J Integr Plant Biol ›› 2024, Vol. 66 ›› Issue (6): 1087-1105.DOI: 10.1111/jipb.13592

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  • 收稿日期:2023-09-13 接受日期:2023-12-04 出版日期:2024-06-01 发布日期:2024-06-25

Chromosomal-level genome and metabolome analyses of highly heterozygous allohexaploid Dendrocalamus brandisii elucidate shoot quality and developmental characteristics

Jutang Jiang1†, Zeyu Zhang2†, Yucong Bai1†, Xiaojing Wang3, Yuping Dou1, Ruiman Geng1, Chongyang Wu1, Hangxiao Zhang2, Cunfu Lu4, Lianfeng Gu2* and Jian Gao1*   

  1. 1. Key Laboratory of National Forestry and Grassland Administration, Beijing for Bamboo & Rattan Science and Technology, Institute of Gene Science and Industrialization for Bamboo and Rattan Resources, International Center for Bamboo and Rattan, Beijing 100102, China;
    2. College of Forestry, Basic Forestry and Proteomics Research Center, Fujian Agriculture and Forestry University, Fuzhou 350002, China;
    3. School of Life Science, Peking University, Beijing 100871, China;
    4. College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing 100083, China
    These authors contributed equally to this work.
    *Correspondences: Lianfeng Gu (lfgu@fafu.edu.cn); Jian Gao (gaojian@icbr.ac.cn, Dr. Gao is fully responsible for the distribution of the materials associated with this article)
  • Received:2023-09-13 Accepted:2023-12-04 Online:2024-06-01 Published:2024-06-25

Abstract: Dendrocalamus brandisii (Munro) Kurz is a sympodial bamboo species with inimitable taste and flavorful shoots. Its rapid growth and use as high-quality material make this bamboo species highly valued for both food processing and wood applications. However, genome information for D. brandisii is lacking, primarily due to its polyploidy and large genome size. Here, we assembled a high-quality genome for hexaploid D. brandisii, which comprises 70 chromosomes with a total size of 2,756 Mb, using long-read HiFi sequencing. Furthermore, we accurately separated the genome into its three constituent subgenomes. We used Oxford Nanopore Technologies long reads to construct a transcriptomic dataset covering 15 tissues for gene annotation to complement our genome assembly, revealing differential gene expression and post-transcriptional regulation. By integrating metabolome analysis, we unveiled that well-balanced lignin formation, as well as abundant flavonoid and fructose contents, contribute to the superior quality of D. brandisii shoots. Integrating genomic, transcriptomic, and metabolomic datasets provided a solid foundation for enhancing bamboo shoot quality and developing efficient gene-editing techniques. This study should facilitate research on D. brandisii and enhance its use as a food source and wood material by providing crucial genomic resources.

Key words: bamboo shoots, Dendrocalamus brandisii (Munro) Kurz, flavonoid, genome, lignin

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