Reading DNA differently

Gat, Yahaloma; Lynn, David G.

doi:10.1002/(sici)1097-0282(1998)48:1<19::aid-bip3>3.0.co;2-i

Cited by 26 publications

(15 citation statements)

References 67 publications

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“…Representative DNA-templated syntheses of oligonucleotide analogues. [1,14,[24][25][26][27][28][29][30][31][32][33][34][35][36][37][38][39][40][41] LG: leaving group.…”

Section: Nucleic Acid Templated Synthesis Of Nucleic Acids and Nucleimentioning

confidence: 99%

“…[1,14,[24][25][26][27][28][29][30][31][32][33][34][35][36][37][38][39][40][41] More recently, researchers have discovered the ability of DNA-templated organic synthesis to direct the creation of structures unrelated to the nucleic acid backbone. Introduction 4849 plated synthesis to nonbiological reactants used DNA or RNA hybridization to accelerate the formation of phosphodiester bonds or other structural mimics of the nucleic acid backbone.…”

Section: Introductionmentioning

confidence: 99%

“…plated synthesis to nonbiological reactants used DNA or RNA hybridization to accelerate the formation of phosphodiester bonds or other structural mimics of the nucleic acid backbone. [1,14,[24][25][26][27][28][29][30][31][32][33][34][35][36][37][38][39][40][41] More recently, researchers have discovered the ability of DNA-templated organic synthesis to direct the creation of structures unrelated to the nucleic acid backbone. [42][43][44][45][46][47][48] A growing understanding of the simple but powerful principles underlying DTS has rapidly expanded its synthetic capabilities and has also led to emerging chemical and biological applications, including nucleic acid sensing, [27][28][29][30][49][50][51][52][53][54][55][56][57][58][59][60] sequence-specific DNA modification, [61][62][63]…”

Section: Introductionmentioning

confidence: 99%

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DNA‐Templated Organic Synthesis: Nature's Strategy for Controlling Chemical Reactivity Applied to Synthetic Molecules

2004

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In contrast to the approach commonly taken by chemists, nature controls chemical reactivity by modulating the effective molarity of highly dilute reactants through macromolecule-templated synthesis. Nature's approach enables complex mixtures in a single solution to react with efficiencies and selectivities that cannot be achieved in conventional laboratory synthesis. DNA-templated organic synthesis (DTS) is emerging as a surprisingly general way to control the reactivity of synthetic molecules by using nature's effective-molarity-based approach. Recent developments have expanded the scope and capabilities of DTS from its origins as a model of prebiotic nucleic acid replication to its current ability to translate DNA sequences into complex small-molecule and polymer products of multistep organic synthesis. An understanding of fundamental principles underlying DTS has played an important role in these developments. Early applications of DTS include nucleic acid sensing, small-molecule discovery, and reaction discovery with the help of translation, selection, and amplification methods previously available only to biological molecules.

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“…Representative DNA-templated syntheses of oligonucleotide analogues. [1,14,[24][25][26][27][28][29][30][31][32][33][34][35][36][37][38][39][40][41] LG: leaving group.…”

Section: Nucleic Acid Templated Synthesis Of Nucleic Acids and Nucleimentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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DNA‐Templated Organic Synthesis: Nature's Strategy for Controlling Chemical Reactivity Applied to Synthetic Molecules

2004

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“…50 product molecules (6) per template (Scheme 1a). [32][33][34] No studies were reported about catalytic reactions with larger oligonucleotides. Kool and co-workers developed the templated 'autoligation', i.e.…”

Section: Nucleic Acid-templated Ligation Reactionsmentioning

confidence: 99%

Amplification by nucleic acid-templated reactions

2014

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Nucleic acid-templated reactions enable the design of conditional reaction systems, in which bond formation occurs only when a particular DNA or RNA molecule is present. Such reaction systems are currently being explored for applications in DNA/RNA diagnosis, drug screening and as a means to design gene expression specific therapy. However, biological nucleic acid templates usually have low abundance. Therefore, either the targeted nucleic acid template has to be multiplied by means of an amplification step or the template itself has to act as a catalyst which amplifies product formation. This critical review highlights the recent advancements in nucleic acid-templated reactions that proceed with turnover in template and thereby provide a means of amplification. Improvements in reaction engineering and the development of new chemistries have pushed the limits from 10(1) to 10(2)-10(3) turnovers. This includes reaction systems that lead to the ligation of oligonucleotides or to the interconversion of appended functional groups beyond ligation as well as templated chemistries that enable the activation of catalysts for subsequent triggering of reactions between non-nucleotidic substrates. The present limitations and future opportunities are discussed.

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“…The information from these and related studies now opens the possibility of expanding the molecular skeletons capable of storing sequence information into ones that can be read into complementary materials [41]. The information from these and related studies now opens the possibility of expanding the molecular skeletons capable of storing sequence information into ones that can be read into complementary materials [41].…”

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confidence: 99%

Template‐Directed Ligation: Towards the Synthesis of Sequence Specific Polymers

Gat¹,

Lynn²

1999

Templated Organic Synthesis

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The structure of the DNA double helix first highlighted the simple elegance of the most sophisticated template reactions known, template directed polymerization. Through these reactions the genomic information is accurately replicated in DNA, transcribed into RNA, and translated into protein. Over 40 years ago, Crick combined these reactions into the "Central Dogma" of biology ( Figure 5-l), a formulation suggesting that all living things follow this basic chemical plan [ 11. Today, even with the incredible biological diversity known to exist on Earth, no violations of this chemical scheme are known. The nucleic acids store the genetic blueprint, and the co-catalytic proteins function cooperatively with this molecular template to express the encoded information.Over the last four decades, synthetic non-enzymatic oligonucleotide ligations have been explored as potential models for the evolution of replicating systems on the early Earth [2-111. These studies have explored ligation reactions that occur on a template without protein/enzymatic catalysis. Such systems have both provided mechanisms for the early evolution of biopolymer catalysts and placed limits on template directed ligation. More recently, the lure of antisense molecules capable of disrupting specific gene expression has resulted in the exploration of backbone-modified nucleic acids [ 12-33]. n

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Reading DNA differently

Cited by 26 publications

References 67 publications

DNA‐Templated Organic Synthesis: Nature's Strategy for Controlling Chemical Reactivity Applied to Synthetic Molecules

DNA‐Templated Organic Synthesis: Nature's Strategy for Controlling Chemical Reactivity Applied to Synthetic Molecules

Amplification by nucleic acid-templated reactions

Template‐Directed Ligation: Towards the Synthesis of Sequence Specific Polymers

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