Synthetic polymers and their potential as genetic materials

@article{Pinheiro2013SyntheticPA,
  title={Synthetic polymers and their potential as genetic materials},
  author={Vitor B. Pinheiro and David Loakes and Philipp Holliger},
  journal={BioEssays},
  year={2013},
  volume={35}
}
DNA and RNA are the only known natural genetic materials. Systematic modification of each of their chemical building blocks (nucleobase, sugar, and phosphate) has enabled the study of the key properties that make those nucleic acids genetic materials. All three moieties contribute to replication and, significantly, all three moieties can be replaced by synthetic analogs without loss of function. Synthetic nucleic acid polymers capable of storing and propagating information not only expand the… 
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References

SHOWING 1-10 OF 117 REFERENCES
The XNA world: progress towards replication and evolution of synthetic genetic polymers.
Synthetic Genetic Polymers Capable of Heredity and Evolution
TLDR
It is shown that genetic information can be stored in and recovered from six alternative genetic polymers based on simple nucleic acid architectures not found in nature [xeno-nucleic acids (XNAs)] and selected XNA aptamers, which bind their targets with high affinity and specificity, demonstrating that beyond heredity, specific XNAs have the capacity for Darwinian evolution and folding into defined structures.
Polymerase engineering: towards the encoded synthesis of unnatural biopolymers.
TLDR
DNA is not only a repository of genetic information for life, it is also a unique polymer with remarkable properties: it associates according to well-defined rules, it can be assembled into diverse nanostructures of defined geometry and it can serve as a supramolecular scaffold to arrange chemical groups in space.
Toward Safe Genetically Modified Organisms through the Chemical Diversification of Nucleic Acids
It is argued that genetic proliferation should be rationally extended so as to enable the propagation in vivo of additional types of nucleic acids (XNA for 'xeno-nucleic acids'), whose chemical
A Novel Copper-Mediated DNA Base Pair
TLDR
A new strategy which is based on the metaldependent pairing of two nucleobases is described which would allow the replication of DNA containing novel functional groups and lead to novel polymers with interesting chemical and physical properties.
A ribozyme composed of only two different nucleotides
TLDR
It is shown that binary informational macromolecules, containing only two different nucleotide subunits, can act as catalysts and that this ribozyme is specific for the formation of biologically relevant 3′,5′-phosphodiester linkages.
A unique fluorescent base analogue for the expansion of the genetic alphabet.
TLDR
A novel fluorescent purine analogue, 7-(2,2'-bithien-5-yl)-imidazo[4,5-b]pyridine (denoted as Dss), which can be site-specifically incorporated into DNA and RNA by polymerases, opposite its pairing partner, pyrrole-2-carbaldehyde (Pa), in DNA templates.
Solution structure and conformational dynamics of deoxyxylonucleic acids (dXNA): an orthogonal nucleic acid candidate.
TLDR
The structure in solution and conformational analysis of two self-complementary, fully modified dXNA oligonucleotides, as determined by CD and NMR spectroscopy are presented, providing the initial experimental proof of the structural orthogonality of dXNAs.
The prebiotic evolutionary advantage of transferring genetic information from RNA to DNA
TLDR
Analysis of the transitional RNA/DNA hybrid duplexes showed that copying RNA into DNA had similar fidelity to RNA replication, so information could be maintained during the genetic takeover.
Understanding nucleic acids using synthetic chemistry.
  • S. Benner
  • Biology
    Accounts of chemical research
  • 2004
This Account describes work done in these laboratories that has used synthetic, physical organic, and biological chemistry to understand the roles played by the nucleobases, sugars, and phosphates of
...
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