ArticlePloS one2015
Using Next Generation Sequencing for Multiplexed Trait-Linked Markers in Wheat.
Article in PloS one, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- MianxinNo.1: a modern cultivar genome-informed SNP array based on cGPS technology for genomics-assisted breeding in cotton.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Next-Generation Genotyping: Innovations Driving Plant Genomic Improvement.Life (Basel, Switzerland) · 2026Review
- Article
- Genetic architecture of adult-plant resistance to stripe rust in bread wheat (Frontiers in plant science · 2023Article
- Identification of Secreted Protein Gene-Based SNP Markers Associated with Virulence Phenotypes ofInternational journal of molecular sciences · 2022Article
- Whole-exome sequencing of selected bread wheat recombinant inbred lines as a useful resource for allele mining and bulked segregant analysis.Frontiers in genetics · 2022Article
- Molecular Fingerprinting and Hybridity Authentication in Cowpea Using Single Nucleotide Polymorphism Based Kompetitive Allele-Specific PCR Assay.Frontiers in plant science · 2021Article
- Genotyping by multiplexed sequencing (GMS): A customizable platform for genomic selection.PloS one · 2020Article
- Multifamily QTL analysis and comprehensive design of genotypes for high-quality soft wheat.PloS one · 2020Article
- Multiplex restriction amplicon sequencing: a novel next-generation sequencing-based marker platform for high-throughput genotyping.Plant biotechnology journal · 2020Article
- Imputation accuracy of wheat genotyping-by-sequencing (GBS) data using barley and wheat genome references.PloS one · 2019Article
- Development and validation of diagnostic markers for Fhb1 region, a major QTL for Fusarium head blight resistance in wheat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2018Article
- An efficient approach for the development of genome-specific markers in allohexaploid wheat (Triticum aestivum L.) and its application in the construction of high-density linkage maps of the D genome.DNA research : an international journal for rapid publication of reports on genes and genomes · 2018Article
- Resequencing of Capsicum annuum parental lines (YCM334 and Taean) for the genetic analysis of bacterial wilt resistance.BMC plant biology · 2016Article
- Identification of Single Nucleotide Polymorphisms Associated with Brown Rust Resistance, α-Amylase Activity and Pre-harvest Sprouting in Rye (Plant molecular biology reporterArticle
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
With the advent of next generation sequencing (NGS) technologies, single nucleotide polymorphisms (SNPs) have become the major type of marker for genotyping in many crops. However, the availability of SNP markers for important traits of bread wheat (Triticum aestivum L.) that can be effectively used in marker-assisted selection (MAS) is still limited and SNP assays for MAS are usually uniplex. A shift from uniplex to multiplex assays will allow the simultaneous analysis of multiple markers and increase MAS efficiency. We designed 33 locus-specific markers from SNP or indel-based marker sequences that linked to 20 different quantitative trait loci (QTL) or genes of agronomic importance in wheat and analyzed the amplicon sequences using an Ion Torrent Proton Sequencer and a custom allele detection pipeline to determine the genotypes of 24 selected germplasm accessions. Among the 33 markers, 27 were successfully multiplexed and 23 had 100% SNP call rates. Results from analysis of "kompetitive allele-specific PCR" (KASP) and sequence tagged site (STS) markers developed from the same loci fully verified the genotype calls of 23 markers. The NGS-based multiplexed assay developed in this study is suitable for rapid and high-throughput screening of SNPs and some indel-based markers in wheat.
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