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Hao Y, Zhou YZ, Chen B, Chen GZ, Wen ZY, Zhang D, Sun WH, Liu DK, Huang J, Chen JL, Zhou XQ, Fan WL, Zhang WC, Luo L, Han WC, Zheng Y, Li L, Lu PC, Xing Y, Liu SY, Sun JT, Cao YH, Zhang YP, Shi XL, Wu SS, Ai Y, Zhai JW, Lan SR, Liu ZJ, Peng DH. The Melastoma dodecandrum genome and the evolution of Myrtales. J Genet Genomics 2021; 49:120-131. [PMID: 34757038 DOI: 10.1016/j.jgg.2021.10.004] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2021] [Revised: 10/04/2021] [Accepted: 10/07/2021] [Indexed: 12/16/2022]
Abstract
Melastomataceae have abundant morphological diversity with high economic and ornamental merit in Myrtales. The phylogenetic position of Myrtales is still contested. Here, we report the first chromosome-level genome assembly of Melastoma dodecandrum in Melastomataceae. The assembled genome size was 299.81 Mb with a contig N50 value of 3.00 Mb. Genome evolution analysis indicated that M. dodecandrum, Eucalyptus grandis and Punica granatum were clustered into a clade of Myrtales and formed a sister group with the ancestor of fabids and malvids. We found that M. dodecandrum experienced four whole-genome polyploidization events: the ancient event was shared with most eudicots, one event was shared with Myrtales, and the other two events were unique to M. dodecandrum. Moreover, we identified MADS-box genes and found that the AP1-like genes expanded, and AP3-like genes might have undergone subfunctionalization. We found that the SUAR63-like genes and AG-like genes showed different expression patterns in stamens, which may be associated with heteranthery. In addition, we found that LAZY1-like genes were involved in the negative regulation of stem branching development, which may be related to its creeping features. Our study sheds new light on the evolution of Melastomataceae and Myrtales, which provides a comprehensive genetic resource for future research.
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Affiliation(s)
- Yang Hao
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Yu-Zhen Zhou
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Bin Chen
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Gui-Zhen Chen
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Zhen-Ying Wen
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Diyang Zhang
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Wei-Hong Sun
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Ding-Kun Liu
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Jie Huang
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Jin-Liao Chen
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Xiao-Qin Zhou
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Wan-Lin Fan
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Wen-Chun Zhang
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Lin Luo
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Wen-Chao Han
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Yan Zheng
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Long Li
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Peng-Cheng Lu
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Yue Xing
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Shu-Ya Liu
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Jia-Ting Sun
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Ying-Hui Cao
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Yan-Ping Zhang
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Xiao-Ling Shi
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Sha-Sha Wu
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Ye Ai
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Jun-Wen Zhai
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Si-Ren Lan
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China
| | - Zhong-Jian Liu
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
| | - Dong-Hui Peng
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Art & Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou 350002, China; Innovation and Application Engineering Technology Research Center of Ornamental Plant Germplasm Resources in Fujian Province, Fuzhou 350002, China.
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