Electronic Supplementary Information for Target-driven DNA association to initiate cyclic assembly of hairpins for biosensing and logic gate operation


Supporting table

Table S1 Sequences of oligonucleotides used in this work. 

Name

Sequence (from 5' to 3') 
S1 GAGACCATCAATGAGGTCACTGAC S2 a CGACATCTAACCTAGCTAAGCTGCAGAATGGGAT Target DNA ATCCCATTCTGCAGCTTCCTCATTGATGGTCTC Apt1 ACCTGGGGGAGTATGTGAGGTTCACTGAC Apt2 CGACATCTAACCTAGCCCTCACAGCGGAGGAAGGT H1 GTCAGTGAGCTAGGTTAGATGTCGCCATGTGTAGACGACATCTAACCTA GCCCTTGTCATAGAGCAC H2 AGATGTCGTCTACACATGGCGACATCTAACCTAGCCCATGTGTAGA Q CCTTGTCATAGAGCACTCG-Dabcyl F FAM-CGAGTGCTCTATGACAAGGGCTAGGTT Q' Dabcyl-CGACATCTAACCTAGC F' GTCAGTGAGCTAGGTTAGATGTCG-FAM I1 CACTCGACAGATTCCTCATTGATGGTCTC I2 ATCCCATTCTGCAGCTTATCTGTCGAGTG I3 TAGCACCAGTTGAGACCATCAATGAGGAAGCTGCAGAATGGGAT I4 ATCCCATTCTGCAGCTTCCTCATTGATGGTCTCAACTGGTGCTA I5 GACCATCAATGAGGTATAATAAATTT I6 AAATTTATTATAAAGCTGCAGAATGGG A1 ATCCCATTCTGCAGCTTCCTCATTGATGGTCTC
a The italicized T in the table is applied to increase the stability of DNA duplex. 

Supporting figures


Fig. S1

 S1 Fig. S1 Polyacrylamide gel electrophoresis (PAGE) analysis of the formation of DNA threestrand complex. Lanes 1 to 6 correspond to 5.0 μM S1, S2, target DNA, S1+target DNA, S2+target DNA, and S1+S2+target DNA, respectively. 


Fig. S2

 S2 Fig. S2 Condition optimization for DNA detection: concentrations of (A) Mg 2+ , (B) hairpins and (C) Q:F duplex, and (D) reaction time. Error bars represent the standard deviation of three parallel experiments at 100 nM S1 and S2 and 50 nM target. 


Fig. S3

 S3 Fig. S3Feasibility of ATP detection using the designed system at 500 nM H1 and H2, 250 nM Apt1 and Apt2, 1 μM Q:F and 500 μM ATP. 


Fig. S4

 S4 Fig. S4 Condition optimization for ATP detection: concentrations of (A) Mg 2+ , (B) Q:F duplex and (C) hairpins, and (D) reaction time. Error bars represent the standard deviation of three parallel experiments at 250 nM Apt1 and Apt2 and 500 μM ATP. 


Fig. S5

 S5 Fig. S5 Detection of ATP without amplification. (A) Scheme and (B) fluorescence spectra at 0, 5, 10, 20, 50, 100, 200, 500 and 1000 μM ATP (from bottom to top). Inset: plot of ΔF vs. logarithm of ATP concentration ranging from 5 to 1000 μM. 


Fig. S6

 S6 Fig. S6 Selectivity of ATP analysis. The error bars represent the standard deviation of three measurements.
Yuehua Guo, Jie Wu, Huangxian Ju
Electronic Supplementary Information for Target-driven DNA association to initiate cyclic assembly of hairpins for biosensing and logic gate operation