ArticleJournal of the American Chemical Society2011
Encoding phenotype in bacteria with an alternative genetic set.
Article in Journal of the American Chemical Society, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
16 citing papers in PubMed, 70 citations in OpenAlex.
- Conformational Morphing by a DNA Analogue Featuring 7-Deazapurines and 5-Halogenpyrimidines and the Origins of Adenine-Tract Geometry.Biochemistry · 2023Article
- From polymerase engineering to semi-synthetic life: artificial expansion of the central dogma.RSC chemical biology · 2022Review
- Synthetic Life with Alternative Nucleic Acids as Genetic Materials.Molecules (Basel, Switzerland) · 2020Review
- Auxotrophy to Xeno-DNA: an exploration of combinatorial mechanisms for a high-fidelity biosafety system for synthetic biology applications.Journal of biological engineering · 2018Review
- Synthetic biology approaches to biological containment: pre-emptively tackling potential risks.Essays in biochemistry · 2016Review
- DNA polymerase θ specializes in incorporating synthetic expanded-size (xDNA) nucleotides.Nucleic acids research · 2016Article
- The expanding world of DNA and RNA.Current opinion in chemical biology · 2016Review
- Computational Evaluation of Nucleotide Insertion Opposite Expanded and Widened DNA by the Translesion Synthesis Polymerase Dpo4.Molecules (Basel, Switzerland) · 2016Article
- Replacement of Thymidine by a Modified Base in the Escherichia coli Genome.Journal of the American Chemical Society · 2016Article
- Gene Silencing Using 4'-thioDNA as an Artificial Template to Synthesize Short Hairpin RNA Without Inducing a Detectable Innate Immune Response.Molecular therapy. Nucleic acids · 2016Article
- Isoguanine and 5-methyl-isocytosine bases, in vitro and in vivo.Chemistry (Weinheim an der Bergstrasse, Germany) · 2015Article
- Structural insights into the effects of 2'-5' linkages on the RNA duplex.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Artificial genetic sets composed of size-expanded base pairs.Angewandte Chemie (International ed. in English) · 2013Review
- Preparing synthetic biology for the world.Frontiers in microbiology · 2013Article
- Efficient and sequence-independent replication of DNA containing a third base pair establishes a functional six-letter genetic alphabet.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- Synthetic constructs in/for the environment: managing the interplay between natural and engineered Biology.FEBS letters · 2012Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
An unnatural base-pair architecture with base pairs 2.4 Å larger than the natural DNA-based genetic system (xDNA) is evaluated for its ability to function like DNA, encoding amino acids in the context of living cells. xDNA bases are structurally analogous to natural bases but homologated by the width of a benzene ring, increasing their sizes and resulting in a duplex that is wider than native B-DNA. Plasmids encoding green fluorescent protein were constructed to contain single and multiple xDNA bases (as many as eight) in both strands and were transformed into Escherichia coli. Although they yielded fewer colonies than the natural control plasmid, in all cases in which a modified plasmid (containing one, two, three, or four consecutive size-expanded base pairs) was used, the correct codon bases were substituted, yielding green colonies. All four xDNA bases (xA, xC, xG, and xT) were found to encode the correct partners in the replicated plasmid DNA, both alone and in longer segments of xDNA. Controls with mutant cell lines having repair functions deleted were found to express the gene correctly, ruling out repair of xDNA and confirming polymerase reading of the unnatural bases. Preliminary experiments with polymerase deletion mutants suggested combined roles of replicative and lesion-bypass polymerases in inserting correct bases opposite xDNA bases and in bypassing the xDNA segments. These experiments demonstrate a biologically functioning synthetic genetic set with larger-than-natural architecture.
Indexed as
Identifiers
What OpenQuestion holds
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.