ArticleFunctional & integrative genomics2014
A high-throughput SNP array in the amphidiploid species Brassica napus shows diversity in resistance genes.
Article in Functional & integrative genomics, 2014. 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, 47 citations in OpenAlex.
- Mapping QTLs with main, epistatic, and QTL × environment effects for secondary seed dormancy using backcross recombinant inbred lines in Brassica napus L.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Identification of candidate single-nucleotide polymorphisms (SNPs) and genes associated with sugarcane leaf scald disease.Scientific reports · 2024Article
- Dissecting the Meiotic Recombination Patterns in aInternational journal of molecular sciences · 2023Article
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- Genomic background selection to reduce the mutation load after random mutagenesis.Scientific reports · 2021Article
- Omics: The way forward to enhance abiotic stress tolerance inGM crops & food · 2021Review
- Utilization of a Sugarcane100K Single Nucleotide Polymorphisms Microarray-Derived High-Density Genetic Map in Quantitative Trait Loci Mapping and Function Role Prediction of Genes Related to Chlorophyll Content in Sugarcane.Frontiers in plant science · 2021Article
- Genomics Armed With Diversity Leads the Way inFrontiers in genetics · 2021Review
- Development and Applications of a High Throughput Genotyping Tool for Polyploid Crops: Single Nucleotide Polymorphism (SNP) Array.Frontiers in plant science · 2018Review
- Tools for Genetic Studies in Experimental Populations of Polyploids.Frontiers in plant science · 2018Review
- Copy number variation and disease resistance in plants.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2017Review
- A user guide to the Brassica 60K Illumina Infinium™ SNP genotyping array.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2017Review
- A high-density SNP genotyping array for Brassica napus and its ancestral diploid species based on optimised selection of single-locus markers in the allotetraploid genome.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2016Article
- Diversity analysis and genomic prediction of Sclerotinia resistance in sunflower using a new 25 K SNP genotyping array.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2016Article
- Genome-wide Association Study Identifies New Loci for Resistance toFrontiers in plant science · 2016Article
- Identification of Rapeseed MicroRNAs Involved in Early Stage Seed Germination under Salt and Drought Stresses.Frontiers in plant science · 2016Article
- RNA-Seq mediated root transcriptome analysis of Chlorophytum borivilianum for identification of genes involved in saponin biosynthesis.Functional & integrative genomics · 2016Article
- De novo assembly and functional annotation of Myrciaria dubia fruit transcriptome reveals multiple metabolic pathways for L-ascorbic acid biosynthesis.BMC genomics · 2015Article
- Development of a 63K SNP Array for Cotton and High-Density Mapping of Intraspecific and Interspecific Populations of Gossypium spp.G3 (Bethesda, Md.) · 2015Article
Corrections and comments
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Authors and funding
16 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Single-nucleotide polymorphisms (SNPs)are molecular markers based on nucleotide variation and can be used for genotyping assays across populations and to track genomic inheritance. SNPs offer a comprehensive genotyping alternative to whole-genome sequencing for both agricultural and research purposes including molecular breeding and diagnostics, genome evolution and genetic diversity analyses, genetic mapping, and trait association studies. Here genomic SNPs were discovered between four cultivars of the important amphidiploid oilseed species Brassica napus and used to develop a B. napus Infinium™ array containing 5,306 SNPs randomly dispersed across the genome. Assay success was high, with >94 % of these producing a reproducible, polymorphic genotype in the 1,070 samples screened. Although the assay was designed to B. napus, successful SNP amplification was achieved in the B. napus progenitor species, Brassica rapa and Brassica oleracea, and to a lesser extent in the related species Brassica nigra. Phylogenetic analysis was consistent with the expected relationships between B. napus individuals. This study presents an efficient custom SNP assay development pipeline in the complex polyploid Brassica genome and demonstrates the utility of the array for high-throughput genotyping in a number of related Brassica species. It also demonstrates the utility of this assay in genotyping resistance genes on chromosome A7, which segregate amongst the 1,070 samples.
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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.