Cargando…

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

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 fi...

Descripción completa

Detalles Bibliográficos
Autores principales: Zhang, Liwu, Xu, Yi, Zhang, Xingtan, Ma, Xiaokai, Zhang, Lilan, Liao, Zhenyang, Zhang, Qing, Wan, Xuebei, Cheng, Yan, Zhang, Jisen, Li, Dongxu, Zhang, Liemei, Xu, Jiantang, Tao, Aifen, Lin, Lihui, Fang, Pingping, Chen, Shuai, Qi, Rui, Xu, Xiuming, Qi, Jianmin, Ming, Ray
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7336286/
https://www.ncbi.nlm.nih.gov/pubmed/31975524
http://dx.doi.org/10.1111/pbi.13341
_version_ 1783554288326279168
author Zhang, Liwu
Xu, Yi
Zhang, Xingtan
Ma, Xiaokai
Zhang, Lilan
Liao, Zhenyang
Zhang, Qing
Wan, Xuebei
Cheng, Yan
Zhang, Jisen
Li, Dongxu
Zhang, Liemei
Xu, Jiantang
Tao, Aifen
Lin, Lihui
Fang, Pingping
Chen, Shuai
Qi, Rui
Xu, Xiuming
Qi, Jianmin
Ming, Ray
author_facet Zhang, Liwu
Xu, Yi
Zhang, Xingtan
Ma, Xiaokai
Zhang, Lilan
Liao, Zhenyang
Zhang, Qing
Wan, Xuebei
Cheng, Yan
Zhang, Jisen
Li, Dongxu
Zhang, Liemei
Xu, Jiantang
Tao, Aifen
Lin, Lihui
Fang, Pingping
Chen, Shuai
Qi, Rui
Xu, Xiuming
Qi, Jianmin
Ming, Ray
author_sort Zhang, Liwu
collection PubMed
description 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.
format Online
Article
Text
id pubmed-7336286
institution National Center for Biotechnology Information
language English
publishDate 2020
publisher John Wiley and Sons Inc.
record_format MEDLINE/PubMed
spelling pubmed-73362862020-07-08 The genome of kenaf (Hibiscus cannabinus L.) provides insights into bast fibre and leaf shape biogenesis Zhang, Liwu Xu, Yi Zhang, Xingtan Ma, Xiaokai Zhang, Lilan Liao, Zhenyang Zhang, Qing Wan, Xuebei Cheng, Yan Zhang, Jisen Li, Dongxu Zhang, Liemei Xu, Jiantang Tao, Aifen Lin, Lihui Fang, Pingping Chen, Shuai Qi, Rui Xu, Xiuming Qi, Jianmin Ming, Ray Plant Biotechnol J Research Articles 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. John Wiley and Sons Inc. 2020-01-30 2020-08 /pmc/articles/PMC7336286/ /pubmed/31975524 http://dx.doi.org/10.1111/pbi.13341 Text en © 2020 The Authors. Plant Biotechnology Journal published by Society for Experimental Biology and The Association of Applied Biologists and John Wiley & Sons Ltd. This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Articles
Zhang, Liwu
Xu, Yi
Zhang, Xingtan
Ma, Xiaokai
Zhang, Lilan
Liao, Zhenyang
Zhang, Qing
Wan, Xuebei
Cheng, Yan
Zhang, Jisen
Li, Dongxu
Zhang, Liemei
Xu, Jiantang
Tao, Aifen
Lin, Lihui
Fang, Pingping
Chen, Shuai
Qi, Rui
Xu, Xiuming
Qi, Jianmin
Ming, Ray
The genome of kenaf (Hibiscus cannabinus L.) provides insights into bast fibre and leaf shape biogenesis
title The genome of kenaf (Hibiscus cannabinus L.) provides insights into bast fibre and leaf shape biogenesis
title_full The genome of kenaf (Hibiscus cannabinus L.) provides insights into bast fibre and leaf shape biogenesis
title_fullStr The genome of kenaf (Hibiscus cannabinus L.) provides insights into bast fibre and leaf shape biogenesis
title_full_unstemmed The genome of kenaf (Hibiscus cannabinus L.) provides insights into bast fibre and leaf shape biogenesis
title_short The genome of kenaf (Hibiscus cannabinus L.) provides insights into bast fibre and leaf shape biogenesis
title_sort genome of kenaf (hibiscus cannabinus l.) provides insights into bast fibre and leaf shape biogenesis
topic Research Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7336286/
https://www.ncbi.nlm.nih.gov/pubmed/31975524
http://dx.doi.org/10.1111/pbi.13341
work_keys_str_mv AT zhangliwu thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT xuyi thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT zhangxingtan thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT maxiaokai thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT zhanglilan thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT liaozhenyang thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT zhangqing thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT wanxuebei thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT chengyan thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT zhangjisen thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT lidongxu thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT zhangliemei thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT xujiantang thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT taoaifen thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT linlihui thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT fangpingping thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT chenshuai thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT qirui thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT xuxiuming thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT qijianmin thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT mingray thegenomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT zhangliwu genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT xuyi genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT zhangxingtan genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT maxiaokai genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT zhanglilan genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT liaozhenyang genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT zhangqing genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT wanxuebei genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT chengyan genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT zhangjisen genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT lidongxu genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT zhangliemei genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT xujiantang genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT taoaifen genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT linlihui genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT fangpingping genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT chenshuai genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT qirui genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT xuxiuming genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT qijianmin genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis
AT mingray genomeofkenafhibiscuscannabinuslprovidesinsightsintobastfibreandleafshapebiogenesis