molecular assembler

A molecular assembler, as defined by K. Eric Drexler, is a "proposed device able to guide chemical reactions by positioning reactive molecules with atomic precision". A molecular assembler is a molecular machine. Some biological molecules such as ribosomes fit this definition as biological machines. This is because they receive instructions from messenger RNA and then assemble specific sequences of amino acids to construct protein molecules.

History

Beginning in 2007, the British Engineering and Physical Sciences Research Council has funded development of ribosome-like molecular assemblers. Clearly, molecular assemblers are possible in this limited sense. A technology roadmap project, led by the Battelle Memorial Institute and hosted by several U.S. National Laboratories has explored a range of atomically precise fabrication technologies, including both early-generation and longer-term prospects for programmable molecular assembly; the report was released in December, 2007. In 2008, the Engineering and Physical Sciences Research Council provided funding of £1.5 million over six years (£1,942,235.57, $2,693,808.00 in 2021) for research working towards mechanized mechanosynthesis, in partnership with the Institute for Molecular Manufacturing, amongst others.

Likewise, the term "molecular assembler" has been used in science fiction and popular culture to refer to a wide range of fantastic atom-manipulating nanomachines. Much of the controversy regarding "molecular assemblers" results from the confusion in the use of the name for both technical concepts and popular fantasies. In 1992, Drexler introduced the related but better-understood term "molecular manufacturing", which he defined as the programmed "chemical synthesis of complex structures by mechanically positioning reactive molecules, not by manipulating individual atoms".

This article mostly discusses "molecular assemblers" in the popular sense. These include hypothetical machines that manipulate individual atoms and machines with organism-like self-replicating abilities, mobility, ability to consume food, and so forth. These are quite different from devices that merely (as defined above) "guide chemical reactions by positioning reactive molecules with atomic precision".

Because synthetic molecular assemblers have never been constructed and because of the confusion regarding the meaning of the term, there has been much controversy as to whether "molecular assemblers" are possible or simply science fiction. Confusion and controversy also stem from their classification as nanotechnology, which is an active area of laboratory research which has already been applied to the production of real products; however, there had been, until recently, no research efforts into the actual construction of "molecular assemblers".

Nonetheless, a 2013 paper by David Leigh's group, published in the journal ''Science'', details a new method of synthesizing a peptide in a sequence-specific manner by using an artificial molecular machine that is guided by a molecular strand. This functions in the same way as a ribosome building proteins by assembling amino acids according to a messenger RNA blueprint. The structure of the machine is based on a rotaxane, which is a molecular ring sliding along a molecular axle. The ring carries a thiolate group, which removes amino acids in sequence from the axle, transferring them to a peptide assembly site. In 2018, the same group published a more advanced version of this concept in which the molecular ring shuttles along a polymeric track to assemble an oligopeptide that can fold into an α-helix that can perform the enantioselective epoxidation of a chalcone derivative (in a way reminiscent to the ribosome assembling an enzyme). In another paper published in ''Science'' in March 2015, chemists at the University of Illinois report a platform that automates the synthesis of 14 classes of small molecules, with thousands of compatible building blocks.

In 2017, David Leigh's group reported a molecular robot that could be programmed to construct any one of four different stereoisomers of a molecular product by using a nanomechanical robotic arm to move a molecular substrate between different reactive sites of an artificial molecular machine. An accompanying News and Views article, titled 'A molecular assembler', outlined the operation of the molecular robot as effectively a prototypical molecular assembler.

Nanofactories

A nanofactory is a proposed system in which nanomachines (resembling molecular assemblers, or industrial robot arms) would combine reactive molecules via mechanosynthesis to build larger atomically precise parts. These, in turn, would be assembled by positioning mechanisms of assorted sizes to build macroscopic (visible) but still atomically-precise products.

A typical nanofactory would fit in a desktop box, in the vision of K. Eric Drexler published in ''Nanosystems: Molecular Machinery, Manufacturing and Computation'' (1992), a notable work of "exploratory engineering". During the 1990s, others have extended the nanofactory concept, including an analysis of nanofactory convergent assembly by Ralph Merkle, a systems design of a replicating nanofactory architecture by J. Storrs Hall, Forrest Bishop's "Universal Assembler", the patented exponential assembly process by Zyvex, and a top-level systems design for a 'primitive nanofactory' by Chris Phoenix (director of research at the Center for Responsible Nanotechnology). All of these nanofactory designs (and more) are summarized in Chapter 4 of ''Kinematic Self-Replicating Machines'' (2004) by Robert Freitas and Ralph Merkle. The Nanofactory Collaboration, founded by Freitas and Merkle in 2000, is a focused, ongoing effort involving 23 researchers from 10 organizations and 4 countries that is developing a practical research agenda specifically aimed at positionally-controlled diamond mechanosynthesis and diamondoid nanofactory development.

In 2005, an animated short film of the nanofactory concept was produced by John Burch, in collaboration with Drexler. Such visions have been the subject of much debate, on several intellectual levels. No one has discovered an insurmountable problem with the underlying theories and no one has proved that the theories can be translated into practice. However, the debate continues, with some of it being summarized in the molecular nanotechnology article.

If nanofactories could be built, severe disruption to the world economy would be one of many possible negative impacts, though it could be argued that this disruption would have little negative effect, if everyone had such nanofactories. Great benefits also would be anticipated. Various works of science fiction have explored these and similar concepts. The potential for such devices was part of the mandate of a major UK study led by mechanical engineering professor Dame Ann Dowling.

Self-replication

"Molecular assemblers" have been confused with self-replicating machines. To produce a practical quantity of a desired product, the nanoscale size of a typical science fiction universal molecular assembler requires an extremely large number of such devices. However, a single such theoretical molecular assembler might be programmed to self-replicate, constructing many copies of itself. This would allow an exponential rate of production. Then, after sufficient quantities of the molecular assemblers were available, they would then be re-programmed for production of the desired product. However, if self-replication of molecular assemblers were not restrained then it might lead to competition with naturally occurring organisms. This has been called ecophagy or the grey goo problem.

One method of building molecular assemblers is to mimic evolutionary processes employed by biological systems. Biological evolution proceeds by random variation combined with culling of the less-successful variants and reproduction of the more-successful variants. Production of complex molecular assemblers might be evolved from simpler systems since "A complex system that works is invariably found to have evolved from a simple system that worked. . . . A complex system designed from scratch never works and can not be patched up to make it work. You have to start over, beginning with a system that works." However, most published safety guidelines include "recommendations against developing ... replicator designs which permit surviving mutation or undergoing evolution".

Most assembler designs keep the "source code" external to the physical assembler. At each step of a manufacturing process, that step is read from an ordinary computer file and "broadcast" to all the assemblers. If any assembler gets out of range of that computer, or when the link between that computer and the assemblers is broken, or when that computer is unplugged, the assemblers stop replicating. Such a "broadcast architecture" is one of the safety features recommended by the "Foresight Guidelines on Molecular Nanotechnology", and a map of the 137-dimensional replicator design space recently published by Freitas and Merkle provides numerous practical methods by which replicators can be safely controlled by good design.

Drexler and Smalley debate

One of the most outspoken critics of some concepts of "molecular assemblers" was Professor Richard Smalley (1943–2005) who won the Nobel Prize for his contributions to the field of nanotechnology. Smalley believed that such assemblers were not physically possible and introduced scientific objections to them. His two principal technical objections were termed the "fat fingers problem" and the "sticky fingers problem". He believed these would exclude the possibility of "molecular assemblers" that worked by precision picking and placing of individual atoms. Drexler and coworkers responded to these two issues in a 2001 publication.

Smalley also believed that Drexler's speculations about apocalyptic dangers of self-replicating machines that have been equated with "molecular assemblers" would threaten the public support for development of nanotechnology. To address the debate between Drexler and Smalley regarding molecular assemblers ''Chemical & Engineering News

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