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  • Top row: 3-D structural predictions generated using CanDo by Stavros Gaitanaros, a researcher in MIT's 实验室计算生物学和生物物理学 (LCBB), based on sequence designs provided by Fei Zhang of the Hao Yan Lab at Arizona State University. Bottom row: designs by Keyao Pan (LCBB)/Nature Communcations

    Top row: 3-D structural predictions generated using CanDo by Stavros Gaitanaros, a researcher in MIT's 实验室计算生物学和生物物理学 (LCBB), based on sequence designs provided by Fei Zhang of the Hao Yan Lab at Arizona State University. Bottom row: designs by Keyao Pan (LCBB)/Nature Communcations

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计算机模型使脱氧核糖核酸复杂形状的设计

Top row: 3-D structural predictions generated using CanDo by Stavros Gaitanaros, a researcher in MIT's 实验室计算生物学和生物物理学 (LCBB), based on sequence designs provided by Fei Zhang of the Hao Yan Lab at Arizona State University. Bottom row: designs by Keyao Pan (LCBB)/Nature Communcations

Engineers computer-design the most complicated 3-D structures ever made from 脱氧核糖核酸. 看视频


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MIT biological engineers have created a new computer model that allows them to design the most complex three-dimensional 脱氧核糖核酸 shapes ever produced, including rings, bowls, and geometric structures such as icosahedrons that resemble viral particles.

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“总的想法是在空间上组织蛋白,生色团,的RNA,和纳米颗粒使用脱氧核糖核酸纳米尺度的精度。我们有超过3-d结构的精确纳米尺度的控制就是在这种方法唯一的中心,说:”洗澡,描述的dec新的设计方法的论文的资深作者。 3问题 自然通讯.

The paper’s lead authors are postdoc Keyao Pan and former MIT postdoc Do-Nyun Kim, who is now on the faculty at Seoul National University. Other authors of the paper are MIT graduate student Matthew Adendorff and Profess要么 Hao Yan and graduate student Fei Zhang, both of Arizona State University.

脱氧核糖核酸的设计

因为DNA是如此的稳定,并且可以很容易地通过改变其序列进行编程,许多科学家认为这是一个理想的建筑材料为纳米级结构。 2005年左右,科学家开始使用一种称为DNA折纸策略从DNA产生微小的二维结构 - 从脱氧核糖核酸“骨架”链结合到支架的形状和更小的“主食”链建设。这种方法后来被翻译成三个维度。

设计这些形状是繁琐和耗时,并且合成和验证他们实验是昂贵而缓慢,因此,研究人员包括洗澡已经开发出计算机模型,在设计过程中提供帮助。在2011年,沐浴和同事们想出了一个节目叫剑度,可以产生3-d的DNA结构,但它被限制在一个有限的课堂形状是必须对脱氧核糖核酸束的矩形或密排六方晶格建的。

In the new paper, Bathe and colleagues report a computer algorithm that can take sequences of DNA scaffold and staple strands and predict the 3-D structure of arbitrary programmed 脱氧核糖核酸 assemblies. With this model, they can create much m要么e complex structures than were previously possible.

新的方法依赖于几乎切割开的DNA序列成子部件称为多路结,这是编程的DNA纳米结构的基本构建块。这些结,其类似于的那些DNA复制过程中自然形成,包括其中链放松和“跨越,”结合到相邻的DNA螺旋的一条链的两个平行的脱氧核糖核酸螺旋。

后几乎切割DNA引入这些更小的部分,洗澡的程序然后重新组合它们计算为更大的编程组件,诸如环,盘和球的容器,所有具有纳米级尺寸。通过编程这些脱氧核糖核酸成分的序列,设计人员还可以很容易地创建任意复杂的结构,包括对称笼诸如四面体,八面体,十二面体和。

“主要的创新是认识到我们几乎可以削减这些路口相距只有重新组合它们在硅片预测其3-d结构,”洗澡说。 “在硅片预测其3-d结构是中央对我们正在寻求多样化的功能应用,因为最终是3-d结构,使人们产生单独的功能,而不是脱氧核糖核酸序列。”

MIT engineers demonstrate the complex 3-D 脱氧核糖核酸 structures made by their novel computer program.

视频:梅兰妮gonick / MIT

The new program should enable researchers to design many more structures than those allowed by the CanDo program, says Paul Rothemund, a seni要么 research associate at Caltech who was not part of the research team.

“Since a large fraction of the 脱氧核糖核酸 nanotech community is currently using molecules whose structures could not be treated by the original CanDo, the current w要么k is a highly welcome advance,” Rothemund says.

研究人员计划,使他们的算法在未来几个月内公开,所以这种其它DNA设计师也可以从中受益。在该模型的当前版本中,设计师拿出的DNA序列,但洗澡希望能尽快创建一个版本中,设计人员可以简单地给计算机模型特定形状和获取,这将产生一个形状序列。这将使真正纳米级3-d印刷,这里的“墨水”是合成的脱氧核糖核酸。

支架和霉菌

Once researchers have access to printing 3-D nanoscale DNA objects of arbitrary geometries, they can use them f要么 many different applications by combining them with other kinds of molecules. “These 脱氧核糖核酸 objects are passive structural scaffolds,” Bathe says. “Their function comes from other molecules attached to them.”

一种类型的分子的该洗澡已开始与工作是捕光分子,称为发色团,它是光合作用的一个关键组成部分。在活细胞中,这些分子的排列上的蛋白骨架,但蛋白质更难工程进入纳米级组件,所以洗澡的研究小组正在试图模仿蛋白质支架结构与脱氧核糖核酸。

另一种可能的应用是设计的支架,将允许研究人员模拟来自多个蛋白亚基由细菌毒素组件。例如,志贺毒素包括布置在一个特定的五聚体结构,使隐形进入细胞5个蛋白质亚基。如果研究人员能够复制这种结构,就可以创建它的毒性部分是禁用的版本,使剩余的可用于输送药物和微型或信使RNA。

“这个目标亚基在进入细胞非常有效,而且在不掀起大量的告警,或导致由细胞机制的降解的一种方式,”洗澡说。 “与脱氧核糖核酸,我们可以建立针对该项目的车辆部分支架,然后将其连接到其他的东西 - 像货物微小RNA的mRNA,癌症药物和其他治疗”

The researchers have also used 脱氧核糖核酸 nanostructures as molds to form tiny particles of gold 要么 other metals. In a recent 科学 纸,洗澡和哈佛大学的威斯研究所生物激励工程同事证明,脱氧核糖核酸模具可以塑造金银成立方体,球体,以及更复杂的结构,如y形的颗粒,具有程序的光学性质可以由计算机来预测模型。这种方法提供了在纳米科学和技术的各种应用“定制的订单生产”纳米粒子设计和合成过程。

The current research was funded by the Office of Naval 研究 and the National 科学 Foundation.


主题: 脱氧核糖核酸, 纳米科学和纳米技术, 生物工程, 工程学院, 研究, 算法

评论

This is cool. So... how does it correlate to the real world? Will this help us in medicine? Will this help us in cosmos expl要么ation? Will this help us to learn the secrets of the deep sea? Will this help us find new energy sources? How does this help the human race?

Okay so I'm under the impression you people think this is good f要么 man-kind?
谁还会使用这种技术唯一的将是好人?
Really? is that what is playing out already, with the Geo-engineering and there
合成的和有毒的化学 - trail.s,HAARP和天气战争,
Genetically modifying everything on Earth , Nano-science , A.I., Robots
Really--doesn't look like they want us alive & well to me! Well so much f要么 the medicine dispenser idea - that's mute!
男人就应该照顾,全穿他踹 -
现在是一个失控的火车,一条黑暗的道路,用单程票!

Here's that double edged sword again. Would covert elements of the military or corporations (same thing?) use this technology against it's own citizenry? Some suspect that already are. 研究 Geoengineering and nano sized particles and their possible c要么relation
到一个新的疾病叫做莫吉隆斯症。

Once again we are faced with a cutting edge technology that has the capability of doing great things for mankind... IF it is used in the correct manner. Who decides how it will be used? Who controls it? Was this research funded by, or is it affiliated with DARPA or any of the other military labs? How long bef要么e it's weaponized?

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