ArticleBMC biology2010
Genome-wide SNP identification by high-throughput sequencing and selective mapping allows sequence assembly positioning using a framework genetic linkage map.
Article in BMC biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- Assemblies of the genomes of parasitic wasps using meta-assembly and scaffolding with genetic linkage.G3 (Bethesda, Md.) · 2022Article
- Article
- Construction of a high-density, high-quality genetic map of cultivated lotus (Nelumbo nucifera) using next-generation sequencing.BMC genomics · 2016Article
- Identification and Validation of SNP Markers Linked to Dwarf Traits Using SLAF-Seq Technology in Lagerstroemia.PloS one · 2016Article
- Genetic differences among ethnic groups.BMC genomics · 2015Article
- Construction of a reference genetic map of Raphanus sativus based on genotyping by whole-genome resequencing.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2015Article
- Article
- Molecular genetics and genomics of the Rosoideae: state of the art and future perspectives.Horticulture research · 2014Review
- Saturated linkage map construction in Rubus idaeus using genotyping by sequencing and genome-independent imputation.BMC genomics · 2013Article
- De novo transcriptome sequencing and analysis for Venturia inaequalis, the devastating apple scab pathogen.PloS one · 2013Article
- Genome evolution in filamentous plant pathogens: why bigger can be better.Nature reviews. Microbiology · 2012Review
- Application of genomic tools in plant breeding.Current genomics · 2012Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundDetermining the position and order of contigs and scaffolds from a genome assembly within an organism's genome remains a technical challenge in a majority of sequencing projects. In order to exploit contemporary technologies for DNA sequencing, we developed a strategy for whole genome single nucleotide polymorphism sequencing allowing the positioning of sequence contigs onto a linkage map using the bin mapping method.
resultsThe strategy was tested on a draft genome of the fungal pathogen Venturia inaequalis, the causal agent of apple scab, and further validated using sequence contigs derived from the diploid plant genome Fragaria vesca. Using our novel method we were able to anchor 70% and 92% of sequences assemblies for V. inaequalis and F. vesca, respectively, to genetic linkage maps.
conclusionsWe demonstrated the utility of this approach by accurately determining the bin map positions of the majority of the large sequence contigs from each genome sequence and validated our method by mapping single sequence repeat markers derived from sequence contigs on a full mapping population.
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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.