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N6-Methyladenosine modification of mRNA regulates the transition from 2D to 3D growth in the moss Physcomitrium patens [RNA-seq]

ABSTRACT: N6-Methyladenosine modification of mRNA regulates the transition from 2D to 3D growth in the moss Physcomitrium patens [RNA-seq]

PROVIDER: PRJNA880579 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR21566753_1.fastq.gz	Fastqsanger.gz
	SRR21566753_2.fastq.gz	Fastqsanger.gz
	SRR21566754_1.fastq.gz	Fastqsanger.gz
	SRR21566754_2.fastq.gz	Fastqsanger.gz
	SRR21566755_1.fastq.gz	Fastqsanger.gz

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N6-Methyladenosine modification of mRNA regulates the transition from 2D to 3D growth in the moss Physcomitrium patens [MeRIP-seq]

Project description:In this study, we identified the main genes of the m6A methyltransferase complex (MTC) in P. patens and we demonstrate that their inactivation by genome editing leads to loss of m6A presence in mRNA and results in defects in the moss life cycle. We detected a delay in the formation of gametophore buds, affecting the transition from 2D to 3D growth and subsequent gametophore formation in all MTC mutant plants. We also observed a defect in spore development, with mutant lines producing reduced-size spores that completely failed to germinate. We performed a genome-wide analysis that revealed several transcripts being affected in the Ppmta background. In addition, we demonstrate that the PpAPB1-4 transcripts, known to be central factors regulating the 2D to 3D transition, are m6A-modified, while in the Ppmta mutant the lack of the m6A mark is associated with a corresponding decrease in their transcript accumulation.

2023-04-11 | GSE213347 | GEO

N6-Methyladenosine modification of mRNA regulates the transition from 2D to 3D growth in the moss Physcomitrium patens [RNA-seq]

2023-05-10 | GSE213344 | GEO

Quantitative proteomic dataset of the moss Physcomitrium patens SMG1 KO mutant line

Project description:Here, we provide an isobaric tag for relative and absolute quantitation (iTRAQ)-based quantitative proteomic dataset of the moss Physcomitrium patens smg1 knockout line. The kinase SMG1 is one of the key components of the NMD system in many organisms, including plants. Several lines with a deleted SMG1 in a land Physcomitrium patens subsp. patens (“Gransden 2004”, Frieburg) were produced by James P. B. Lloyd [doi.org/10.1111/tpj.12329]. One of these lines, SMG1 KO mutant line 2, was used for this study. Protonemata of WT and mutant lines were grown in200 ml liquid BCD medium supplemented with 5 mM ammonium tartrate (BCDAT) during a 16-h photoperiod at 250C for 8 days [https://doi.org/10.1101/pdb.prot5136]. All experiments were performed in three biological replicates.

2021-11-02 | PXD029205 | Pride

Small RNAs from the moss Physcomitrella patens

Project description:High-throughput sequencing of endogenous small RNAs from the moss Physcomitrella patens. This dataset encompasses microRNAs and other small RNAs of ~20-24 nucleotides expressed in the moss P. patens. SAMPLES UPDATED JULY 9, 2007 TO INCLUDE DATA ON SEQUENCED SMALL RNAS THAT DO NOT MATCH THE P. PATENS GENOME Keywords: High throughput small RNA sequencing

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N6-Methyladenosine modification of mRNA regulates the transition from 2D to 3D growth in the moss Physcomitrium patens

Project description:N6-Methyladenosine modification of mRNA regulates the transition from 2D to 3D growth in the moss Physcomitrium patens

| PRJNA880581 | ENA

Quantitative proteomic dataset of the moss Physcomitrium patens PpRALF knockout lines

Project description:RAPID ALKALINIZATION FACTOR (RALF) peptides are shown to regulate multiple physiological processes in plants, including modulation of immune response in angiosperms. This family of cysteine-rich peptide hormones has considerably expanded during land plant evolution, but the ancestral roles of RALF peptides in stress response remains poorly understood. Here, we used the moss Physcomitrium patens as a model to gain insight into the function of PpRALF peptides in response to abiotic and biotic stress factors in non-vascular plants. The quantitative proteomic analysis revealed cooperative down-regulation of M6 metalloproteases and membrane proteins, including those involved in stress response, in PpRALF1, 2 and 3 knockout (KO) lines.

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N6-Methyladenosine modification of mRNA regulates the transition from 2D to 3D growth in the moss Physcomitrium patens [MeRIP-seq]

Project description:N6-Methyladenosine modification of mRNA regulates the transition from 2D to 3D growth in the moss Physcomitrium patens [MeRIP-seq]

| PRJNA880588 | ENA

STN7 kinase-dependent Light-harvesting complex (LHC) protein phosphorylations in the moss Physcomitrium (Physcomitrella) patens

Project description:Photosystem (PS) I and PSII enclose the reaction center subunits and cofactors responsible for the conversion of sunlight into chemical energy. In the thylakoid membrane of oxygenic photosynthetic organisms, PSII splits the water molecules and donates electrons to the electron transfer chain, and further via PSI to form NADPH. Proteins of the light-harvesting complexes (LHC) I and II are mainly associated with PSI and PSII, respectively, but also provide dynamics for the adjustments of the absorption cross-section of PSII and PSI upon changing light conditions. LHCII proteins N-terminal phosphorylation affects their interaction either with PSI or with PSII, and is a molecular mechanism present from green algae and early land plants to higher plants. The kinase STN7 is responsible for N-terminal phosphorylation of the LHCII proteins in algae and flowering plants model species, but the specific targets and role of STN7-dependent reversible phosphorylation in formation of various PS-LHC complexes in evolutionarily early land plants like mosses is poorly studied. The aim of this project was to identify the phosphorylated residues of the LHCII subunits of the moss Physcomitrium (Physcomitrella) patens (hereafter: P. patens), i.e. the LHCBM proteins, and to determine which of the phosphosites are phosphorylated by the STN7 kinase. Subsequently, the goal has been to identify which of the LHCBM subunits that are part of PSI-LHCI-LHCII complex (state complex), and of the moss-specific PSI-Large complex, are N-terminally phosphorylated in the STN7-dependent fashion.

2022-06-24 | PXD026183 | Pride

Surface-localized glycoproteins act through class C ARFs to fine-tune gametophore initiation in Physcomitrium patens

Project description:To investigate transcriptomic profiles when auxin-dependent transcription factor ARFC2 from Physcomitrium patens is expressed, we established an inducible overexpressor line for PpARFC2. We then perform bulk RNA-seq on protonemata tissues that have been mock-treated or induced by beta-estradiol for 16 h.

2022-09-27 | GSE213920 | GEO

Dynamics of the transcriptome response to heat in the moss, Physcomitrella Patens

Project description:The moss Physcomitrella patens was employed to study abiotic stress responses in order to understand the effects of mild (30°C) and strong (37°C) continuous heat stresses from 1h to 24h at a transcriptomic level.

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