Circular DNA Logic Gates with Strand Displacement 1.pdf

Supporting information: Circular DNA Logic Gates with Strand Displacement Cheng Zhang ? Jing Yang 1 Jin Xu ? Institute of Software, School of Electronics Engineering and Computer Science, Key laboratory of High Confidence Software Technologies, Ministry of Education, Peking University, Beijing 100871 1 DNA sequences used in experiment DNA sequences were designed by software “SEQUIN” (N. C. Seeman, J. Biomol. Struct. Dyn. 1990, 8, 573-581.). The sequences of the oligonucleotides are listed in Table S1. Numbers Sequence (from 5’ to 3’) A phosphorylated–TGA CCA TAG AAT TGC CGT TAG TGG TTA TTG ATG AGT AAC AGG ATA GTC GTA TGC CTA AGC AGG A1 CTA TGG TCA CCT GCT TAG G CAT ACG ACT ATC CTG TTA CTC ATC AAT AAC CAC TAA CGG CAA TT B CTA TGG TCA CCT GCT TAG G B-5TAMRA TAMRA -CTA TGG TCA CCT GCT TAG G B1 CTA TGG TCA CCT GCT TAG G CAT AC GAC TA C ATC AAT AAC CAC TAA CGG CAA TT C-3BHQ ATC AAT AAC CAC TAA CGG CAA TT-BHQ C1 TCC T GTTA CTC ATC AAT AAC CAC TAA CGG CAA TT 2C T AAC CAC TAA CGG CAA TT 2F CAT ACG ACT ATC CTG T F C ATA CGA CTA TCC TGT TAC TC TTTT GAC AGC TCA GGT AGA F-1 TCT ACC TGA GCT GTC AAA AGA GTA ACA GGA TAG TCG TAT G 2C-1 SH-TTT TTA TCA ATA ACC ACT AAC GGC AAT TTT TTT TTT TTT TTT TTT TTT TTT TTT TTT TT 2F-1 SH-TTT TTC ATA CGA CTA TCC TGT TAC TCT TTT TTT TTT TTT TTT TTT TTT TTT TTT TTT TT Table S1. DNA sequences ? To whom correspondence should be addressed. Email: zhangcheng369@; jxu@. Tel: +86-10 1 This author contributed equally with the first author. 2 Logic Gate Preparation The detailed methods are as follows. Step 1: Circularization of strand A. 300 pmole 5’ phosphorylated strand A was mixed with 300 pmole strand B in 100 μL 0.5 × TBE buffer, with NaCl at a final concentration of 100 mM. The temperature conditions were: 95°C for 4 minutes, 65°C for 30 minutes, 50°C for 30 minutes, 37°C for 30 minutes, and 22°C for 30 minutes. After