ArticleScientific reports2016
Molecular Inversion Probes for targeted resequencing in non-model organisms.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed.
- Development and implementation of nested single-nucleotide polymorphism (SNP) assays for breeding and genetic research applications.The plant genome · 2024Article
- Unravelling inversions: Technological advances, challenges, and potential impact on crop breeding.Plant biotechnology journal · 2024Review
- Non-MHC immunity genes do not affect parasite load in European invasive populations of common raccoon.Scientific reports · 2023Article
- Genomic analysis reveals complex population structure within the smooth newt,Ecology and evolution · 2023Article
- Development of molecular inversion probes for soybean progeny genomic selection genotyping.The plant genome · 2023Article
- Complex patterns shape immune genes diversity during invasion of common raccoon in Europe - Selection in action despite genetic drift.Evolutionary applications · 2023Article
- Genotyping by Sequencing Advancements in Barley.Frontiers in plant science · 2022Review
- Coevolution between MHC Class I and Antigen-Processing Genes in Salamanders.Molecular biology and evolution · 2021Article
- Molecular Evolution of Antigen-Processing Genes in Salamanders: Do They Coevolve with MHC Class I Genes?Genome biology and evolution · 2021Article
- Tracing species replacement in Iberian marbled newts.Ecology and evolution · 2021Article
- Soybean BARCSoySNP6K: An assay for soybean genetics and breeding research.The Plant journal : for cell and molecular biology · 2020Article
- Review
- Quantitative assessment of LASSO probe assembly and long-read multiplexed cloning.BMC biotechnology · 2019Article
- Single Molecule Molecular Inversion Probes for High Throughput Germline Screenings in Dystonia.Frontiers in neurology · 2019Article
- HD-Marker: a highly multiplexed and flexible approach for targeted genotyping of more than 10,000 genes in a single-tube assay.Genome research · 2018Article
- Balancing selection and introgression of newt immune-response genes.Proceedings. Biological sciences · 2018Article
- The State of "Frontiers in genetics · 2018Review
- Linkage Map ofG3 (Bethesda, Md.) · 2017Article
- Genetic Approaches to Understanding Psychiatric Disease.Neurotherapeutics : the journal of the American Society for Experimental NeuroTherapeutics · 2017Review
- Next-Generation Sequencing in Oncology: Genetic Diagnosis, Risk Prediction and Cancer Classification.International journal of molecular sciences · 2017Review
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Applications that require resequencing of hundreds or thousands of predefined genomic regions in numerous samples are common in studies of non-model organisms. However few approaches at the scale intermediate between multiplex PCR and sequence capture methods are available. Here we explored the utility of Molecular Inversion Probes (MIPs) for the medium-scale targeted resequencing in a non-model system. Markers targeting 112 bp of exonic sequence were designed from transcriptome of Lissotriton newts. We assessed performance of 248 MIP markers in a sample of 85 individuals. Among the 234 (94.4%) successfully amplified markers 80% had median coverage within one order of magnitude, indicating relatively uniform performance; coverage uniformity across individuals was also high. In the analysis of polymorphism and segregation within family, 77% of 248 tested MIPs were confirmed as single copy Mendelian markers. Genotyping concordance assessed using replicate samples exceeded 99%. MIP markers for targeted resequencing have a number of advantages: high specificity, high multiplexing level, low sample requirement, straightforward laboratory protocol, no need for preparation of genomic libraries and no ascertainment bias. We conclude that MIP markers provide an effective solution for resequencing targets of tens or hundreds of kb in any organism and in a large number of samples.
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