Abstract
AbstractIn Japan, wasabi (Eutrema japonicum) is an important traditional condiment, and is recognized as an endemic species. In the present study, we generated a chromosome-level and haplotype-resolved reference genome for E. japonicum using PacBio CLR (continuous long reads), Illumina, and Hi-C sequencing data. The genome consists of 28 chromosomes that contain 1,512.1 Mb of sequence data, with a scaffold N50 length of 55.67 Mb. We also reported the subgenome and haplotype assignment of the 28 chromosomes by read-mapping and phylogenic analysis. Three validation methods (Benchmarking Universal Single-Copy Orthologs, Merqury, and Inspector) indicated that our obtained genome sequences were a high-quality and high-completeness genome assembly. Comparison of genome assemblies from previously published genomes showed that our obtained genome was of higher quality. Therefore, our genome will serve as a valuable genetic resource for both chemical ecology and evolution research of the genera Eutrema and Brassicaceae, as well as for wasabi breeding.
Publisher
Springer Science and Business Media LLC
Subject
Library and Information Sciences,Statistics, Probability and Uncertainty,Computer Science Applications,Education,Information Systems,Statistics and Probability
Reference50 articles.
1. Yamane, K. et al. Genetic differentiation, molecular phylogenetic analysis, and ethnobotanical study of Eutrema japonicum and E. tenue in Japan and E. yunnanense in China. Hort. J. 85, 46–54 (2016).
2. Guo, X. et al. The genomes of two Eutrema species provide insight into plant adaptation to high altitudes. DNA Res. 25, 307–315 (2018).
3. Haga, N. et al. Complete chloroplast genome sequence and phylogenetic analysis of wasabi (Eutrema japonicum) and its relatives. Scientific Reports 9, 14377 (2019).
4. Marhold, K. & Lihová, J. Polyploidy, hybridization and reticulate evolution: lessons from the Brassicaceae. Plant Syst. Evol. 259, 143–174 (2006).
5. Hohmann, N., Wolf, E. M., Lysak, M. A. & Koch, M. A. A time-calibrated road map of Brassicaceae species radiation and evolutionary history. Plant Cell 27, 2770–2784 (2015).
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