ArticlePloS one2012
Single molecule PCR reveals similar patterns of non-homologous DSB repair in tobacco and Arabidopsis.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 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
21 citing papers in PubMed, 31 citations in OpenAlex.
- Genome Editing and Protein Energy Malnutrition.Advances in experimental medicine and biology · 2023Article
- Random mutagenesis in vegetatively propagated crops: opportunities, challenges and genome editing prospects.Molecular biology reports · 2022Article
- Genome editing of polyploid crops: prospects, achievements and bottlenecks.Transgenic research · 2021Review
- CRISPR-Based Genome Editing Tools: Insights into Technological Breakthroughs and Future Challenges.Genes · 2021Review
- Plant DNA Repair Pathways and Their Applications in Genome Engineering.Methods in molecular biology (Clifton, N.J.) · 2019Review
- Plant Genome Engineering for Targeted Improvement of Crop Traits.Frontiers in plant science · 2019Review
- Mosaic mitochondrial-plastid insertions into the nuclear genome show evidence of both non-homologous end joining and homologous recombination.BMC evolutionary biology · 2018Article
- Targeted recombination between homologous chromosomes for precise breeding in tomato.Nature communications · 2017Article
- CRISPR/Cas9-Induced Double-Strand Break Repair in Arabidopsis Nonhomologous End-Joining Mutants.G3 (Bethesda, Md.) · 2017Article
- Gene stacking by recombinases.Plant biotechnology journal · 2016Review
- Gene stacking in plant cell using recombinases for gene integration and nucleases for marker gene deletion.BMC biotechnology · 2015Article
- Genetic basis and detection of unintended effects in genetically modified crop plants.Transgenic research · 2015Review
- DNA damage and repair in plants - from models to crops.Frontiers in plant science · 2015Review
- Article
- DNA recombination in somatic plant cells: mechanisms and evolutionary consequences.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2014Review
- Natural insertions in rice commonly form tandem duplications indicative of patch-mediated double-strand break induction and repair.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Is non-homologous end-joining really an inherently error-prone process?PLoS genetics · 2014Review
- Poly(ADP-ribose)polymerases are involved in microhomology mediated back-up non-homologous end joining in Arabidopsis thaliana.Plant molecular biology · 2013Article
- Cytoplasmic organelle DNA preferentially inserts into open chromatin.Genome biology and evolution · 2013Article
- Reevaluation of the reliability and usefulness of the somatic homologous recombination reporter lines.The Plant cell · 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
3 authors at 1 institution in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
DNA double strand breaks (DSBs) occur constantly in eukaryotes. These potentially lethal DNA lesions are repaired efficiently by two major DSB repair pathways: homologous recombination and non-homologous end joining (NHEJ). We investigated NHEJ in Arabidopsis thaliana and tobacco (Nicotiana tabacum) by introducing DNA double-strand breaks through inducible expression of I-SceI, followed by amplification of individual repair junction sequences by single-molecule PCR. Using this process over 300 NHEJ repair junctions were analysed in each species. In contrast to previously published variation in DSB repair between Arabidopsis and tobacco, the two species displayed similar DSB repair profiles in our experiments. The majority of repair events resulted in no loss of sequence and small (1-20 bp) deletions occurred at a minority (25-45%) of repair junctions. Approximately ~1.5% of the observed repair events contained larger deletions (>20 bp) and a similar percentage contained insertions. Strikingly, insertion events in tobacco were associated with large genomic deletions at the site of the DSB that resulted in increased micro-homology at the sequence junctions suggesting the involvement of a non-classical NHEJ repair pathway. The generation of DSBs through inducible expression of I-SceI, in combination with single molecule PCR, provides an effective and efficient method for analysis of individual repair junctions and will prove a useful tool in the analysis of NHEJ.
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.