ArticleNature genetics2024
High-quality genome of a modern soybean cultivar and resequencing of 547 accessions provide insights into the role of structural variation.
Article in Nature genetics, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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31 citing papers in PubMed.
- Uncovering structural variation in conifer gigagenomes: evolutionary insights and technical challenges.Molecular biology and evolution · 2026Article
- GmDOF3.1-GmCPX Module Regulates Nodulation and Nitrogen Fixation Abilities in Soybean.Plant biotechnology journal · 2026Article
- Humic Acid-Derived Carbon Dots Promote Soybean Growth via Enhancing Photosynthesis and Symbiotic Nitrogen Fixation.Plant, cell & environment · 2026Article
- Empowering Plant Biotechnology Research: Super-Pangenomes as a Novel Arsenal for Crop Breeding and Improvement.Molecular biotechnology · 2026Review
- Article
- Analysis of deep-resequencing data of 984 soybean accessions reveals structural variations underlying agronomic traits.Nature communications · 2026Article
- The first telomere-to-telomere genome assembly of the soybean male-sterile germplasm 88-428BY by massive parallel sequencing.Plant diversity · 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
- Physiological Responses, Molecular Basis, and Integrated Regulation of Heat Tolerance in Soybean.Plants (Basel, Switzerland) · 2026Review
- Pangenome and resequencing analyses reveal flowering evolution and genetic control in Cerasus.Nature communications · 2026Article
- Stable loci and functional gene controlling pod shattering resistance across multiple environments under different genetic backgrounds in soybean.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Breeding Climate-Resilient Soybeans for 2050 and Beyond: Leveraging Novel Technologies to Mitigate Yield Stagnation and Climate Change Impacts.Plants (Basel, Switzerland) · 2026Review
- A pangenome reference and population studies link structural variants with breeding traits in Gossypium hirsutum.Nature genetics · 2026Article
- Leveraging weighted embedding and Transformer architecture to improve phenotype prediction of complex traits for crops.Nature communications · 2026Article
- Centromere evolution in annual and perennial soybeans and its implication for hybridization in cultivated species.Genome biology · 2026Article
- The pangenome enhances the understanding of the genetic diversity of papaya.Horticulture research · 2026Article
- Genetic Diversity Analysis of Cotton Cultivars Using a 40K Liquid Chip in Northern Xinjiang.International journal of molecular sciences · 2026Article
- Genetic loci and functional genes conferring deep-sowing tolerance across multiple environments in soybean.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Leveraging GWAS-Identified Markers in Combination with Bayesian and Machine Learning Models to Improve Genomic Selection in Soybean.International journal of molecular sciences · 2025Article
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26 authors.
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Abstract
Soybean provides protein, oil and multiple health-related compounds. Understanding the effects of structural variations (SVs) on economic traits in modern breeding is important for soybean improvement. Here we assembled the high-quality genome of modern cultivar Nongdadou2 (NDD2) and identified 25,814 SV-gene pairs compared to 29 reported genomes, with 13 NDD2-private SVs validated in 547 deep-resequencing (average = 18.05-fold) accessions, which advances our understanding of genomic variation biology. We found some insertions/deletions involved in seed protein and weight formation, an inversion related to adaptation to drought and a large intertranslocation implicated in a key divergence event in soybean. Of 749,714 SVs from 547 accessions, 6,013 were significantly associated with 22 yield-related and seed-quality-related traits determined in ten location × year environments. We uncovered 1,761 associated SVs that hit genes or regulatory regions, with 12 in GmMQT influencing oil and isoflavone contents. Our work provides resources and insights into SV roles in soybean improvement.
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