ArticleNature genetics2025
The genomic landscape of gene-level structural variations in Japanese and global soybean Glycine max cultivars.
Article in Nature genetics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 12 papers, 1 of them a synthesis that pooled it.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
12 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Research evolution of flat peach (Frontiers in plant science · 2025Pooled it
- Improved sodium dodecyl sulfate-polyacrylamide gel electrophoresis method for quantifying the 11S/7S ratio in soybean storage proteins.Journal of the science of food and agriculture · 2026Article
- Analysis of deep-resequencing data of 984 soybean accessions reveals structural variations underlying agronomic traits.Nature communications · 2026Article
- Genetic characteristics and agronomic traits in leafy head Chinese cabbage breeding.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Toward telomere-to-telomere genomics in Fabaceae: Unlocking comparative and functional insights into symbiotic nitrogen fixation.Cell genomics · 2026Review
- The current state of Japanese soybean breeding using DNA marker technology.Breeding science · 2026Article
- Habitat suitability for the soybean aphid,Frontiers in plant science · 2026Article
- CRISPR/Cas9 ribonucleoprotein-mediated knockout ofFrontiers in plant science · 2026Article
- Regulation of ethyl ester synthesis in two apple (Food chemistry. Molecular sciences · 2025Article
- Uncovering the genetic landscape of soybean accessions from Kazakhstan in comparison with global germplasm using whole genome resequencing.BMC genomics · 2025Article
- Large deletions including inverted repeats of the pseudoBreeding science · 2025Article
- Functional Genomics: From Soybean to Legume.International journal of molecular sciences · 2025Review
Corrections and comments
- Erratum issued
- Erratum issued
Authors and funding
11 authors.
Funding
Abstract
Japanese soybeans are traditionally bred to produce soy foods such as tofu, miso and boiled soybeans. Here, to investigate their distinctive genomic features, including genomic structural variations (SVs), we constructed 11 nanopore-based genome references for Japanese and other soybean lines. Our assembly-based comparative method, designated 'Asm2sv', identified gene-level SVs comprehensively, enabling pangenome analysis of 462 worldwide cultivars and varieties. Based on these, we identified selective sweeps between Japanese and US soybeans, one of which was the pod-shattering resistance gene PDH1. Genome-wide association studies further identified several quantitative trait loci that accounted for large-seed phenotypes of Japanese soybean lines, some of which were also close to regions of the selective sweeps, including PDH1. Notably, specific combinations of alleles, including SVs, were found to increase the seed size of some Japanese landraces. In addition to the differences in cultivation environments, distinct food processing usages might result in changes in Japanese soybean genomes.
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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.