Isolation of genomic DNA molecule from a single cell and control its higher order structure using optical tweezers

2005 ◽  
Author(s):  
Hidehiro Oana ◽  
Isao Hagiya ◽  
Masao Washizu ◽  
Koji Kubo ◽  
Kenichi Yoshikawa ◽  
...  
Keyword(s):  
Single Cell ◽  
Optical Tweezers ◽  
Genomic Dna ◽  
Higher Order ◽  
Order Structure ◽  
Dna Molecule ◽  
And Control

scholarly journals 2P302 Control of higher order structure of single genomic DNA using optical tweezers

2004 ◽  
Vol 44 (supplement) ◽  
pp. S185
Author(s):  
H. Oana ◽  
K. Kubo ◽  
H. Atomi ◽  
T. Imanaka ◽  
K. Yoshikawa
Keyword(s):  
Optical Tweezers ◽  
Genomic Dna ◽  
Higher Order ◽  
Order Structure

scholarly journals Monotonous behavior with 2-propanol converts into reentrant transition with 1-propanol: Higher-order structure of DNA

2019 ◽  
Author(s):  
Y. Ma ◽  
Y. Yoshikawa ◽  
K. Yoshikawa
Keyword(s):  
Secondary Structure ◽  
Genomic Dna ◽  
Conformational Transitions ◽  
Higher Order ◽  
Point Of View ◽  
Order Structure ◽  
Chemical Physics ◽  
Dna Molecules ◽  
Unfolded State ◽  
Compact State

ABSTRACTIn the present study, we measured the changes in the higher-order structure of genomic DNA molecules in the presence of alcohols through single-DNA observation by use of fluorescence microscopy, with particular focus on the different effects of 1-propanol and 2-propanol. The results showed that, with an increasing concentration of 1-propanol, DNA exhibits reentrant conformational transitions from an elongated coil to a folded globule, and then to an unfolded state. On the other hand, with 2-propanol, DNA exhibits monotonous shrinkage into a compact state. Thus, DNA molecules are more effectively condensed/precipitated with 2-propanol than with 1-propanol. The propanol isomers also had different effects on the changes in the secondary structure of DNA, as revealed by circular dichroism (CD) measurements. With 1-propanol, DNA maintains a B-form secondary structure. An A-like conformation appears with the addition of 2-propanol.STATEMENT OF SIGNIFICANCECurrently, 2-propanol has most often been used as the solvent to extract and purify genomic DNA molecules from living cells, according the protocols in molecular biology and biochemistry. Unfortunately, the reason why usage of 2-propanol is recommended instead of ethanol and 1-propanol has never been explained in a clear manner. We believe that the new insight based on chemical physics point of view would play an important role for the development of current chemical procedures/treatments adapted on an empirical basis.

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