ArticleNucleic acids research2013
Quantitative analysis of TALE-DNA interactions suggests polarity effects.
Article in Nucleic acids research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 86 papers.
What it found
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Who cites it
86 citing papers in PubMed, 155 citations in OpenAlex.
- Unconstrained Precision Mitochondrial Genome Editing with αDdCBEs.Human gene therapy · 2024Article
- Designer TALEs enable discovery of cell death-inducer genes.Plant physiology · 2024Article
- Corneal gene therapy: Structural and mechanistic understanding.The ocular surface · 2023Article
- A single promoter-TALE system for tissue-specific and tuneable expression of multiple genes in rice.Plant biotechnology journal · 2022Article
- Review
- Flexible TALEs for an expanded use in gene activation, virulence and scaffold engineering.Nucleic acids research · 2022Article
- Altering transcription factor binding reveals comprehensive transcriptional kinetics of a basic gene.Nucleic acids research · 2021Article
- TAL Effector Repertoires of Strains ofMicroorganisms · 2021Article
- Tools for experimental and computational analyses of off-target editing by programmable nucleases.Nature protocols · 2021Review
- Tuning up Transcription Factors for Therapy.Molecules (Basel, Switzerland) · 2020Review
- Divalent cations promote TALE DNA-binding specificity.Nucleic acids research · 2020Article
- Context and number of noncanonical repeat variable diresidues impede the design of TALE proteins with improved DNA targeting.Protein science : a publication of the Protein Society · 2020Article
- PrediTALE: A novel model learned from quantitative data allows for new perspectives on TALE targeting.PLoS computational biology · 2019Article
- Split-TALE: A TALE-Based Two-Component System for Synthetic Biology Applications in Planta.Plant physiology · 2019Article
- Polarized displacement by transcription activator-like effectors for regulatory circuits.Nature chemical biology · 2019Article
- Selective recognition ofPhilosophical transactions of the Royal Society of London. Series B, Biological sciences · 2018Article
- Engineering altered protein-DNA recognition specificity.Nucleic acids research · 2018Review
- RNA-binding specificity landscapes of designer pentatricopeptide repeat proteins elucidate principles of PPR-RNA interactions.Nucleic acids research · 2018Article
- Tandem Histone-Binding Domains Enhance the Activity of a Synthetic Chromatin Effector.ACS synthetic biology · 2018Article
- Fine and Predictable Tuning of TALEN Gene Editing Targeting for Improved T Cell Adoptive Immunotherapy.Molecular therapy. Nucleic acids · 2017Article
26 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
13 authors at 2 institutions in 2 countries.
Funding
Abstract
Transcription activator-like effectors (TALEs) have revolutionized the field of genome engineering. We present here a systematic assessment of TALE DNA recognition, using quantitative electrophoretic mobility shift assays and reporter gene activation assays. Within TALE proteins, tandem 34-amino acid repeats recognize one base pair each and direct sequence-specific DNA binding through repeat variable di-residues (RVDs). We found that RVD choice can affect affinity by four orders of magnitude, with the relative RVD contribution in the order NG > HD ≈ NN >> NI > NK. The NN repeat preferred the base G over A, whereas the NK repeat bound G with 10(3)-fold lower affinity. We compared AvrBs3, a naturally occurring TALE that recognizes its target using some atypical RVD-base combinations, with a designed TALE that precisely matches 'standard' RVDs with the target bases. This comparison revealed unexpected differences in sensitivity to substitutions of the invariant 5'-T. Another surprising observation was that base mismatches at the 5' end of the target site had more disruptive effects on affinity than those at the 3' end, particularly in designed TALEs. These results provide evidence that TALE-DNA recognition exhibits a hitherto un-described polarity effect, in which the N-terminal repeats contribute more to affinity than C-terminal ones.
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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.