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通过晶体生长和断裂实现组合信息的稳健自复制。

Robust self-replication of combinatorial information via crystal growth and scission.

机构信息

Computer Science, California Institute of Technology, Pasadena, CA 91125, USA.

出版信息

Proc Natl Acad Sci U S A. 2012 Apr 24;109(17):6405-10. doi: 10.1073/pnas.1117813109. Epub 2012 Apr 9.

Abstract

Understanding how a simple chemical system can accurately replicate combinatorial information, such as a sequence, is an important question for both the study of life in the universe and for the development of evolutionary molecular design techniques. During biological sequence replication, a nucleic acid polymer serves as a template for the enzyme-catalyzed assembly of a complementary sequence. Enzymes then separate the template and complement before the next round of replication. Attempts to understand how replication could occur more simply, such as without enzymes, have largely focused on developing minimal versions of this replication process. Here we describe how a different mechanism, crystal growth and scission, can accurately replicate chemical sequences without enzymes. Crystal growth propagates a sequence of bits while mechanically-induced scission creates new growth fronts. Together, these processes exponentially increase the number of crystal sequences. In the system we describe, sequences are arrangements of DNA tile monomers within ribbon-shaped crystals. 99.98% of bits are copied correctly and 78% of 4-bit sequences are correct after two generations; roughly 40 sequence copies are made per growth front per generation. In principle, this process is accurate enough for 1,000-fold replication of 4-bit sequences with 50% yield, replication of longer sequences, and darwinian evolution. We thus demonstrate that neither enzymes nor covalent bond formation are required for robust chemical sequence replication. The form of the replicated information is also compatible with the replication and evolution of a wide class of materials with precise nanoscale geometry such as plasmonic nanostructures or heterogeneous protein assemblies.

摘要

理解简单的化学系统如何准确复制组合信息,如序列,这对于研究宇宙中的生命和开发进化分子设计技术都是一个重要的问题。在生物序列复制过程中,核酸聚合物作为模板,酶催化组装互补序列。然后,酶在进行下一轮复制之前分离模板和互补物。为了更简单地理解复制过程,例如在没有酶的情况下,人们尝试了解复制如何发生,主要集中在开发这种复制过程的最小版本上。在这里,我们描述了另一种机制——晶体生长和分裂——如何在没有酶的情况下准确复制化学序列。晶体生长传播位序列,而机械诱导的分裂则产生新的生长前沿。这些过程共同使晶体序列的数量呈指数级增长。在我们描述的系统中,序列是 DNA 瓦片单体在带状晶体中的排列。99.98%的位被正确复制,在两代之后,78%的 4 位序列是正确的;每个生长前沿每代产生大约 40 个序列副本。原则上,这个过程足以实现 4 位序列 1000 倍的复制,具有 50%的产量,还可以复制更长的序列和达尔文进化。因此,我们证明了,对于化学序列的稳健复制来说,既不需要酶,也不需要形成共价键。复制信息的形式也与广泛的具有精确纳米级几何形状的材料的复制和进化兼容,如等离子体纳米结构或异质蛋白组装。

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