ArticleScientific reports2021
PRIMA: a rapid and cost-effective genotyping method to detect single-nucleotide differences using probe-induced heteroduplexes.
Article in Scientific reports, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed.
- Four Large Indels in Barley Chloroplast Mutator (International journal of molecular sciences · 2025Article
- Agrobacterium-Mediated Transformation and Targeted Mutagenesis Using SpCas12f in Rice.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Detection of SARS-CoV-2 spike protein D614G mutation using μTGGE.Molecular biology reports · 2024Article
- Efficient detection of single nucleotide variants in targeted genomic loci.Development, growth & differentiation · 2024Article
- Crossing a CRISPR/Cas9 transgenic tomato plant with a wild-type plant yields diverse mutations in the FFrontiers in plant science · 2024Article
- A pair of primers facing at the double-strand break site enables to detect NHEJ-mediated indel mutations at a 1-bp resolution.Scientific reports · 2022Article
- Review
- Pollen Number and Ribosome Gene Expression Altered in a Genome-Editing Mutant ofFrontiers in plant science · 2021Article
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Authors and funding
3 authors.
Funding
Abstract
Targeted mutagenesis by programmable site-specific nucleases like CRISPR typically produce 1-base pair (bp) insertion or deletion (indel) mutations. Although several methods have been developed to detect such 1-bp indels, each method has pros and cons in terms of cost and/or resolution. Heteroduplex mobility assay (HMA) is a traditional technique detecting small base pair differences but it has a limited resolution of mutation size and the band patterns are often complex. Here, we developed a new method called PRIMA (Probe-Induced HMA) using a short single-stranded DNA molecule as a probe in HMA. By utilizing a 40-mer probe containing a 5-nucleotide deletion, we assessed the mobility of a heteroduplex with a target DNA fragment from a plant, bacterium, and human. This method allowed us to detect a 1-bp indel mutation consistently. We also showed that SNPs can be detected using PRIMA. PRIMA provides a rapid and cost-effective solution for the genotyping.
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