The first high-quality chromosome-level genome assembly of Phyllanthaceae (Phyllanthus cochinchinensis) provides insights into flavonoid biosynthesis
文献类型： 外文期刊
作者： Zhang, Wenting 1 ; Xu, Shiqiang 1 ; Gu, Yan 1 ; Jiao, Meng 3 ; Mei, Yu 1 ; Wang, Jihua 1 ;
作者机构： 1.Guangdong Acad Agr Sci, Crops Res Inst, Guangdong Prov Key Lab Crops Genet & Improvement, Guangzhou 510640, Peoples R China
2.Guangdong Prov Engn & Technol Res Ctr Conservat &, Guangzhou 510640, Peoples R China
3.South China Agr Univ, Coll Life Sci, Guangzhou 510640, Peoples R China
关键词： Chromosome-level assembly; Evolution; Genome sequencing; Herbal medicine; Phyllanthus; Phylogenetic position
期刊名称：PLANTA （ 影响因子：4.54； 五年影响因子：4.689 ）
ISSN： 0032-0935
年卷期： 2022 年 256 卷 6 期
页码：
收录情况： SCI
摘要： Phyllanthus cochinchinensis, a member of the Phyllanthaceae, is one of the famous medicinal plants in South China. Here, we report a de novo chromosome-level genome assembly for P. cochinchinensis using a combination of Nanopore and Illumina sequencing technologies. In total, the assembled genome consists of 284.88 Mb genomic sequences with a contig N50 of 10.32 Mb, representing similar to 95.49% of the estimated genome size. By applying Hi-C data, 13 pseudochromosomes of P. cochinchinensis were constructed, covering similar to 99.87% of the assembled sequences. The genome is annotated with 59.12% repetitive sequences and 20,836 protein-coding genes. Whole-genome duplication of P. cochinchinensis is likely shared with Ricinus communis as well as Vitis vinifera. Homologous genes within the flavonoid pathway for P. cochinchinensis were identified and copy numbers and expression level of related genes revealed potential critical genes involved in flavonoid biosynthesis. This study provides the first whole-genome sequence for the Phyllanthaceae, confirms the evolutionary status of Phyllanthus from the genomic level, and provides foundations for accelerating functional genomic research of species from Phyllanthus.
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