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Plant biotechnology journal
08, 2020;18 (8): 1796-1809.

The genome of kenaf (Hibiscus cannabinus L.) provides insights into bast fibre and leaf shape biogenesis.

Liwu Zhang, Yi Xu, Xingtan Zhang, Xiaokai Ma, Lilan Zhang, Zhenyang Liao, Qing Zhang, Xuebei Wan, Yan Cheng, Jisen Zhang, Dongxu Li, Liemei Zhang, Jiantang Xu, Aifen Tao, Lihui Lin, Pingping Fang, Shuai Chen, Rui Qi, Xiuming Xu, Jianmin Qi, Ray Ming
Author Information
  1. Liwu Zhang: Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/Fujian Provincial Key Laboratory of Crop Breeding by Design/College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China. ORCID
  2. Yi Xu: Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/Fujian Provincial Key Laboratory of Crop Breeding by Design/College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China.
  3. Xingtan Zhang: Center for Genomics and Biotechnology of Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, China.
  4. Xiaokai Ma: Center for Genomics and Biotechnology of Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, China.
  5. Lilan Zhang: Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/Fujian Provincial Key Laboratory of Crop Breeding by Design/College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China.
  6. Zhenyang Liao: Center for Genomics and Biotechnology of Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, China.
  7. Qing Zhang: Center for Genomics and Biotechnology of Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, China.
  8. Xuebei Wan: Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/Fujian Provincial Key Laboratory of Crop Breeding by Design/College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China.
  9. Yan Cheng: Center for Genomics and Biotechnology of Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, China.
  10. Jisen Zhang: Center for Genomics and Biotechnology of Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, China.
  11. Dongxu Li: Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/Fujian Provincial Key Laboratory of Crop Breeding by Design/College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China.
  12. Liemei Zhang: Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/Fujian Provincial Key Laboratory of Crop Breeding by Design/College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China.
  13. Jiantang Xu: Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/Fujian Provincial Key Laboratory of Crop Breeding by Design/College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China.
  14. Aifen Tao: Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/Fujian Provincial Key Laboratory of Crop Breeding by Design/College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China.
  15. Lihui Lin: Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/Fujian Provincial Key Laboratory of Crop Breeding by Design/College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China.
  16. Pingping Fang: Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/Fujian Provincial Key Laboratory of Crop Breeding by Design/College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China.
  17. Shuai Chen: Center for Genomics and Biotechnology of Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, China.
  18. Rui Qi: Center for Genomics and Biotechnology of Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, China.
  19. Xiuming Xu: Center for Genomics and Biotechnology of Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, China.
  20. Jianmin Qi: Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/Fujian Provincial Key Laboratory of Crop Breeding by Design/College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China.
  21. Ray Ming: Center for Genomics and Biotechnology of Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, China.
PMID: 31975524 DOI: 10.1111/pbi.13341

Abstract

Kenaf is an annual crop that is widely cultivated as a source of bast (phloem) fibres, the phytoremediation of heavy metal-contaminated farmlands and textile-relevant compounds. Leaf shape played a unique role in kenaf improvement, due to the inheritance as a single locus and the association with fibre development in typical lobed-leaf varieties. Here we report a high-quality genome assembly and annotation for var. 'Fuhong 952' with 1078 Mbp genome and 66 004 protein-coding genes integrating single-molecule real-time sequencing, a high-density genetic map and high-throughput chromosome conformation capture techniques. Gene mapping assists the identification of a homeobox transcription factor LATE MERISTEM IDENTITY 1 (HcLMI1) gene controlling lobed-leaf. Virus-induced gene silencing (VIGS) of HcLMI1 in a lobed-leaf variety was critical to induce round (entire)-like leaf formation. Candidate genes involved in cell wall formation were found in quantitative trait loci (QTL) for fibre yield and quality-related traits. Comparative genomic and transcriptome analyses revealed key genes involved in bast fibre formation, among which there are twice as many cellulose synthase A (CesA) genes due to a recent whole-genome duplication after divergence from Gossypium. Population genomic analysis showed two recent population bottlenecks in kenaf, suggesting domestication and improvement process have led to an increase in fibre biogenesis and yield. This chromosome-scale genome provides an important framework and toolkit for sequence-directed genetic improvement of fibre crops.

Keywords

Kenaf (Hibiscus cannabinus L.) bast fibre domestication genome leaf shape

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MeSH Term

Chromosome Mapping
Gossypium
Hibiscus
Plant Leaves
Quantitative Trait Loci
Journal Article Research Support, Non-U.S. Gov't

Links to CNCB-NGDC Resources

GWH: GWHACDB00000000 (Hibiscus cannabinus)
GWH: GWHACDB00000000.1 ()

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