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Liu B, Yan J, Li W, Yin L, Li P, Yu H, Xing L, Cai M, Wang H, Zhao M, Zheng J, Sun F, Wang Z, Jiang Z, Ou Q, Li S, Qu L, Zhang Q, Zheng Y, Qiao X, Xi Y, Zhang Y, Jiang F, Huang C, Liu C, Ren Y, Wang S, Liu H, Guo J, Wang H, Dong H, Peng C, Qian W, Fan W, Wan F. Mikania micrantha genome provides insights into the molecular mechanism of rapid growth. Nat Commun 2020; 11:340. [PMID: 31953413 PMCID: PMC6969026 DOI: 10.1038/s41467-019-13926-4] [Citation(s) in RCA: 45] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2019] [Accepted: 12/06/2019] [Indexed: 11/08/2022] Open
Abstract
Mikania micrantha is one of the top 100 worst invasive species that can cause serious damage to natural ecosystems and substantial economic losses. Here, we present its 1.79 Gb chromosome-scale reference genome. Half of the genome is composed of long terminal repeat retrotransposons, 80% of which have been derived from a significant expansion in the past one million years. We identify a whole genome duplication event and recent segmental duplications, which may be responsible for its rapid environmental adaptation. Additionally, we show that M. micrantha achieves higher photosynthetic capacity by CO2 absorption at night to supplement the carbon fixation during the day, as well as enhanced stem photosynthesis efficiency. Furthermore, the metabolites of M. micrantha can increase the availability of nitrogen by enriching the microbes that participate in nitrogen cycling pathways. These findings collectively provide insights into the rapid growth and invasive adaptation.
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Affiliation(s)
- Bo Liu
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Jian Yan
- Key Laboratory of Agro-Environment in the Tropics, Ministry of Agriculture and Rural Affairs; Guangdong Provincial Key Laboratory of Eco-Circular Agriculture; College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, China
| | - Weihua Li
- Institute of Ecological Science, Guangdong Provincial Key Laboratory of Biotechnology for Plant Development; Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring; School of Life Science, South China Normal University, Guangzhou, 510631, China
| | - Lijuan Yin
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
- Key Laboratory of Protein Function and Regulation in Agricultural Organisms of Guangdong province, College of Life Science, South China Agricultural University, Guangzhou, 510642, China
| | - Ping Li
- Key Laboratory of Agro-Environment in the Tropics, Ministry of Agriculture and Rural Affairs; Guangdong Provincial Key Laboratory of Eco-Circular Agriculture; College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, China
| | - Hanxia Yu
- Institute of Ecological Science, Guangdong Provincial Key Laboratory of Biotechnology for Plant Development; Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring; School of Life Science, South China Normal University, Guangzhou, 510631, China
| | - Longsheng Xing
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Minling Cai
- Institute of Ecological Science, Guangdong Provincial Key Laboratory of Biotechnology for Plant Development; Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring; School of Life Science, South China Normal University, Guangzhou, 510631, China
| | - Hengchao Wang
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Mengxin Zhao
- The Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, 100193, China
| | - Jin Zheng
- Institute of Ecological Science, Guangdong Provincial Key Laboratory of Biotechnology for Plant Development; Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring; School of Life Science, South China Normal University, Guangzhou, 510631, China
| | - Feng Sun
- Institute of Ecological Science, Guangdong Provincial Key Laboratory of Biotechnology for Plant Development; Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring; School of Life Science, South China Normal University, Guangzhou, 510631, China
| | - Zhenzhen Wang
- Key Laboratory of Agro-Environment in the Tropics, Ministry of Agriculture and Rural Affairs; Guangdong Provincial Key Laboratory of Eco-Circular Agriculture; College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, China
| | - Zhaoyang Jiang
- Institute of Ecological Science, Guangdong Provincial Key Laboratory of Biotechnology for Plant Development; Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring; School of Life Science, South China Normal University, Guangzhou, 510631, China
| | - Qiaojing Ou
- Institute of Ecological Science, Guangdong Provincial Key Laboratory of Biotechnology for Plant Development; Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring; School of Life Science, South China Normal University, Guangzhou, 510631, China
| | - Shubin Li
- Institute of Ecological Science, Guangdong Provincial Key Laboratory of Biotechnology for Plant Development; Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring; School of Life Science, South China Normal University, Guangzhou, 510631, China
| | - Lu Qu
- Institute of Ecological Science, Guangdong Provincial Key Laboratory of Biotechnology for Plant Development; Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring; School of Life Science, South China Normal University, Guangzhou, 510631, China
| | - Qilei Zhang
- Institute of Ecological Science, Guangdong Provincial Key Laboratory of Biotechnology for Plant Development; Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring; School of Life Science, South China Normal University, Guangzhou, 510631, China
| | - Yaping Zheng
- Institute of Ecological Science, Guangdong Provincial Key Laboratory of Biotechnology for Plant Development; Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring; School of Life Science, South China Normal University, Guangzhou, 510631, China
| | - Xi Qiao
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Yu Xi
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Yan Zhang
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Fan Jiang
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Cong Huang
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Conghui Liu
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Yuwei Ren
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Sen Wang
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Hangwei Liu
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Jianyang Guo
- The Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, 100193, China
| | - Haihong Wang
- Key Laboratory of Protein Function and Regulation in Agricultural Organisms of Guangdong province, College of Life Science, South China Agricultural University, Guangzhou, 510642, China
| | - Hui Dong
- Fairy Lake Botanical Garden, Shenzhen and Chinese Academy of Sciences, Shenzhen, 518004, China
| | - Changlian Peng
- Institute of Ecological Science, Guangdong Provincial Key Laboratory of Biotechnology for Plant Development; Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring; School of Life Science, South China Normal University, Guangzhou, 510631, China.
| | - Wanqiang Qian
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China.
| | - Wei Fan
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China.
| | - Fanghao Wan
- Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen; Genome Analysis Laboratory of the Ministry of Agriculture; Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China.
- The Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, 100193, China.
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