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ABSTRACT: Transcriptome profiling of spatial rapid division and elongation of fast-growth internodes of moso bamboo (Phyllostachys edulis)

PROVIDER: PRJNA547876 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR9218100_1.fastq.gz	Fastqsanger.gz
	SRR9218100_2.fastq.gz	Fastqsanger.gz
	SRR9218101_1.fastq.gz	Fastqsanger.gz
	SRR9218101_2.fastq.gz	Fastqsanger.gz
	SRR9218102_1.fastq.gz	Fastqsanger.gz

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Proteome Profiling of spatial rapid division and elongation of fast-growth internodes of moso bamboo (Phyllostachys edulis)

Project description:Proteome profiling of cellular metabolism and hormone signalling of spatial rapid division and elongation of moso bamboo fast-growth internodes

2020-04-13 | PXD018501 |

Transcriptomic profiling of abiotic responses to drought, salt, ABA and SA in Phyllostachys edulis

Project description:Moso bamboo (Phyllostachys edulis (Carrière) J. Houz.), ) is one of the most importantessential economic bamboo species in China. However, the woods quality and yield of bamboo shoots were significantly threatened by diverse environmental conditions. significantly threaten the quality of wood and yield of bamboo shoots. In this study, to explore the molecular mechanism of abiotic stress response, we report the RNA-seq analyses of mosoMoso bamboo treated with drought, salt, SA and ABA at three -time courses. A total of 224.4 Gb clean data were generate in to explore the molecular mechanism of the abiotic stress response. The full-length transcriptome sequencing of these four treatments generated a total of 224.4 Gb data after quality trimming, and approximately 5.83Gban average of 6.615 Gb clean data were per sample was generated in per sample. The comparative analyses of the generated transcriptome data in this study will provide a valuable resource for identifying regulatory genes and potential pathways involved in various abiotic stresses in mosoMoso bamboo.

2021-10-01 | GSE169067 | GEO

Total and mitochondrial transcriptomic and proteomic insights into energy regulation mechanism for shoot fast growth initiation in Moso bamboo(Phyllostachys edulis)

Project description:Moso bamboo (Phyllostachys edulis) is one of the fast-growing plant species and has high comprehensive utilization value. However, how Moso bamboo realize the transition from initial growth of winter shoot to fast growth of spring shoot is still unknown. Large increase of biomass in spring shoot suggests that alterations in bioenergetic processes may contribute to fast growth initiation. In this study, we successfully isolated mitochondria from winter shoots and spring shoots of Moso bamboo, and performed a total and mitochondrial transcriptomic and proteomic analysis using RNA sequencing and Label-free quantitative proteomics technology. The main objective of the study was to augment the genomic and proteomic data available for Moso bamboo, identify key genes/proteins involved in energy metabolism, and systematically understand the energy metabolism mechanism of shoots growth during the transitory stage from initial growth to rapid growth.

2021-08-30 | PXD028178 |

Genome-wide profiling of circular RNAs in rapidly growing culms of moso bamboo

Project description:Transcriptome analysis of circular RNAs in the fast-growing species moso bamboo

2019-01-01 | GSE104951 | GEO

Transcriptome analysis of lateral buds from Phyllostachys edulis rhizome during germination and early shoot stages

Project description:We adopted the high-throughput sequencing technology and compared the transcriptomes of Moso bamboo rhizome buds in germination stage and late development stage. We found that the development of Moso bamboo rhizome lateral buds was coordinated by multiple pathways, including meristem development, sugar metabolism and phytohormone signaling. Phytohormones have fundamental impacts on the plant development. We found the evidence of several major hormones participating in the development of Moso bamboo rhizome lateral bud. Furthermore, we showed direct evidence that Gibberellic Acids (GA) signaling participated in the Moso bamboo stem elongation.

2019-12-14 | GSE142030 | GEO

Data-independent acquisition proteomics reveals the effects of red and blue light on the growth and development of moso bamboo(Phyllostachys edulis) seedlings

Project description:Moso bamboo is a fast-growing bamboo species with high economic, social and cultural value. The method of transplanting moso bamboo seedlings for afforestation has become a more economical and effective method. The effect of light on the growth of plant seedlings is mainly reflected in the regulation of different light quality on the growth and development of seedlings, including light morphogenesis, photosynthesis and secondary metabolites. Therefore, studying the effects of specific wavelength light on the physiology and proteome of moso bamboo seedlings will play an important role in growing seedlings and seed cultivation of moso bamboo. Here, moso bamboo seeds were germinated in the dark and then were transferred to the blue and red-light conditions. After 14 days, we observed the effects of different light treatments on the growth and development of seedlings, and then compared and analyzed their proteome.

2023-05-10 | PXD039570 | Pride

The culm color patterns in moso bamboo (Phyllostachys edulis)

Project description:The culm color patterns in moso bamboo (Phyllostachys edulis)

| PRJEB42398 | ENA

Distinct DNA methylomes of moso bamboo in the phase transition from vegetative to reproductive growth

Project description:Bamboo represents the only major lineage of grasses that is native to forests and is one of the most important non-timber forest products in the world. Moso bamboo is a large woody bamboo that has ecological, economic and cultural value in Asia and accounts for ~70% of the total bamboo growth area (Peng et al., 2013). In the aspect of epigenetics of Moso bamboo,the total genomic DNA methylation rates in Moso bamboo at different chronological ages were significantly different (Yuan et al., 2014). Those show that the flowering of Moso bamboo are closely related to epigenetic modification. However, DNA methylation in single base resolution has never been reported in moso bamboo. In this study, leaves from three-week bamboo, one-year bamboo, flower in next year bamboo, flowering bamboo and Flower florets was used for bisulfite sequencing (BS-seq), and RNA-Seq. Genome-wide methylation profile and gene expression analysis were constructed to reveal the factors to regualte the phase transition from vegetative to reproductive growth in moso bamboo.

2021-04-30 | GSE122135 | GEO

Distinct transcriptome of moso bamboo in the phase transition from vegetative to reproductive growth

2021-04-30 | GSE121216 | GEO

Comprehensive profiling of rhizome-associated alternative splicing and alternative polyadenylation reveals in moso bamboo (Phyllostachys edulis)

Project description:Moso bamboo (Phyllostachys edulis) represents one of the fastest-spreading plants in the world, due in part to their well-developed rhizomes system. However, the post-transcriptional regulation mechanism has not been comprehensively studied for the development of rhizome system in bamboo. We therefore used single-molecule long-read sequencing technology to re-annotate the bamboo genome, and genome-wide identify alternative splicing (AS) and alternative polyadenylation (APA) in the rhizomes system. In total, 145,522 mapped full-length non-chimeric (FLNC) reads were analyzed, resulting in the correction of 2,241 mis-annotated genes and identification of 8,091 previously unannotated loci. Markedly, more than 42,280 contiguous exon connectivity were derived from full-length splicing isoforms, including a large number of AS events that associated with rhizome systems. In addition, we characterized 25,069 polyadenylation sites from 11,450 genes, 6,311 of which have APA sites. Further analysis of intronic polyadenylation revealed that LTR/Gypsy and LTR/Copia were two major transposable elements (TEs) within the intronic polyadenylation region. Furthermore, this study provided a quantitative altas of poly(A) usage and identified several hundreds of differential poly(A) sites in rhizome-root system using a combination of polyadenylation site sequencing (PAS-seq) and PacBio reads. Taken together, these results suggest that posttranscriptional regulation may potentially play vital role in the underground rhizome-root system.

2017-05-10 | GSE90517 | GEO

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