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Article|01 Sep 2020|OPEN
The Phoebe genome sheds light on the evolution of magnoliids
Shi-Pin Chen1,2, Wei-Hong Sun1,2, Yuan-Fang Xiong1,2, Yu-Ting Jiang1,2, Xue-Die Liu1,2, Xing-Yu Liao1,2, Di-Yang Zhang1,2, Shu-Zhen Jiang1,2, Yu Li1,2, Bin Liu1,2, Liang Ma2, Xia Yu2, Li He2, Bao Liu2, Jin-Lin Feng2, Li-Zhen Feng2, Zhi-Wen Wang3, Shuang-Quan Zou1,2, Si-Ren Lan1,2 & Zhong-Jian Liu2,4,5,
1College of Forestry, Fujian Agriculture and Forestry University, 350002 Fuzhou, China
2Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at the College of Landscape Architecture, Fujian Agriculture and Forestry University, 350002 Fuzhou, China
3PubBioTech, 430070 Wuhan, China
4Zhejiang Institute of Subtropical Crops, Zhejiang Academy of Agricultural Sciences, 325005 Wenzhou, China
5Institute of Vegetable and Flowers, Shandong Academy of Agricultural Sciences, 250100 Jinan, China

Horticulture Research 7,
Article number: 20146 (2020)
doi: 10.1038/hortres.2020.146
Views: 118

Received: 16 Jan 2020
Revised: 04 Jun 2020
Accepted: 19 Jun 2020
Published online: 01 Sep 2020


Lauraceae includes the genus Phoebe, and the family is linked to the evolution of magnoliids. We sequenced the genome of Phoebe bournei Nanmu. The assembled genome size was 989.19 Mb, with a contig N50 value of 2.05 Mb. A total of 28,198 protein-coding genes were annotated in P. bournei. Whole-genome duplication (WGD) analysis showed that Lauraceae has experienced two WGD events; the older WGD event occurred just before the divergence of Lauraceae and Magnoliales, and the more recent WGD was shared by all lineages of Lauraceae. The phylogenetic tree showed that magnoliids form a sister clade to monocots and eudicots. We also identified 63 MADS-box genes, including AGL12-like genes that may be related to the regulation of P. bournei roots and FIN219-like genes encoding GH3 proteins, which are involved in photomorphogenesis. SAUR50-like genes involved in light signal-mediated pedicel or stem development were also identified. Four ATMYB46- and three PtrEPSP-homologous genes related to lignin biosynthesis were identified. These genes may be associated with the formation of straight trunks in P. bournei. Overall, the P. bournei reference genome provides insight into the origin, evolution, and diversification of Phoebe and other magnoliids.