Biomod/2012/Titech/Nano-Jugglers/Methods/Design of photoresponsive DNA

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} </style> </head> <BODY> <div id="biomodlink"> <<a href="http://openwetware.org/wiki/Biomod">BIOMOD</a>|<a href="http://openwetware.org/wiki/Biomod/2012">2012</a>|Titech Nano-Jugglers </div> <div id="header"> <div id="navigation"> <div id="menu"> <ul> <li><a href="http://openwetware.org/wiki/Biomod/2012/Titech/Nano-Jugglers"><br>Home<br><br></a></li> <li><a href="http://openwetware.org/wiki/Biomod/2012/Titech/Nano-Jugglers/Team/Students"><br>Team<br><br></a></li> <li><a href="http://openwetware.org/wiki/Biomod/2012/Titech/Nano-Jugglers/Project"><br>Project<br><br></a></li> <li><a href="http://openwetware.org/wiki/Biomod/2012/Titech/Nano-Jugglers/Results">Results<br>&<br>Methods</a></font></li> <li class="ach"><a href="http://openwetware.org/wiki/Biomod/2012/Titech/Nano-Jugglers/Achievements"><br>Achievements<br><br></a> <li class="sup"><a href="http://openwetware.org/wiki/Biomod/2012/Titech/Nano-Jugglers/Protocols"><br>Suppl. Info.<br><br></a></li> <li class="none"><a href="http://openwetware.org/wiki/Biomod/2012/Titech/Nano-Jugglers/Acknowledgement"><br>Acknowledgements<br><br></a></li> </ul> </div> </div> </div> </BODY> </html>

3-1.Design of photoresponsive DNA

    We incorporated 4 azobenzene units into photoresponsive DNA[1] strand so that we can quickly dissociated DNA duplex.{Photo-switchable DNA 5'-AATXACXCCXAGXCC-3' (X=Azobenzene)}
BIOMOD-TNJ-azobenzen5.png

photoresponsive DNA

  • 5’ -(HS)-AATxACxCCxAGxCC-3’ (x=azobenzene)

1.We incorporated 4 azobenzene units into 11 bases DNA so that we can quickly dissociated DNA duplex.

BIOMOD-TNJ-azobenzen7.png

cDNA of photoresponsive DNA

  • 5’-(HS)-GGCTGGGTATT-3’

1.This 11 bases DNA are a complementary sequence of DNAⅰ(photoresponsive DNA).

    And then, we confirmed that photoresponsive DNA could hybridize stably at consistent temperature. For verifying hybridization, we use the value of absorbance.
    In spectroscopy, a relational expression about absorbance can be expressed as follows.
Math.png
    (Abs: absorbance, ε: the absorption coefficient, c: strength, d: length of a visual leg )
    The value of Abs is proportional to the concentration of corresponding materials. If photoresponsive DNA formed duplex, the concentration of ssDNA decrease, onthe other hand the concentration of dsDNA increase. Reserchin these corresponding values, we could determine whether they formed duplex or not.
[1]Hiroyuki Asanuma, Xingguo Liang, Takayuki Yoshida, and Makoto Komiyama,;CHEMBIOCHEM 2, 39-44(2001)
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