ArticlePloS one2012
Genomic characterization of DArT markers based on high-density linkage analysis and physical mapping to the Eucalyptus genome.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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33 citing papers in PubMed, 72 citations in OpenAlex.
- Identification and validation of genomic regions for pod shatter resistance in Brassica rapa using QTL-seq and traditional QTL mapping.BMC plant biology · 2025Article
- Genome-wide analysis for root and leaf architecture traits associated with drought tolerance at the seedling stage in a highly ecologically diverse wheat population.Computational and structural biotechnology journal · 2024Article
- Pistachio genomes provide insights into nut tree domestication and ZW sex chromosome evolution.Plant communications · 2023Article
- Genetic assessment of the value of restoration planting within an endangered eucalypt woodland.Scientific reports · 2023Article
- Novel quantitative trait loci from an interspecificFrontiers in plant science · 2023Article
- Consensus genetic map and QTLs for morphological and agronomical traits in mungbean using DArT markers.Physiology and molecular biology of plants : an international journal of functional plant biology · 2022Article
- High-density SNP map facilitates fine mapping of QTLs and candidate genes discovery for Aspergillus flavus resistance in peanut (Arachis hypogaea).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Article
- The evolution of polymorphism in the warning coloration of the Amazonian poison frog Adelphobates galactonotus.Heredity · 2020Article
- Identification of a molecular marker associated with lignotuber in Eucalyptus ssp.Scientific reports · 2020Article
- QTL identification for seed weight and size based on a high-density SLAF-seq genetic map in peanut (Arachis hypogaea L.).BMC plant biology · 2019Article
- Effective BAC clone anchoring with genotyping-by-sequencing and Diversity Arrays Technology in a large genome cereal rye.Scientific reports · 2018Article
- Genetic linkage map and QTL identification for adventitious rooting traits in red gum eucalypts.3 Biotech · 2018Article
- High density SNP and DArT-based genetic linkage maps of two closely related oil palm populations.Journal of applied genetics · 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
- A High-Density Integrated DArTseq SNP-Based Genetic Map ofFrontiers in plant science · 2018Article
- Comparative genomics of Eucalyptus and Corymbia reveals low rates of genome structural rearrangement.BMC genomics · 2017Article
- Article
- The in silico identification and characterization of a bread wheat/Triticum militinae introgression line.Plant biotechnology journal · 2017Article
- Molecular Diversity Analysis and Genetic Mapping of Pod Shatter Resistance Loci inFrontiers in plant science · 2017Article
- Genome-wide variation in recombination rate in Eucalyptus.BMC genomics · 2016Article
Corrections and comments
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Authors and funding
10 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Diversity Arrays Technology (DArT) provides a robust, high throughput, cost-effective method to query thousands of sequence polymorphisms in a single assay. Despite the extensive use of this genotyping platform for numerous plant species, little is known regarding the sequence attributes and genome-wide distribution of DArT markers. We investigated the genomic properties of the 7,680 DArT marker probes of a Eucalyptus array, by sequencing them, constructing a high density linkage map and carrying out detailed physical mapping analyses to the Eucalyptus grandis reference genome. A consensus linkage map with 2,274 DArT markers anchored to 210 microsatellites and a framework map, with improved support for ordering, displayed extensive collinearity with the genome sequence. Only 1.4 Mbp of the 75 Mbp of still unplaced scaffold sequence was captured by 45 linkage mapped but physically unaligned markers to the 11 main Eucalyptus pseudochromosomes, providing compelling evidence for the quality and completeness of the current Eucalyptus genome assembly. A highly significant correspondence was found between the locations of DArT markers and predicted gene models, while most of the 89 DArT probes unaligned to the genome correspond to sequences likely absent in E. grandis, consistent with the pan-genomic feature of this multi-Eucalyptus species DArT array. These comprehensive linkage-to-physical mapping analyses provide novel data regarding the genomic attributes of DArT markers in plant genomes in general and for Eucalyptus in particular. DArT markers preferentially target the gene space and display a largely homogeneous distribution across the genome, thereby providing superb coverage for mapping and genome-wide applications in breeding and diversity studies. Data reported on these ubiquitous properties of DArT markers will be particularly valuable to researchers working on less-studied crop species who already count on DArT genotyping arrays but for which no reference genome is yet available to allow such detailed characterization.
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