ArticleJournal of the American Chemical Society2010
CyDNA: synthesis and replication of highly Cy-dye substituted DNA by an evolved polymerase.
Article in Journal of the American Chemical Society, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
33 citing papers in PubMed, 104 citations in OpenAlex.
- Single-residue engineering of Klenow fragment enables broad acceptance of chemically modified nucleotides.Nucleic acids research · 2026Article
- Navigating directed evolution efficiently: optimizing selection conditions and selection output analysis.Frontiers in molecular biosciences · 2024Article
- Non-Covalent Interactions between dUTP C5-Substituents and DNA Polymerase Decrease PCR Efficiency.International journal of molecular sciences · 2023Article
- From polymerase engineering to semi-synthetic life: artificial expansion of the central dogma.RSC chemical biology · 2022Review
- Mutant polymerases capable of 2' fluoro-modified nucleic acid synthesis and amplification with improved accuracy.RSC chemical biology · 2022Article
- Directed Evolution Methods for Enzyme Engineering.Molecules (Basel, Switzerland) · 2021Review
- Direct Mapping of Higher-Order RNA Interactions by SHAPE-JuMP.Biochemistry · 2021Article
- Synthesis of Polyanionic C5-Modified 2'-Deoxyuridine and 2'-Deoxycytidine-5'-Triphosphates and Their Properties as Substrates for DNA Polymerases.Molecules (Basel, Switzerland) · 2021Article
- Review
- Multiplexed identification, quantification and genotyping of infectious agents using a semiconductor biochip.Nature biotechnology · 2018Article
- dUTPs conjugated with zwitterionic Cy3 or Cy5 fluorophore analogues are effective substrates for DNA amplification and labelling by Taq polymerase.Nucleic acids research · 2018Article
- Base modifications affecting RNA polymerase and reverse transcriptase fidelity.Nucleic acids research · 2018Article
- Review
- Compartmentalized partnered replication for the directed evolution of genetic parts and circuits.Nature protocols · 2017Review
- Exploring the Chemistry of Genetic Information Storage and Propagation through Polymerase Engineering.Accounts of chemical research · 2017Review
- The Toolbox for Modified Aptamers.Molecular biotechnology · 2016Review
- Modified Nucleoside Triphosphates for In-vitro Selection Techniques.Frontiers in chemistry · 2016Review
- A polymerase engineered for bisulfite sequencing.Nucleic acids research · 2015Article
- Enzymatic Synthesis of Nucleic Acids with Defined Regioisomeric 2'-5' Linkages.Angewandte Chemie (International ed. in English) · 2015Article
- Methods for the directed evolution of proteins.Nature reviews. Genetics · 2015Review
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
Abstract
DNA not only transmits genetic information but can also serve as a versatile supramolecular scaffold. Here we describe a strategy for the synthesis and replication of DNA displaying hundreds of substituents using directed evolution of polymerase function by short-patch compartmentalized self-replication (spCSR) and the widely used fluorescent dye labeled deoxinucleotide triphosphates Cy3-dCTP and Cy5-dCTP as substrates. In just two rounds of spCSR selection, we have isolated a polymerase that allows the PCR amplification of double stranded DNA fragments up to 1kb, in which all dC bases are substituted by its fluorescent dye-labeled equivalent Cy3- or Cy5-dC. The resulting "CyDNA" displays hundreds of aromatic heterocycles on the outside of the DNA helix and is brightly colored and highly fluorescent. CyDNA also exhibits significantly altered physicochemical properties compared to standard B-form DNA, including loss of silica and intercalating dye binding, resistance to cleavage by some endonucleases, an up to 40% increased apparent diameter as judged by atomic force microscopy and organic phase partitioning during phenol extraction. CyDNA also displays very bright fluorescence enabling significant signal gains in microarray and microfluidic applications. CyDNA represents a step toward a long-term goal of the encoded synthesis of DNA-based polymers of programmable and evolvable sequence and properties.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.