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

Zhang, Lilan; Xu, Yi; Zhang, Xingtan; Ma, Xiaokai; Lilan, Zhang; Liao, Zhenyang; Zhang, Qing; Wan, Xuebei; Cheng, Yan; Zhang, Jisen; Li, Dongxu; Zhang, Liemei; Xu, Jiajun; Tao, Aifen; Lin, Lihui; Fang, Pingping; Chen, Shuai; Qi, Ruili; Xu, Xiuming; Qi, Jianmin; Ming, Ray

doi:10.1111/pbi.13341

Cited by 65 publications

(38 citation statements)

References 37 publications

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“…With the availability of reference genomes and advanced NGS tools, the number of molecular markers such as SSRs, InDels, SNPs has been improved significantly in natural fiber. Very recently, genome sequences of Cannabis species were used to develop SSR markers (Zhang et al, 2020) and transcriptomics data on specific flax bast fibers' developmental stages helped in the identification of candidates that could be used to improve fibers' quality Galinousky et al Also, genome sequencing data can be used to identify genes linked to important traits Yang et al, which is the key to MAS breeding.…”

Section: Genome-based Molecular Markers and Gene Identifications For mentioning

confidence: 99%

“…Next-Generation Sequencing (NGS) tools have extensively hastened the improvement of genome and transcriptome sequencing, as well as re-sequencing of fiber crops. The assembled genome of fiber plants such as flax Dmitriev et al, kenaf (Zhang et al, 2020) and others can aid scientists to detect the precise position of genes of interest on chromosomes. The identification of these associated markers constitutes the foundation of the genotyping technology and is useful to determine the genetic relatedness and structure analysis among different accessions (Zhang et al, 2020).…”

Section: Introductionmentioning

confidence: 99%

“…The assembled genome of fiber plants such as flax Dmitriev et al, kenaf (Zhang et al, 2020) and others can aid scientists to detect the precise position of genes of interest on chromosomes. The identification of these associated markers constitutes the foundation of the genotyping technology and is useful to determine the genetic relatedness and structure analysis among different accessions (Zhang et al, 2020). These, in their turn are the foundation of genetic mapping and MAS (molecular marker-assisted selection).…”

Section: Introductionmentioning

confidence: 99%

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Editorial: Applied Genetics of Natural Fiber Plants

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Section: Genome-based Molecular Markers and Gene Identifications For mentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Editorial: Applied Genetics of Natural Fiber Plants

et al. 2021

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“…and kenaf ( Hibiscus cannabinus L .) have been completed focusing on the analysis of vital structural and regulatory genes involved in fibre biogenesis [ 8 , 9 ].…”

Section: Introductionmentioning

confidence: 99%

In silico identification of conserved miRNAs in the genome of fibre biogenesis crop Corchorus capsularis

Ahmed

et al. 2021

Heliyon

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Corchorus capsularis, commonly known as jute occupies the leading position in the production of natural fibre alongside lower environmental threat. Small noncoding ~21 to 24 nucleotides long microRNAs play significant roles in regulating the gene expression as well as different functions in cellular growth and development. Here, the study adopted a comprehensive in silico approach to identify and characterize the conserved miRNAs in the genome of C. capsularis including functional annotation of specific gene targets. Expressed Sequence Tags (ESTs) based homology search of 3350 known miRNAs of dicotyledons were allowed against 763 non-redundant ESTs of jute genome, resulted in the prediction of 5 potential miRNA candidates belonging five different miRNA families (miR1536, miR9567-3p, miR4391, miR11300, and miR8689). The putative miRNAs were composed of 18 nucleotides having a range of -0.49 to -1.56 MFEI values and 55%–61% of (A + U) content in their pre-miRNAs. A total of 1052 gene targets of putative miRNAs were identified and their functions were extensively analyzed. Most of the gene targets were involved in plant growth, cell cycle regulation, organelle synthesis, developmental process and environmental responses. Five gene targets, namely, NAC Domain Containing Protein, WRKY DNA binding protein, 3-dehydroquinate synthase, S-adenosyl-L-Met–dependent methyl transferase and Vascular-related NAC-Domain were found to be involved in the lignin biosynthesis, phenylpropanoid pathways and secondary wall formation. The present study might accelerate the more miRNA discovery, strengthening the complete understanding of miRNAs association in the cellular basis of lignin biosynthesis towards the production of high standard jute products.

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“…Recently, genome sequencing of different bast (phloem) fibres plants such as Jute (Corchorus sp.) and kenaf (Hibiscus cannabinus L.) has been completed focusing on the analysis of key regulatory and structural genes involved in fibre biogenesis [12,13].…”

Section: Introductionmentioning

confidence: 99%

In silicoIdentification and Functional Characterization of Conserved miRNAs in Fibre Biogenesis CropCorchorus capsularis

Hasan

Ahmed

et al. 2020

Preprint

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Corchorus capsularis, commonly known as jute occupies the leading position in the production of natural fibre and fibre based products alongside lower environmental threat. Nowadays, the study of lignin biosynthesis pathways with other molecular basis of fibres formation are being more focused for its economic perspective. Small noncoding ~21 to 24 nt nucleotides long microRNAs play significant roles in regulating the gene expression as well as different functions in cellular growth and development. Here, the study adopted a comprehensive in silico approach to identify and characterize the conserved miRNAs in the genome of C. capsularis including specific gene targets involved in the crucial cellular process. Expressed Sequence Tags (ESTs) based homology search of 3350 known miRNAs of dicotyledons were allowed against 763 nonredundant ESTs of jute genome resulted in the prediction of 5 potential miRNA candidates belonging five different miRNA families (miR1536, miR9567-3p, miR4391, miR11300, and miR8689). The putative miRNAs were 18 nucleotide length, within a range of -0.49 to -1.56 MFEI values and 55% to 61% of (A+U) content of their correspondence pre-miRNAs. A total of 1052 gene targets of putative miRNAs were identified and their functions were extensively analyzed. Most of the gene targets were involved in plant growth, cell cycle regulation, organelle synthesis, developmental process and environmental responses. The five gene targets, namely, NAC Domain Containing Protein, WRKY DNA binding protein, 3-dehydroquinate synthase, Sadenosyl-L-Met-dependent methyl transferase and Vascular-related NAC-Domain were found to be involved in the lignin biosynthesis, phenylpropanoid pathways and secondary wall formation which could play significant roles in the overall fibre biogenesis. The characterization of conserved miRNAs and their functional annotation of specific gene targets might enhance the more miRNA discovery, strengthening the complete understanding of miRNAs association in the cellular basis of lignin biosynthesis towards the production of high standard jute products.

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

Cited by 65 publications

References 37 publications

Editorial: Applied Genetics of Natural Fiber Plants

Editorial: Applied Genetics of Natural Fiber Plants

In silico identification of conserved miRNAs in the genome of fibre biogenesis crop Corchorus capsularis

In silicoIdentification and Functional Characterization of Conserved miRNAs in Fibre Biogenesis CropCorchorus capsularis

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