ArticleG3 (Bethesda, Md.)2022
Genome assembly of the JD17 soybean provides a new reference genome for comparative genomics.
Article in G3 (Bethesda, Md.), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed, 26 citations in OpenAlex.
- 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
- The current state of Japanese soybean breeding using DNA marker technology.Breeding science · 2026Article
- Cryptic isoprene emission of soybeans.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Chromosome-level genome assembly of a high-yield Chinese soybean variety Mengdou1137 unlocks genetic potential of disease and lodging resistance.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Genome-Wide Association Study on Imputed Genotypes of 180 Eurasian SoybeanPlants (Basel, Switzerland) · 2025Article
- Chromosome-specific barcode system with centromeric repeat in cultivated soybean and wild progenitor.Life science alliance · 2024Article
- A stepwise guide for pangenome development in crop plants: an alfalfa (Medicago sativa) case study.BMC genomics · 2024Review
- High-quality genome of a modern soybean cultivar and resequencing of 547 accessions provide insights into the role of structural variation.Nature genetics · 2024Article
- A complete reference genome for the soybean cv. Jack.Plant communications · 2024Article
- A high-performance computational workflow to accelerate GATK SNP detection across a 25-genome dataset.BMC biology · 2024Article
- Regulation of seed traits in soybean.aBIOTECH · 2023Review
- Celebrating discovery across the tree of life.G3 (Bethesda, Md.) · 2023Article
- Full-Length Transcriptome Sequencing Reveals Alternative Splicing and lncRNA Regulation during Nodule Development inInternational journal of molecular sciences · 2022Article
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Authors and funding
17 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Cultivated soybean (Glycine max) is an important source for protein and oil. Many elite cultivars with different traits have been developed for different conditions. Each soybean strain has its own genetic diversity, and the availability of more high-quality soybean genomes can enhance comparative genomic analysis for identifying genetic underpinnings for its unique traits. In this study, we constructed a high-quality de novo assembly of an elite soybean cultivar Jidou 17 (JD17) with chromosome contiguity and high accuracy. We annotated 52,840 gene models and reconstructed 74,054 high-quality full-length transcripts. We performed a genome-wide comparative analysis based on the reference genome of JD17 with 3 published soybeans (WM82, ZH13, and W05), which identified 5 large inversions and 2 large translocations specific to JD17, 20,984-46,912 presence-absence variations spanning 13.1-46.9 Mb in size. A total of 1,695,741-3,664,629 SNPs and 446,689-800,489 Indels were identified and annotated between JD17 and them. Symbiotic nitrogen fixation genes were identified and the effects from these variants were further evaluated. It was found that the coding sequences of 9 nitrogen fixation-related genes were greatly affected. The high-quality genome assembly of JD17 can serve as a valuable reference for soybean functional genomics research.
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