Genomic analyses provide comprehensive insights into the domestication of bast fiber crop ramie (<i>Boehmeria nivea</i>)

Wang, Yanzhou; Fu, Li; He, Qiaoyun; Bao, Zhigui; Zeng, Zheng; An, Dong; Zhang, Ting; Li, Yan; Wang, Hengyun; Zhu, Siyuan; Liu, Touming

doi:10.1111/tpj.15346

Cited by 21 publications

(27 citation statements)

References 91 publications

(105 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The changes in cell wall structure and components were another important factor affecting cell elongation (Scheible and Pauly, 2004 ; Coomey et al, 2021 ; Li et al, 2021 ; Wang et al, 2021 ). In Shidu bamboo, corresponding signs, such as the thinning of its fiber cell wall and the decrease in lignin, cellulose, and hemicellulose content in the culm wall compared with the prototype plant ( Table 1 ; Figures 5B–D ), indicate that its cell wall exhibits abnormal development.…”

Section: Discussionmentioning

confidence: 99%

Anatomical Characteristics and Variation Mechanisms on the Thick-Walled and Dwarfed Culm of Shidu Bamboo (Phyllostachys nidularia f. farcta)

Wang

Qiao

et al. 2022

Front. Plant Sci.

View full text Add to dashboard Cite

Stable culm variants are valuable and important material for the study of culm development in bamboo plants. However, to date, there are few reports on the mechanism of variation of these bamboo variants. Phyllostachys nidularia f. farcta (Shidu bamboo) is a bamboo variant with stable phenotypes such as a dwarf culm with a thickened wall. In this study, we systematically investigated the cytological characteristics and underlying mechanism of morphological variation in culms of this variant using anatomical, mathematical statistical, physiological, and genomic methods. The anatomical observation and statistical results showed that the lateral increase of ground tissue in the inner layer of culm wall and the enlargement of vascular bundles are the anatomical essence of the wall thickening of Shidu bamboo; the limited elongation of fiber cells and the decrease in the number of parenchyma cells longitudinally are probably the main causes of the shortening of its internodes. A number of genes involved in the gibberellin synthesis pathway and in the synthesis of cell wall components are differentially expressed between the variant and its prototype, Ph. nidularia, and may play an important role in determining the phenotype of internode shortening in Shidu bamboo. The decrease in gibberellin content and the content of the major chemical components of the cell wall of Shidu bamboo confirmed the results of the above transcriptome. In addition, the variation in culm morphology in Shidu bamboo had little effect on the volume of the culm wall of individual internodes, suggesting that the decrease in the total number of internodes and the decrease in dry matter content (lignin, cellulose, etc.) may be the main factor for the sharp decline in culm biomass of Shidu bamboo.

show abstract

Section: Discussionmentioning

confidence: 99%

Anatomical Characteristics and Variation Mechanisms on the Thick-Walled and Dwarfed Culm of Shidu Bamboo (Phyllostachys nidularia f. farcta)

Wang

Qiao

et al. 2022

Front. Plant Sci.

View full text Add to dashboard Cite

show abstract

“…In this study, we identified scores of fiber growth-related genes and determined their putative role in the secondary wall biosynthesis of fibers using orthologous analysis. In recent, at least five ramie genes had been identified to be involved in the biosynthesis of secondary walls, and their overexpression could cause a change of fiber growth in transgenic Arabidopsi s [ 37 – 40 ], indicating that there is a conserved mechanism in the biosynthesis of secondary walls between the fibers of Arabidopsis and ramie, and therefore, it is feasible to analyse the mechanism underlying the secondary wall biosynthesis by the orthologous analysis. Consequently, this study proposed a model for the secondary wall biosynthesis of fibers in ramie firstly, based on the orthologous analysis.…”

Section: Discussionmentioning

confidence: 99%

“…In Arabidopsis , at least 16 MYB proteins and 13 NAC proteins are involved in this regulatory network [ 1 ]. Recently, several transcriptional regulators have been identified to be involved in the fiber growth of ramie [ 37 – 40 ], including two NAC proteins Bnt03G004997 and Bnt08G012573 that are the orthologs of Arabidopsis VND4/VND5 and NST1/NST2, respectively. Overexpression of ramie MYB gene whole_GLEAN_10015497 caused a significant increase in the fiber number, as well a distinct thickening in the secondary wall, in the transgenic Arabidopsis [ 37 ].…”

Section: Discussionmentioning

confidence: 99%

Identification of proteins associated with bast fiber growth of ramie by differential proteomic analysis

Zeng

Huang

et al. 2021

BMC Genomics

Self Cite

View full text Add to dashboard Cite

Background Ramie is an important fiber-producing crop in China, and its fibers are widely used as textile materials. Fibers contain specialized secondary cellular walls that are mainly composed of cellulose, hemicelluloses, and lignin. Understanding the mechanism underlying the secondary wall biosynthesis of fibers will benefit the improvement of fiber yield and quality in ramie. Results Here, we performed a proteomic analysis of the bark from the top and middle parts of the stem, where fiber growth is at different stages. We identified 6971 non-redundant proteins from bast bark. Proteomic comparison revealed 983 proteins with differential expression between the two bark types. Of these 983 proteins, 46 were identified as the homolog of known secondary wall biosynthetic proteins of Arabidopsis, indicating that they were potentially associated with fiber growth. Then, we proposed a molecular model for the secondary wall biosynthesis of ramie fiber. Furthermore, interaction analysis of 46 candidate proteins revealed two interacting networks that consisted of eight cellulose biosynthetic enzymes and seven lignin biosynthetic proteins, respectively. Conclusion This study sheds light on the proteomic basis underlying bast fiber growth in ramie, and the identification of many candidates associated with fiber growth provides important basis for understanding the fiber growth in this crop.

show abstract

Section: Introductionmentioning

confidence: 99%

“…Ramie is an important ber crop in the Urticaceaes family which is also widely used as feed and other industrial raw materials [26][27][28]. The completion of the genome sequencing project of ramie [26,29] provides a valuable data and platform for studying R2R3-MYB gene family and exploring its evolutionary characteristics. Despite the important role in plant speci c processes, very limited reports are present to date on the functional characteristics of R2R3-MYB transcription factor in ramie.…”

Section: Introductionmentioning

confidence: 99%

Genome-wide Analysis of R2R3-MYB Transcription Factors in Boehmeria nivea (L.) Gaudich Revealed Potential Cadmium Tolerance and Anthocyanin Biosynthesis Genes

Feng

Abubakar

Chen

et al. 2022

Preprint

View full text Add to dashboard Cite

MYB transcription factor (TFs) are one of the largest families in plants, and involved in many biological processes, including growth and development, metabolism and stress response. The MYB TFs has been extensively studied in various plant species. However, comprehensive information on MYB TFs in fiber crop ramie are still unknown. In the current study, a total of 105 BnGR2R3-MYB genes were identified from ramie genome and subsequently grouped into 35 subfamilies according to phylogeny divergence and sequences similarity. Chromosomal localization, gene structure, synteny analysis, gene duplication, promoter analysis, molecular characteristics and subcellular localization were accomplished using several bioinformatics tools. Collinearity analysis showed that the segmental and tandem duplication events is the dominant form of the gene family expansion, and duplications prominent in distal telomeric regions. Highest syntenic relationship was obtained between BnGR2R3-MYB genes and that of Apocynum venetum (88). Furthermore, transcriptomic data and phylogenetic analysis revealed that BnGMYB60, BnGMYB79/80 and BnGMYB70 might inhibit the biosynthesis of anthocyanins, and UPLC-QTOF-MS data further supported the results. The quantitative real-time qRT-PCR and phylogenetic analysis indicated that the six genes (BnGMYB9, BnGMYB10, BnGMYB12, BnGMYB28, BnGMYB41, BnGMYB78) were cadmium stress responsive genes. Especially, the expression of BnGMYB10/12/41 in roots, stems and leaves all increased more than 10-fold after cadmium stress, and in addition they may interact with key genes regulating flavonoid biosynthesis. Thus, a potential link between cadmium stress response and flavonoid synthesis was identified through protein interaction network analysis. In conclusion, the studies increase our understanding of the functional roles of MYBs and provided valuable foundation for study of structural and regulatory genes in ramie.

show abstract

Genomic analyses provide comprehensive insights into the domestication of bast fiber crop ramie (Boehmeria nivea)

Cited by 21 publications

References 91 publications

Anatomical Characteristics and Variation Mechanisms on the Thick-Walled and Dwarfed Culm of Shidu Bamboo (Phyllostachys nidularia f. farcta)

Anatomical Characteristics and Variation Mechanisms on the Thick-Walled and Dwarfed Culm of Shidu Bamboo (Phyllostachys nidularia f. farcta)

Identification of proteins associated with bast fiber growth of ramie by differential proteomic analysis

Genome-wide Analysis of R2R3-MYB Transcription Factors in Boehmeria nivea (L.) Gaudich Revealed Potential Cadmium Tolerance and Anthocyanin Biosynthesis Genes

Contact Info

Product

Resources

About