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Nature communications
08 02, 2023;14 (1): 4651.

Genomic insight into domestication of rubber tree.

Jinquan Chao, Shaohua Wu, Minjing Shi, Xia Xu, Qiang Gao, Huilong Du, Bin Gao, Dong Guo, Shuguang Yang, Shixin Zhang, Yan Li, Xiuli Fan, Chunyan Hai, Liquan Kou, Jiao Zhang, Zhiwei Wang, Yan Li, Wenbo Xue, Jiang Xu, Xiaomin Deng, Xiao Huang, Xinsheng Gao, Xiaofei Zhang, Yanshi Hu, Xia Zeng, Weiguo Li, Liangsheng Zhang, Shiqing Peng, Jilin Wu, Bingzhong Hao, Xuchu Wang, Hong Yu, Jiayang Li, Chengzhi Liang, Wei-Min Tian
Author Information
  1. Jinquan Chao: National Key Laboratory for Tropical Crop Breeding, Chinese Academy of Tropical Agricultural Sciences, Sanya, 572024, China. ORCID
  2. Shaohua Wu: National Key Laboratory for Tropical Crop Breeding, Chinese Academy of Tropical Agricultural Sciences, Sanya, 572024, China.
  3. Minjing Shi: National Key Laboratory for Tropical Crop Breeding, Chinese Academy of Tropical Agricultural Sciences, Sanya, 572024, China.
  4. Xia Xu: State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100101, China.
  5. Qiang Gao: Genomics and Genetic Engineering Laboratory of Ornamental Plants, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, 310058, China.
  6. Huilong Du: State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100101, China.
  7. Bin Gao: Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China. ORCID
  8. Dong Guo: Ministry of Agriculture and Rural Affairs Key Laboratory of Tropical Crop Biotechnology, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, China.
  9. Shuguang Yang: National Key Laboratory for Tropical Crop Breeding, Chinese Academy of Tropical Agricultural Sciences, Sanya, 572024, China.
  10. Shixin Zhang: National Key Laboratory for Tropical Crop Breeding, Chinese Academy of Tropical Agricultural Sciences, Sanya, 572024, China.
  11. Yan Li: National Key Laboratory for Tropical Crop Breeding, Chinese Academy of Tropical Agricultural Sciences, Sanya, 572024, China.
  12. Xiuli Fan: State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100101, China.
  13. Chunyan Hai: State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100101, China.
  14. Liquan Kou: State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100101, China. ORCID
  15. Jiao Zhang: BGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China.
  16. Zhiwei Wang: BGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China. ORCID
  17. Yan Li: BGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China.
  18. Wenbo Xue: BGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China.
  19. Jiang Xu: Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing, 100700, China. ORCID
  20. Xiaomin Deng: National Key Laboratory for Tropical Crop Breeding, Chinese Academy of Tropical Agricultural Sciences, Sanya, 572024, China.
  21. Xiao Huang: Ministry of Agriculture and Rural Affairs Key Laboratory of Biology and Genetic Resources of Rubber Tree, Rubber Research Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, China.
  22. Xinsheng Gao: National Key Laboratory for Tropical Crop Breeding, Chinese Academy of Tropical Agricultural Sciences, Sanya, 572024, China.
  23. Xiaofei Zhang: National Key Laboratory for Tropical Crop Breeding, Chinese Academy of Tropical Agricultural Sciences, Sanya, 572024, China.
  24. Yanshi Hu: National Key Laboratory for Tropical Crop Breeding, Chinese Academy of Tropical Agricultural Sciences, Sanya, 572024, China.
  25. Xia Zeng: National Key Laboratory for Tropical Crop Breeding, Chinese Academy of Tropical Agricultural Sciences, Sanya, 572024, China.
  26. Weiguo Li: National Key Laboratory for Tropical Crop Breeding, Chinese Academy of Tropical Agricultural Sciences, Sanya, 572024, China.
  27. Liangsheng Zhang: Genomics and Genetic Engineering Laboratory of Ornamental Plants, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, 310058, China.
  28. Shiqing Peng: Ministry of Agriculture and Rural Affairs Key Laboratory of Tropical Crop Biotechnology, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, China.
  29. Jilin Wu: Ministry of Agriculture and Rural Affairs Key Laboratory of Biology and Genetic Resources of Rubber Tree, Rubber Research Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, China.
  30. Bingzhong Hao: Ministry of Agriculture and Rural Affairs Key Laboratory of Biology and Genetic Resources of Rubber Tree, Rubber Research Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, China.
  31. Xuchu Wang: Key Laboratory of Plant Resources Conservation and Germplasm Innovation in Mountainous Region, Ministry of Education, Institute of Agro-Bioengineering, College of Life Sciences, Guizhou University, Guiyang, 550025, China.
  32. Hong Yu: State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100101, China. ORCID
  33. Jiayang Li: State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100101, China. jyli@genetics.ac.cn. ORCID
  34. Chengzhi Liang: State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100101, China. cliang@genetics.ac.cn. ORCID
  35. Wei-Min Tian: National Key Laboratory for Tropical Crop Breeding, Chinese Academy of Tropical Agricultural Sciences, Sanya, 572024, China. wmtian@163.com.
PMID: 37532727 DOI: 10.1038/s41467-023-40304-y

Abstract

Understanding the genetic basis of rubber tree (Hevea brasiliensis) domestication is crucial for further improving natural rubber production to meet its increasing demand worldwide. Here we provide a high-quality H. brasiliensis genome assembly (1.58 Gb, contig N50 of 11.21 megabases), present a map of genome variations by resequencing 335 accessions and reveal domestication-related molecular signals and a major domestication trait, the higher number of laticifer rings. We further show that HbPSK5, encoding the small-peptide hormone phytosulfokine (PSK), is a key domestication gene and closely correlated with the major domestication trait. The transcriptional activation of HbPSK5 by myelocytomatosis (MYC) members links PSK signaling to jasmonates in regulating the laticifer differentiation in rubber tree. Heterologous overexpression of HbPSK5 in Russian dandelion (Taraxacum kok-saghyz) can increase rubber content by promoting laticifer formation. Our results provide an insight into target genes for improving rubber tree and accelerating the domestication of other rubber-producing plants.

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MeSH Term

Hevea
Rubber
Domestication
Sequence Analysis, DNA
Genomics
Gene Expression Regulation, Plant

Chemicals

Rubber
Journal Article Research Support, Non-U.S. Gov't
Article has an altmetric score of 13

Word Cloud

Created with Highcharts 10.0.0rubberdomesticationtreelaticiferHbPSK5brasiliensisimprovingprovidegenomemajortraitPSKinsightUnderstandinggeneticbasisHeveacrucialnaturalproductionmeetincreasingdemandworldwidehigh-qualityHassembly158 GbcontigN501121megabasespresentmapvariationsresequencing335accessionsrevealdomestication-relatedmolecularsignalshighernumberringsshowencodingsmall-peptidehormonephytosulfokinekeygenecloselycorrelatedtranscriptionalactivationmyelocytomatosisMYCmemberslinkssignalingjasmonatesregulatingdifferentiationHeterologousoverexpressionRussiandandelionTaraxacumkok-saghyzcanincreasecontentpromotingformationresultstargetgenesacceleratingrubber-producingplantsGenomic

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