ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2016
Identification of candidate domestication regions in the radish genome based on high-depth resequencing analysis of 17 genotypes.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2016. 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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13 citing papers in PubMed, 25 citations in OpenAlex.
- A Window into the Nubian Diet: A Case Study of Food Crop Storage in the Kingdom of Dongola (Fourteenth to Eighteenth Centuries CE), Northern Sudan.The African archaeological review · 2025Article
- Whole-Genome Sequencing and Analysis of Tumour-Forming Radish (International journal of molecular sciences · 2024Article
- Developing multifunctional crops by engineering Brassicaceae glucosinolate pathways.Plant communications · 2023Review
- Effect of structural variation in the promoter region ofFrontiers in plant science · 2023Article
- Integration of metabolome and transcriptome analyses reveals the mechanism of anthocyanin accumulation in purple radish leaves.Physiology and molecular biology of plants : an international journal of functional plant biology · 2022Article
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- Genotyping-by-Sequencing-Based Genome-Wide Association Studies of Fusarium Wilt Resistance in Radishes (Genes · 2021Article
- Temperature-related cline in the root mass fraction in East Asian wild radish along the Japanese archipelago.Breeding science · 2020Article
- Identification of genome-wide single-nucleotide polymorphisms among geographically diverse radish accessions.DNA research : an international journal for rapid publication of reports on genes and genomes · 2020Article
- A genome-wide association study uncovers a critical role of theHorticulture research · 2020Article
- The radish genome database (RadishGD): an integrated information resource for radish genomics.Database : the journal of biological databases and curation · 2019Article
- Article
- Detection of Highly Differentiated Genomic Regions Between Lotus (Frontiers in plant science · 2018Article
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Authors and funding
21 authors at 5 institutions in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
key messageThis study provides high-quality variation data of diverse radish genotypes. Genome-wide SNP comparison along with RNA-seq analysis identified candidate genes related to domestication that have potential as trait-related markers for genetics and breeding of radish. Radish (Raphanus sativus L.) is an annual root vegetable crop that also encompasses diverse wild species. Radish has a long history of domestication, but the origins and selective sweep of cultivated radishes remain controversial. Here, we present comprehensive whole-genome resequencing analysis of radish to explore genomic variation between the radish genotypes and to identify genetic bottlenecks due to domestication in Asian cultivars. High-depth resequencing and multi-sample genotyping analysis of ten cultivated and seven wild accessions obtained 4.0 million high-quality homozygous single-nucleotide polymorphisms (SNPs)/insertions or deletions. Variation analysis revealed that Asian cultivated radish types are closely related to wild Asian accessions, but are distinct from European/American cultivated radishes, supporting the notion that Asian cultivars were domesticated from wild Asian genotypes. SNP comparison between Asian genotypes identified 153 candidate domestication regions (CDRs) containing 512 genes. Network analysis of the genes in CDRs functioning in plant signaling pathways and biochemical processes identified group of genes related to root architecture, cell wall, sugar metabolism, and glucosinolate biosynthesis. Expression profiling of the genes during root development suggested that domestication-related selective advantages included a main taproot with few branched lateral roots, reduced cell wall rigidity and favorable taste. Overall, this study provides evolutionary insights into domestication-related genetic selection in radish as well as identification of gene candidates with the potential to act as trait-related markers for background selection of elite lines in molecular breeding.
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