ArticleG3 (Bethesda, Md.)2014
The use of SNP markers for linkage mapping in diploid and tetraploid peanuts.
Article in G3 (Bethesda, Md.), 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed.
- Article
- Promiscuous potato: elucidating genetic identity and the complex genetic relationships of a cultivated potato germplasm collection.Frontiers in plant science · 2024Article
- Genome-Wide Association Study for Agro-Morphological Traits in Eggplant Core Collection.Plants (Basel, Switzerland) · 2022Article
- Genetic mapping and QTL analysis for peanut smut resistance.BMC plant biology · 2021Article
- Use of Targeted Amplicon Sequencing in Peanut to Generate Allele Information on Allotetraploid Sub-Genomes.Genes · 2020Article
- Pod and Seed Trait QTL Identification To Assist Breeding for Peanut Market Preferences.G3 (Bethesda, Md.) · 2020Article
- Expression Quantitative Trait Loci (eQTL) mapping for callose synthases in intergeneric hybrids of Citrus challenged with the bacteria Candidatus Liberibacter asiaticus.Genetics and molecular biology · 2020Article
- A recombination bin-map identified a major QTL for resistance to Tomato Spotted Wilt Virus in peanut (Arachis hypogaea).Scientific reports · 2019Article
- Genetics, genomics and breeding of groundnut (Plant breeding = Zeitschrift fur Pflanzenzuchtung · 2019Review
- Evaluation of linkage disequilibrium, population structure, and genetic diversity in the U.S. peanut mini core collection.BMC genomics · 2019Article
- Genetic imprints of domestication for disease resistance, oil quality, and yield component traits in groundnut (Arachis hypogaea L.).Molecular genetics and genomics : MGG · 2019Article
- SNP genotyping reveals major QTLs for plant architectural traits between A-genome peanut wild species.Molecular genetics and genomics : MGG · 2018Article
- Article
- High-Density Genetic Map Construction and Identification of QTLs Controlling Oleic and Linoleic Acid in Peanut using SLAF-seq and SSRs.Scientific reports · 2018Article
- Development of a High-Density Genetic Map Based on Specific Length Amplified Fragment Sequencing and Its Application in Quantitative Trait Loci Analysis for Yield-Related Traits in Cultivated Peanut.Frontiers in plant science · 2018Article
- Resistance to Thrips in Peanut and Implications for Management of Thrips and Thrips-Transmitted Orthotospoviruses in Peanut.Frontiers in plant science · 2018Review
- A high-density SNP genetic map consisting of a complete set of homologous groups in autohexaploid sweetpotato (Ipomoea batatas).Scientific reports · 2017Article
- Genome-wide SNP Genotyping Resolves Signatures of Selection and Tetrasomic Recombination in Peanut.Molecular plant · 2017Article
- PERGOLA: fast and deterministic linkage mapping of polyploids.BMC bioinformatics · 2017Article
- Genome-Wide Association Study of Major Agronomic Traits Related to Domestication in Peanut.Frontiers in plant science · 2017Article
Corrections and comments
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Single nucleotide polymorphic markers (SNPs) are attractive for use in genetic mapping and marker-assisted breeding because they can be scored in parallel assays at favorable costs. However, scoring SNP markers in polyploid plants like the peanut is problematic because of interfering signal generated from the DNA bases that are homeologous to those being assayed. The present study used a previously constructed 1536 GoldenGate SNP assay developed using SNPs identified between two A. duranensis accessions. In this study, the performance of this assay was tested on two RIL mapping populations, one diploid (A. duranensis × A. stenosperma) and one tetraploid [A. hypogaea cv. Runner IAC 886 × synthetic tetraploid (A. ipaënsis × A. duranensis)(4×)]. The scoring was performed using the software GenomeStudio version 2011.1. For the diploid, polymorphic markers provided excellent genotyping scores with default software parameters. In the tetraploid, as expected, most of the polymorphic markers provided signal intensity plots that were distorted compared to diploid patterns and that were incorrectly scored using default parameters. However, these scorings were easily corrected using the GenomeStudio software. The degree of distortion was highly variable. Of the polymorphic markers, approximately 10% showed no distortion at all behaving as expected for single-dose markers, and another 30% showed low distortion and could be considered high-quality. The genotyped markers were incorporated into diploid and tetraploid genetic maps of Arachis and, in the latter case, were located almost entirely on A genome linkage groups.
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