ArticleJournal of experimental botany2019
Mapping of transgenic alleles in soybean using a nanopore-based sequencing strategy.
Article in Journal of experimental botany, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Transgene Mapping in Animals: What to Choose?International journal of molecular sciences · 2025Review
- Analysis of the Candidate Genes and Underlying Molecular Mechanism of P198, an RNAi-Related Dwarf and Sterile Line.International journal of molecular sciences · 2023Article
- Targeted Nanopore Resequencing and Methylation Analysis of LINE-1 Retrotransposons.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Identification of T-DNA structure and insertion site in transgenic crops using targeted capture sequencing.Frontiers in plant science · 2023Article
- LIFE-Seq: a universal Large Integrated DNA Fragment Enrichment Sequencing strategy for deciphering the transgene integration of genetically modified organisms.Plant biotechnology journal · 2022Article
- InMut-finder: a software tool for insertion identification in mutagenesis using Nanopore long reads.BMC genomics · 2021Article
- Review
- Measurement of Transgene Copy Number in Plants Using Droplet Digital PCR.Bio-protocol · 2021Article
- Using Combined Methods of Genetic Mapping and Nanopore-Based Sequencing Technology to Analyze the Insertion Positions ofFrontiers in plant science · 2021Article
- Analysis of the transgene insertion pattern in a transgenic mouse strain using long-read sequencing.Experimental animals · 2020Article
- Strategies for reducing per-sample costs in target capture sequencing for phylogenomics and population genomics in plants.Applications in plant sciences · 2020Review
- Rapid and Detailed Characterization of Transgene Insertion Sites in Genetically Modified Plants via Nanopore Sequencing.Frontiers in plant science · 2020Article
- Biotechnological Perspectives of Omics and Genetic Engineering Methods in Alfalfa.Frontiers in plant science · 2020Review
Corrections and comments
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Authors and funding
10 authors.
Funding
Abstract
Transgenic technology was developed to introduce transgenes into various organisms to validate gene function and add genetic variations >40 years ago. However, the identification of the transgene insertion position is still challenging in organisms with complex genomes. Here, we report a nanopore-based method to map the insertion position of a Ds transposable element originating in maize in the soybean genome. In this method, an oligo probe is used to capture the DNA fragments containing the Ds element from pooled DNA samples of transgenic soybean plants. The Ds element-enriched DNAs are then sequenced using the MinION-based platform of Nanopore. This method allowed us to rapidly map the Ds insertion positions in 51 transgenic soybean lines through a single sequencing run. This strategy is high throughput, convenient, reliable, and cost-efficient. The transgenic allele mapping protocol can be easily translated to other eukaryotes with complex genomes.
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Registered trials
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