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A genome assembly of decaploid Houttuynia cordata provides insights into the evolution of Houttuynia and the biosynthesis of alkaloids

文献类型： 外文期刊

作者： Huang, Peng 1 ; Li, Zhu 4 ; Wang, Huan 5 ; Huang, Jinqiang 6 ; Tan, Guifeng 4 ; Fu, Yue 4 ; Liu, Xiubin 1 ; Zheng, Shang 5 ; Xu, Peng 5 ; Sun, Mengshan 7 ; Zeng, Jianguo 1 ;

作者机构： 1.Hunan Agr Univ, Hunan Key Lab Tradit Chinese Vet Med, Changsha 410128, Hunan, Peoples R China

2.Hunan Agr Univ, Coll Vet Med, Changsha 410128, Hunan, Peoples R China

3.Tradit Chinese Med Breeding Ctr Yuelushan Lab, Changsha 410128, Hunan, Peoples R China

4.Hunan Agr Univ, Coll Anim Sci & Technol, Changsha 410128, Hunan, Peoples R China

5.Wuhan Frasergen Bioinformat Co Ltd, Wuhan 430075, Hubei, Peoples R China

6.Hunan Agr Univ, Coll Hort, Changsha 410128, Hunan, Peoples R China

7.Hunan Acad Agr Sci, Hunan Inst Agr Environm & Ecol, Changsha 410125, Hunan, Peoples R China

期刊名称：HORTICULTURE RESEARCH （ 影响因子：8.5； 五年影响因子：9.1 ）

ISSN： 2662-6810

年卷期： 2024 年 11 卷 9 期

页码：

收录情况： SCI

摘要： Houttuynia cordata Thunb., commonly known as yuxingcao in China, is known for its characteristic fishy smell and is widely recognized as an important herb and vegetable in many parts of Asia. However, the lack of genomic information on H. cordata limits the understanding of its population structure, genetic diversity, and biosynthesis of medicinal compounds. Here we used single-molecule sequencing, Illumina paired-end sequencing, and chromosome conformation capture technology to construct the first chromosome-scale decaploid H. cordata reference genome. The genome assembly was 2.63 Gb in size, with 1348 contigs and a contig N50 of 21.94 Mb further clustered and ordered into 88 pseudochromosomes based on Hi-C analysis. The results of genome evolution analysis showed that H. cordata underwent a whole-genome duplication (WGD) event similar to 17 million years ago, and an additional WGD event occurred 3.3 million years ago, which may be the main factor leading to the high abundance of multiple copies of orthologous genes. Here, transcriptome sequencing across five different tissues revealed significant expansion and distinct expression patterns of key gene families, such as l-amino acid/l-tryptophan decarboxylase and strictosidine synthase, which are essential for the biosynthesis of isoquinoline and indole alkaloids, along with the identification of genes such as TTM3, which is critical for root development. This study constructed the first decaploid medicinal plant genome and revealed the genome evolution and polyploidization events of H. cordata.

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