TY - JOUR
T1 - Diffusion modulation of DNA by toehold exchange
AU - Rodjanapanyakul, Thanapop
AU - Takabatake, Fumi
AU - Abe, Keita
AU - Kawamata, Ibuki
AU - Nomura, Shinichiro M.
AU - Murata, Satoshi
N1 - Funding Information:
This work was supported by MEXT KAKENHI (Grant No. JP24104005), by JSPS KAKENHI (Grant No. JP15H01715), and by AMED-CREST (Grant No. 16gm0810001h0102).
Publisher Copyright:
© 2018 American Physical Society.
PY - 2018/5/31
Y1 - 2018/5/31
N2 - We propose a method to control the diffusion speed of DNA molecules with a target sequence in a polymer solution. The interaction between solute DNA and diffusion-suppressing DNA that has been anchored to a polymer matrix is modulated by the concentration of the third DNA molecule called the competitor by a mechanism called toehold exchange. Experimental results show that the sequence-specific modulation of the diffusion coefficient is successfully achieved. The diffusion coefficient can be modulated up to sixfold by changing the concentration of the competitor. The specificity of the modulation is also verified under the coexistence of a set of DNA with noninteracting base sequences. With this mechanism, we are able to control the diffusion coefficient of individual DNA species by the concentration of another DNA species. This methodology introduces a programmability to a DNA-based reaction-diffusion system.
AB - We propose a method to control the diffusion speed of DNA molecules with a target sequence in a polymer solution. The interaction between solute DNA and diffusion-suppressing DNA that has been anchored to a polymer matrix is modulated by the concentration of the third DNA molecule called the competitor by a mechanism called toehold exchange. Experimental results show that the sequence-specific modulation of the diffusion coefficient is successfully achieved. The diffusion coefficient can be modulated up to sixfold by changing the concentration of the competitor. The specificity of the modulation is also verified under the coexistence of a set of DNA with noninteracting base sequences. With this mechanism, we are able to control the diffusion coefficient of individual DNA species by the concentration of another DNA species. This methodology introduces a programmability to a DNA-based reaction-diffusion system.
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U2 - 10.1103/PhysRevE.97.052617
DO - 10.1103/PhysRevE.97.052617
M3 - Article
C2 - 29906997
AN - SCOPUS:85048083403
VL - 97
JO - Physical Review E
JF - Physical Review E
SN - 2470-0045
IS - 5
M1 - 052617
ER -