2021, 12, 15750. doi: 10.1039/D1SC04342K
16	Brinkerhoff H. ; Kang A. S. W. ; Liu J. ; Aksimentiev A. ; Dekker C. Science 2021, 374, 1509. doi: 10.1126/science.abl4381
17	Yan S. ; Zhang J. ; Wang Y. ; Guo W. ; Zhang S. ; Liu Y. ; Cao J. ; Wang Y. ; Wang L. ; Ma F. ; et al Nano Lett. 2021, 21, 6703. doi: 10.1021/acs.nanolett.1c02371
18	Liu S. C. ; Ying Y. L. ; Li W. H. ; Wan Y. J. ; Long Y. T. Chem. Sci. 2021, 12, 3282. doi: 10.1039/D0SC06106A
19	Lucas F. L. R. ; Versloot R. C. A. ; Yakovlieva L. ; Walvoort M. T. C. ; Maglia G. Nat. Commun. 2021, 12, 5795. doi: 10.1038/s41467-021-26046-9
20	Schmid S. ; Stömmer P. ; Dietz H. ; Dekker C. Nat. Nanotechnol. 2021, 16, 1244. doi: 10.1038/s41565-021-00958-5
21	Qing Y. ; Ionescu S. A. ; Pulcu G. S. ; Bayley H. Science 2018, 361, 908. doi: 10.1126/science.aat3872
22	Qing Y. ; Bayley H. J. Am. Chem. Soc. 2021, 143, 18181. doi: 10.1021/jacs.1c07497
23	Jia W. ; Hu C. ; Wang Y. ; Gu Y. ; Qian G. ; Du X. ; Wang L. ; Liu Y. ; Cao J. ; Zhang S. ; et al Nat. Commun. 2021, 12, 5811. doi: 10.1038/s41467-021-26054-9
24	Zhou B. ; Wang Y. ; Cao C. ; Li D. ; Long Y. Sci. China Chem. 2018, 61, 1385.
25	Gu Z. ; Ying Y. L. ; Long Y. T. Sci. China Chem. 2018, 61, 1483. doi: 10.1007/s11426-018-9312-3
26	Gu Z. ; Wang H. ; Ying Y. L. ; Long Y. T. Sci. Bull. 2017, 62, 1245. doi: 10.1016/j.scib.2017.09.005
27	Sui X. J. ; Li M. Y. ; Ying Y. L. ; Yan B. Y. ; Wang H. F. ; Zhou J. L. ; Gu Z. ; Long Y. T. J. Anal. Test. 2019, 3, 134. doi: 10.1007/s41664-019-00088-x
28	杨铖宇; 顾震; 胡正利; 应佚伦; 龙亿涛. 电化学, 2019, 25 (3), 312.
29	Hu Z. L. ; Ying Y. L. ; Huo M. Z. ; Kong X. F. ; Yu X. D. ; Zhang J. R. ; Long Y. T. J. Chem. Educ. 2020, 97, 4345. doi: 10.1021/acs.jchemed.0c00389
30	Li M. Y. ; Ying Y. L. ; Yu J. ; Liu S. C. ; Wang Y. Q. ; Li S. ; Long Y. T. JACS Au 2021, 1, 967. doi: 10.1021/jacsau.1c00109
31	Huo M. Z. ; Hu Z. L. ; Ying Y. L. ; Long Y. T. Proteomics 2021, e2100041.
32	Li S. ; Wu X. Y. ; Li M. Y. ; Liu S. C. ; Ying Y. L. ; Long Y. T. Small Methods 2020, 4, 2000014. doi: 10.1002/smtd.202000014
33	Wu X. Y. ; Wang M. B. ; Wang Y. Q. ; Li M. Y. ; Ying Y. Q. ; Huang J. ; Long Y. T. CCS Chem. 2019, 1, 304.
34	李孟寅; 应佚伦; 龙亿涛. 化学学报, 2019, 77 (10), 984.
35	武雪原; 应佚伦; 龙亿涛. 高等学校化学学报, 2019, 40 (9), 1825.
36	Hu Z. L. ; Huo M. Z. ; Ying Y. L. ; Long Y. T. Angew. Chem. Int. Ed. 2021, 133, 14862. doi: 10.1002/ange.202013462
37	Restrepo-Pérez L. ; Joo C. ; Dekker C. Nat. Nanotechnol. 2018, 13, 786. doi: 10.1038/s41565-018-0236-6
38	Cao C. ; Liao D. F. ; Yu J. ; Tian H. ; Long Y. T. Nat. Protoc. 2017, 12, 1901. doi: 10.1038/nprot.2017.077
39	曹婵; 廖冬芳; 应佚伦; 龙亿涛. 化学学报, 2016, 74 (9), 734.
40	Boukhet M. ; Piguet F. ; Ouldali H. ; Pastoriza-Gallego M. ; Pelta J. ; Oukhaled A. Nanoscale 2016, 8, 18352. doi: 10.1039/C6NR06936C
41	杨洁; 李爽; 武雪原; 龙亿涛. 分析化学, 2017, 45 (12), 1766. doi: 10.11895/j.issn.0253-3820.171201
42	Wang H. Y. ; Ying Y. L. ; Li Y. ; Kraatz H. B. ; Long Y. T. Anal. Chem. 2011, 83, 1746. doi: 10.1021/ac1029874
43	应佚伦; 张星; 刘钰; 薛梦竹; 李洪林; 龙亿涛. 化学学报, 2013, 71 (1), 44.
44	胡正利; 杜冀晖; 应佚伦; 彭岳一; 曹婵; 龙亿涛. 化学学报, 2017, 75 (11), 1087.
45	Yang C. ; Liu L. ; Zeng T. ; Yang D. W. ; Yao Z. Y. ; Zhao Y. L. ; Wu H. C. Anal. Chem. 2013, 85, 7302. doi: 10.1021/ac401198d
46	牛红艳; 胡正利; 应佚伦; 龙亿涛. 化学学报, 2019, 77 (10), 989.
47	Niu H. Y. ; Li M. Y. ; Ying Y. L. ; Long Y. T. Chem. Sci. 2022, 13, 2456. doi: 10.1039/D1SC06459B

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A Comprehensive Single-molecule Experiment of Peptide Phosphorylation Detection with Biological Nanopores

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