ArticlePloS one2011
Saturation of an intra-gene pool linkage map: towards a unified consensus linkage map for fine mapping and synteny analysis in common bean.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers, 2 of them syntheses that pooled it.
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Who cites it
26 citing papers in PubMed, 2 syntheses or guidelines pooled it, 66 citations in OpenAlex.
- Genome-wide meta-QTL analyses provide novel insight into disease resistance repertoires in common bean.BMC genomics · 2022Pooled it
- Meta-QTL analysis of seed iron and zinc concentration and content in common bean (Phaseolus vulgaris L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2018Pooled it
- Simulations of multiple breeding strategy scenarios in common bean for assessing genomic selection accuracy and model updating.The plant genome · 2024Article
- Simulations of rate of genetic gain in dry bean breeding programs.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023Article
- A high-density integrated map for grapevine based on three mapping populations genotyped by the Vitis18K SNP chip.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- Yield-Related QTL Clusters and the Potential Candidate Genes in Two Wheat DH Populations.International journal of molecular sciences · 2021Article
- Mapping Recombination Landscape and Basidial Spore Number in the Button MushroomFrontiers in fungal biology · 2021Article
- Angular Leaf Spot ResistanceFrontiers in plant science · 2021Article
- Review
- Development of new genetic resources for faba bean (Vicia faba L.) breeding through the discovery of gene-based SNP markers and the construction of a high-density consensus map.Scientific reports · 2020Article
- Construction and integration of genetic linkage maps from three multi-parent advanced generation inter-cross populations in rice.Rice (New York, N.Y.) · 2020Article
- Marker-Trait Association Analysis of Seed Traits in Accessions of Common Bean (Frontiers in genetics · 2020Article
- Genetic analysis and QTL mapping of the seed hardness trait in a black common bean (Molecular breeding : new strategies in plant improvement · 2018Article
- A Review on Current Status and Future Prospects of Winged Bean (Psophocarpus tetragonolobus) in Tropical Agriculture.Plant foods for human nutrition (Dordrecht, Netherlands) · 2017Review
- A High-Density Consensus Map of Common Wheat Integrating Four Mapping Populations Scanned by the 90K SNP Array.Frontiers in plant science · 2017Article
- Construction of a high-density integrated genetic linkage map of rubber tree (Hevea brasiliensis) using genotyping-by-sequencing (GBS).Frontiers in plant science · 2015Article
- Analysis of BAC-end sequences in common bean (Phaseolus vulgaris L.) towards the development and characterization of long motifs SSRs.Plant molecular biology · 2014Article
- Transcriptome sequencing for high throughput SNP development and genetic mapping in Pea.BMC genomics · 2014Article
- BAC-end microsatellites from intra and inter-genic regions of the common bean genome and their correlation with cytogenetic features.PloS one · 2014Article
- A high-density SNP Map of sunflower derived from RAD-sequencing facilitating fine-mapping of the rust resistance gene R12.PloS one · 2014Article
Corrections and comments
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Authors and funding
7 authors at 6 institutions in 4 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Map-based cloning and fine mapping to find genes of interest and marker assisted selection (MAS) requires good genetic maps with reproducible markers. In this study, we saturated the linkage map of the intra-gene pool population of common bean DOR364 × BAT477 (DB) by evaluating 2,706 molecular markers including SSR, SNP, and gene-based markers. On average the polymorphism rate was 7.7% due to the narrow genetic base between the parents. The DB linkage map consisted of 291 markers with a total map length of 1,788 cM. A consensus map was built using the core mapping populations derived from inter-gene pool crosses: DOR364 × G19833 (DG) and BAT93 × JALO EEP558 (BJ). The consensus map consisted of a total of 1,010 markers mapped, with a total map length of 2,041 cM across 11 linkage groups. On average, each linkage group on the consensus map contained 91 markers of which 83% were single copy markers. Finally, a synteny analysis was carried out using our highly saturated consensus maps compared with the soybean pseudo-chromosome assembly. A total of 772 marker sequences were compared with the soybean genome. A total of 44 syntenic blocks were identified. The linkage group Pv6 presented the most diverse pattern of synteny with seven syntenic blocks, and Pv9 showed the most consistent relations with soybean with just two syntenic blocks. Additionally, a co-linear analysis using common bean transcript map information against soybean coding sequences (CDS) revealed the relationship with 787 soybean genes. The common bean consensus map has allowed us to map a larger number of markers, to obtain a more complete coverage of the common bean genome. Our results, combined with synteny relationships provide tools to increase marker density in selected genomic regions to identify closely linked polymorphic markers for indirect selection, fine mapping or for positional cloning.
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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.