ArticleBMC genomics2016
Construction of high resolution genetic linkage maps to improve the soybean genome sequence assembly Glyma1.01.
Article in BMC genomics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 80 papers.
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Who cites it
80 citing papers in PubMed, 148 citations in OpenAlex.
- Korean Soybean Nested Association Mapping (K-SoyNAM) population: genetic linkage map, genetic mapping, and genotype imputation.BMC genomics · 2026Article
- Quantitative trait loci analysis identifying novel genomic regions for off-target dicamba tolerance in soybean [Glycine max (L.) Merr.].BMC plant biology · 2026Article
- Integrative Transcriptomic Analysis and Co-Expression Network Characterization of Soybean Developmental Tissues.Plants (Basel, Switzerland) · 2026Article
- Mining resistance genes of soybean cyst nematode based on genome-wide association study.Frontiers in plant science · 2026Article
- Accumulating Heterozygous Deleterious Mutations in Conserved Soybean Germplasm over Successive Regenerations.Plants (Basel, Switzerland) · 2025Article
- Low density marker-based effectiveness and efficiency of early-generation genomic selection relative to phenotype-based selection in dolichos bean (Lablab purpureus L. Sweet).The plant genome · 2025Article
- Allelism of Rps3b and Rps11 revealed by NLR gene capture of resistance genes to Phytophthora sojae in soybean.The plant genome · 2025Article
- Genomic and biochemical comparison of allelic triple-mutant lines derived from conventional breeding and multiplex gene editing.The plant genome · 2025Article
- A tritrophic plant-insect-pathogen system used to develop a closely linked Rag2 and Rsv1-h recombinant haplotype in double-resistant soybean germplasm.BMC genomics · 2025Article
- Characterization of a G. max × G. soja nested association mapping population and identification of loci controlling seed composition traits from wild soybean.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- QTL mapping and whole-genome sequencing analysis for novel genetic resources associated with sucrose content in soybean [Glycine max (L.) Merr.].TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Harnessing Multi-Omics Strategies and Bioinformatics Innovations for Advancing Soybean Improvement: A Comprehensive Review.Plants (Basel, Switzerland) · 2024Review
- Development and implementation of nested single-nucleotide polymorphism (SNP) assays for breeding and genetic research applications.The plant genome · 2024Article
- Ability of Genomic Prediction to Bi-Parent-Derived Breeding Population Using Public Data for Soybean Oil and Protein Content.Plants (Basel, Switzerland) · 2024Article
- Genetic mapping reveals the complex genetic architecture controlling slow canopy wilting in soybean.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- High-density genetic linkage mapping in Sitka spruce advances the integration of genomic resources in conifers.G3 (Bethesda, Md.) · 2024Article
- Unveiling synergistic QTLs associated with slow wilting in soybean (Glycine max [L.] Merr.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Common signatures of selection reveal target loci for breeding across soybean populations.The plant genome · 2024Article
- Article
- Genome-wide association study reveals GmFulb as candidate gene for maturity time and reproductive length in soybeans (Glycine max).PloS one · 2024Article
20 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
8 authors at 5 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundA landmark in soybean research, Glyma1.01, the first whole genome sequence of variety Williams 82 (Glycine max L. Merr.) was completed in 2010 and is widely used. However, because the assembly was primarily built based on the linkage maps constructed with a limited number of markers and recombinant inbred lines (RILs), the assembled sequence, especially in some genomic regions with sparse numbers of anchoring markers, needs to be improved. Molecular markers are being used by researchers in the soybean community, however, with the updating of the Glyma1.01 build based on the high-resolution linkage maps resulting from this research, the genome positions of these markers need to be mapped.
resultsTwo high density genetic linkage maps were constructed based on 21,478 single nucleotide polymorphism loci mapped in the Williams 82 x G. soja (Sieb. & Zucc.) PI479752 population with 1083 RILs and 11,922 loci mapped in the Essex x Williams 82 population with 922 RILs. There were 37 regions or single markers where marker order in the two populations was in agreement but was not consistent with the physical position in the Glyma1.01 build. In addition, 28 previously unanchored scaffolds were positioned. Map data were used to identify false joins in the Glyma1.01 assembly and the corresponding scaffolds were broken and reassembled to the new assembly, Wm82.a2.v1. Based upon the plots of the genetic on physical distance of the loci, the euchromatic and heterochromatic regions along each chromosome in the new assembly were delimited. Genomic positions of the commonly used markers contained in BARCSOYSSR_1.0 database and the SoySNP50K BeadChip were updated based upon the Wm82.a2.v1 assembly.
conclusionsThe information will facilitate the study of recombination hot spots in the soybean genome, identification of genes or quantitative trait loci controlling yield, seed quality and resistance to biotic or abiotic stresses as well as other genetic or genomic research.
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