Competitive annealing of multiple DNA origami: formation of chimeric origami

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Video in TIB AV-Portal: Competitive annealing of multiple DNA origami: formation of chimeric origami

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Competitive annealing of multiple DNA origami: formation of chimeric origami
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Scaffolded DNA origami are a robust tool for building discrete nanoscale objects at high yield. This strategy ensures, in the design process, that the desired nanostructure is the minimum free energy state for the designed set of DNA sequences. Despite aiming for the minimum free energy structure, the folding process which leads to that conformation is difficult to characterize, although it has been the subject of much research. In order to shed light on the molecular folding pathways, this study intentionally frustrates the folding process of these systems by simultaneously annealing the staple pools for multiple target or parent origami structures, forcing competition. A surprising result of these competitive, simultaneous anneals is the formation of chimeric DNA origami which inherit structural regions from both parent origami. By comparing the regions inherited from the parent origami, relative stability of substructures were compared. This allowed examination of the folding process with typical characterization techniques and materials. Anneal curves were then used as a means to rapidly generate a phase diagram of anticipated behavior as a function of staple excess and parent staple ratio. This initial study shows that competitive anneals provide an exciting way to create diverse new nanostructures and may be used to examine the relative stability of various structural motifs.

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structural DNA near technology is a promising tool set for bottom-up self-assembly Indiana fabrication 1 technique was in this field is DNA origami these origami consists of 2
sets of single strand DNA synthetic
staples and a viral scaffold each stable
has several such sequences which combined
along disparate regions of this scaffold when
appropriate binding locations were chosen and all the stables are bound by the result came as the DNA
into a desired structure the success of this
technique can be attributed to the consistency with which the design structure is the minimum
free energy state however the exact halfway
between the initial and final minimum for
unitary state is not well known this makes the folding process something of a black box
and as such has been the target of many studies
in this study we examine the folding process
by forcing competition between 2 origami structures the circle and 6
exploit the staples of both structures hold the
same scaffold so messed with that scaffold they
will compete From the winner will be an insight into the
folding process this competition resulted
in the distribution of Camara origami
which inherited parts of each structure this
distribution of kind was sensitive to the
relative excess of staples involving
competition while the distribution of
primarily to that of the staple holes the
circle is generally more favored its relative access would otherwise indicate
additionally we used high-quality AFM images to gain insight into the camera on
the left is a pure circle and on the right Is
it time there as we can see the DNA helices and
both Oregon and we can compare the image to the
routing patterns for the circle and by process of elimination determine which parts of the Camara folded the bundle from this we can
create a tentative routing battle for the cup Peter to better understand this routing patterns and distribution of we turn to a
tool called the circle plot the routing them in the circle plot but an idealized 6 staple origami are shown on the top and bottom
line both represent the same structure and in both
the the line represents the scaffold Montel and the colored lines represent the staples the difference between the plots is that the routing map shows the
physical shape of the origami Wall Circle plot shows how far each staple must bridge during the
folding process compared to this idealized
exam the circle plans for the circle and
bundle origami are significantly more complex however if we use them to indicate to regions in which they have to
bridge the shortest distance along the scaffold during folding the makings being
useful insight into the running patents of the
camera but the Camara consistently
inherit the shortest Oct regions of a circle plucked from the parent origami indicates that new creation and growth from these regions could be responsible for the distribution of condoms to better
understand these distributions of
payment we implemented quality image
analysis by fresh holding for the increased
height of the bundle work additionally we used in
yield curbs to predict a phase diagram for
where Camara might occur overall the use
of this variety of tools and techniques has
provided interesting insight into the folding of DNA origami system