Digital gene expression profiling of flax ( Linum usitatissimum L.) stem peel identifies genes enriched in fiber-bearing phloem tissue

Guo, Yuan; Qiu, Caisheng; Long, Songhua; Chen, Ping; Hao, Dongmei; Preisner, Marta; Wang, Hui; Wang, Yufu

doi:10.1016/j.gene.2017.05.002

Cited by 18 publications

(16 citation statements)

References 39 publications

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“…Coincidently, CesA 8 from Arabidopsis was found to play a role in secondary cell wall synthesis in flax [1]. In addition to cellulose synthases, FLAs and BGALs have also been reported to be involved in the formation of cellulose rich gelatinous fibers [1,[16][17][18]. Among the DEGs in the cluster 2, FLA 11/12 and BGAL 3/9 are up-regulated in ER and FER (Additional file 1: Table S2).…”

Section: Discussionmentioning

confidence: 97%

“…There are 9 CesA genes orthologous to Arabidopsis identified in ramie from our RNA-seq analysis, but only CesA 3 and CesA 8 show up-regulation in both ER and FER, which indicates that these 2 genes might be involved in ramie's secondary cell wall biogenesis during fiber development. Coincidently, CesA 8 from Arabidopsis was found to play a role in secondary cell wall synthesis in flax [1]. In addition to cellulose synthases, FLAs and BGALs have also been reported to be involved in the formation of cellulose rich gelatinous fibers [1,[16][17][18].…”

Section: Discussionmentioning

confidence: 99%

“…Besides ramie, the well-known bast fiber crops include flax (Linum usitatissimum) and hemp (Cannabis sativa). By using genomic and transcriptomic analysis, significant progress has been made on bast fiber study in flax, hemp and ramie in recent years [1][2][3][4][5][6][7]. Through transcriptomic profiling, several secondary cell wall synthesis related proteins such as cellulose synthase, expansin and xyloglucan endotransglucosylase/hydrolase (XTH) were identified to be likely involved in fiber development in ramie [7].…”

Section: Introductionmentioning

confidence: 99%

“…Ramie has a vigorous vegetative growth, and its stem undergoes obvious elongation and thickening processes. Both ramie and flax initiate and produce primary phloem fibers in stem from the shoot apical meristem (SAM) [1]. Ramie also produces secondary phloem fibers in stem, which is similar to hemp or tension wood of poplar (Populus tremula).…”

Section: Introductionmentioning

confidence: 99%

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Comparative transcriptomics of stem bark reveals genes associated with bast fiber development in Boehmeria nivea L. gaud (ramie)

Xie

Jie

et al. 2020

BMC Genomics

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Background: Boehmeria nivea L. Gaud (Ramie) produces one of the longest natural fibers in nature. The bark of ramie mainly comprises of the phloem tissue of stem and is the raw material for fiber. Therefore, identifying the molecular regulation of phloem development is important for understanding of bast fiber biosynthesis and improvement of fiber quality in ramie. Results: In this study, we collected top bud (TB), bark from internode elongating region (ER) and bark from internode fully elongated region (FER) from the ramie variety Zhongzhu No. 1. Histological study indicated that these samples contain phloem tissues at different developmental and maturation stages, with a higher degree of maturation of phloem tissue in FER. RNA sequencing (RNA-seq) was performed and de novo transcriptome was assembled. Unigenes and differentially expressed genes (DEGs) in these three samples were identified. The analysis of DEGs by using Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) revealed clear differences in gene expression between ER and FER. Some unigenes involved in secondary cell wall biosynthesis were up-regulated in both ER and FER, while unigenes for some cell wall components or cell wall modifications showed differential expression between ER and FER. In addition, the ethylene respond factors (ERFs) in the ethylene signaling pathway were up-regulated in FER, and ent-kaurenoic acid oxidase (KAO) and GA 20-oxidase (GA20ox) for gibberellins biosynthesis were up-regulated while GA 2-oxidase (GA2ox) for gibberellin inactivation was down-regulated in FER.Conclusions: Both morphological study and gene expression analysis supported a burst of phloem and vascular developmental processes during the fiber maturation in the ramie stem, and ethylene and gibberellin are likely to be involved in this process. Our findings provide novel insights into the phloem development and fiber maturation in ramie, which could be useful for fiber improvement in ramie and other fiber crops.

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Section: Discussionmentioning

confidence: 97%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Comparative transcriptomics of stem bark reveals genes associated with bast fiber development in Boehmeria nivea L. gaud (ramie)

Xie

Jie

et al. 2020

BMC Genomics

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show abstract

“…Besides ramie, the well-known bast fiber crops include flax (Linum usitatissimum) and hemp (Cannabis sativa). In recent years, significant progress has been made in bast fiber study by using genome and transcriptome analysis in flax, hemp and ramie [1][2][3][4][5]. Ramie has a vigorous vegetative growth, and its stem undergoes obvious elongation and thickening processes.…”

Section: Introductionmentioning

confidence: 99%

Comparative transcriptomics of stem bark reveals genes associated with bast fiber development in Boehmeria nivea L. Gaud (ramie)

Xie

Jie

et al. 2019

Preprint

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Background: Boehmeria nivea L. Gaud (Ramie) produces one of the longest natural fibers in nature. The bark of ramie is the raw material for fiber and primarily includes the entire phloem tissue of the plant stem. Therefore, identifying the molecular regulation of phloem development is important for the understanding of bast fiber biosynthesis and improvement in fiber quality in ramie. Results: In this study, we collected top bud (TB), bark from internode elongating region (ER) and bark from internode fully elongated region (FER) from the ramie variety Zhongzhu No. 1. Histological study indicated that these samples contain phloem tissues at different developmental and maturation stages, with a higher degree of maturation of phloem tissue in FER. RNA sequencing (RNA-seq) was performed to identify differentially expressed genes (DEGs) among these three samples. The de novo transcriptome was assembled and unigenes were identified. The DEGs among TB, ER and FER were analyzed, and Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) studies revealed clear differences in gene expression between ER and FER. Some unigenes for secondary cell wall biosynthesis were up-regulated in both ER and FER, and other cell wall components or cell wall modification related genes showed differential expression between ER and FER. In addition, ethylene activating pathway and gibberellins biosynthesis varied among samples in a stage dependent pattern. Conclusions: Both morphological study and gene expression analysis supported a burst of phloem and vascular development processes during the fiber maturation in the ramie stem. Two types of phytohormons, ethylene and gibberellin, might be involved in. Our findings provide novel insights into the phloem development and fiber maturation in ramie, which could be useful for fiber improvement in ramie and other fiber crops.

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Key Stages of Flax Bast Fiber Development Through the Prism of Transcriptomics

Gorshkova

Mokshina

Mitsuda

et al. 2023

Compendium of Plant Genomes

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Digital gene expression profiling of flax ( Linum usitatissimum L.) stem peel identifies genes enriched in fiber-bearing phloem tissue

Cited by 18 publications

References 39 publications

Comparative transcriptomics of stem bark reveals genes associated with bast fiber development in Boehmeria nivea L. gaud (ramie)

Comparative transcriptomics of stem bark reveals genes associated with bast fiber development in Boehmeria nivea L. gaud (ramie)

Comparative transcriptomics of stem bark reveals genes associated with bast fiber development in Boehmeria nivea L. Gaud (ramie)

Key Stages of Flax Bast Fiber Development Through the Prism of Transcriptomics

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