Chromosome-Scale Genome Assembly and Triterpenoid Saponin Biosynthesis in Korean Bellflower (Platycodon grandiflorum)

Lee, Dong-Jun; Choi, Ji-Weon; Kang, Ji-Nam; Lee, Si-Myung; Park, Gyu-Hwang; Kim, Chang-Kug

doi:10.3390/ijms24076534

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Chromosome-Scale Genome Assembly and Triterpenoid Saponin Biosynthesis in Korean Bellflower (Platycodon grandiflorum)

by

Dong-Jun Lee

¹,

Ji-Weon Choi

²,

Ji-Nam Kang

¹

,

Si-Myung Lee

¹,

Gyu-Hwang Park

¹ and

Chang-Kug Kim

^1,*

¹

Genomics Division, National Institute of Agricultural Sciences, Jeonju 54874, Republic of Korea

²

Postharvest Technology Division, National Institute of Horticultural and Herbal Science, Wanju 55365, Republic of Korea

^*

Author to whom correspondence should be addressed.

Int. J. Mol. Sci. 2023, 24(7), 6534; https://doi.org/10.3390/ijms24076534

Submission received: 2 March 2023 / Revised: 24 March 2023 / Accepted: 29 March 2023 / Published: 31 March 2023

(This article belongs to the Special Issue Genome Assembly)

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Abstract

Platycodon grandiflorum belongs to the Campanulaceae family and is an important medicinal and food plant in East Asia. However, on the whole, the genome evolution of P. grandiflorum and the molecular basis of its major biochemical pathways are poorly understood. We reported a chromosome-scale genome assembly of P. grandiflorum based on a hybrid method using Oxford Nanopore Technologies, Illumina sequences, and high-throughput chromosome conformation capture (Hi-C) analysis. The assembled genome was finalized as 574 Mb, containing 41,355 protein-coding genes, and the genome completeness was assessed as 97.6% using a Benchmarking Universal Single-Copy Orthologs analysis. The P. grandiflorum genome comprises nine pseudo-chromosomes with 56.9% repeat sequences, and the transcriptome analysis revealed an expansion of the 14 beta-amylin genes related to triterpenoid saponin biosynthesis. Our findings provide an understanding of P. grandiflorum genome evolution and enable genomic-assisted breeding for the mass production of important components such as triterpenoid saponins.

Keywords: chromosome-scale genome; Platycodon grandiflorum; triterpenoid saponin biosynthesis

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MDPI and ACS Style

Lee, D.-J.; Choi, J.-W.; Kang, J.-N.; Lee, S.-M.; Park, G.-H.; Kim, C.-K. Chromosome-Scale Genome Assembly and Triterpenoid Saponin Biosynthesis in Korean Bellflower (Platycodon grandiflorum). Int. J. Mol. Sci. 2023, 24, 6534. https://doi.org/10.3390/ijms24076534

AMA Style

Lee D-J, Choi J-W, Kang J-N, Lee S-M, Park G-H, Kim C-K. Chromosome-Scale Genome Assembly and Triterpenoid Saponin Biosynthesis in Korean Bellflower (Platycodon grandiflorum). International Journal of Molecular Sciences. 2023; 24(7):6534. https://doi.org/10.3390/ijms24076534

Chicago/Turabian Style

Lee, Dong-Jun, Ji-Weon Choi, Ji-Nam Kang, Si-Myung Lee, Gyu-Hwang Park, and Chang-Kug Kim. 2023. "Chromosome-Scale Genome Assembly and Triterpenoid Saponin Biosynthesis in Korean Bellflower (Platycodon grandiflorum)" International Journal of Molecular Sciences 24, no. 7: 6534. https://doi.org/10.3390/ijms24076534

APA Style

Lee, D.-J., Choi, J.-W., Kang, J.-N., Lee, S.-M., Park, G.-H., & Kim, C.-K. (2023). Chromosome-Scale Genome Assembly and Triterpenoid Saponin Biosynthesis in Korean Bellflower (Platycodon grandiflorum). International Journal of Molecular Sciences, 24(7), 6534. https://doi.org/10.3390/ijms24076534

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Chromosome-Scale Genome Assembly and Triterpenoid Saponin Biosynthesis in Korean Bellflower (Platycodon grandiflorum)

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