Funariaceae[orgn] - GEO DataSets

(Submitter supplied) Photosynthetic organisms use sunlight as energy source but rely on respiration during the night and in non-photosynthetic tissues. Respiration is also active in photosynthetically active cells, where its role is still unclear due to a lack of viable mutants. We previously isolated plants lacking a functional complex I (ndufa5). Plants lacking cytochrome c oxidase (complex IV) activity are generally lethal but were here isolated exploiting the possibility of generating knockout lines through vegetative propagation in the moss Physcomitrium patens. more...

Organism:: Physcomitrium patens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL30955
47 Samples

Download data: CSV

Series

Accession:: GSE266458

ID:: 200266458

Select item 2002339273.

Comparative analysis of nascent transcription among plant species

(Submitter supplied) Comparative analysis of nascent transcription among plant species

Organism:: Physcomitrium patens; Hordeum vulgare; Drosophila melanogaster; Selaginella moellendorffii; Carica papaya; Arabidopsis thaliana; Chlamydomonas reinhardtii; Zea mays

Type:: Expression profiling by high throughput sequencing; Other; Non-coding RNA profiling by high throughput sequencing

17 related Platforms
68 Samples

Download data: BED, TXT, XLSX

Series

Accession:: GSE233927

ID:: 200233927

PubMed Full text in PMC Similar studies

Select item 2002133444.

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

(Submitter supplied) 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. more...

Organism:: Physcomitrium patens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL30955
4 Samples

Download data: TXT

Series

Accession:: GSE213344

ID:: 200213344

PubMed Similar studies

Select item 2002133485.

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

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Physcomitrium patens

Type:: Expression profiling by high throughput sequencing; Other

Platform:: GPL30955
6 Samples

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Series

Accession:: GSE213348

ID:: 200213348

PubMed Similar studies

Select item 2002133476.

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

Organism:: Physcomitrium patens

Type:: Expression profiling by high throughput sequencing; Other

Platform:: GPL30955
2 Samples

Download data: BED

Series

Accession:: GSE213347

ID:: 200213347

PubMed Similar studies

Select item 2001986937.

Mutating DDM1 in Physcomitrella patens disrupts DNA methylation with a minute effect on transposon regulation and development

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Physcomitrium patens

Type:: Methylation profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:: GPL29161 GPL30955 GPL30513
8 Samples

Download data: GFF

Series

Accession:: GSE198693

ID:: 200198693

PubMed Full text in PMC Similar studies

Select item 2001986918.

Mutating DDM1 in Physcomitrella patens disrupts DNA methylation with a minute effect on transposon regulation and development [RNA-seq]

(Submitter supplied) We mutated PpDDM1 and the early land plant. Using BS-seq and RNA-seq, we here show that though DNA methylation is disrupted in all contexts development isn't and TE and gene differential expression are minute

Organism:: Physcomitrium patens

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL30955 GPL30513
6 Samples

Download data: TXT

Series

Accession:: GSE198691

ID:: 200198691

PubMed Full text in PMC Similar studies

Select item 2001975929.

Mutating DDM1 in Physcomitrella patens disrupts DNA methylation with a minute effect on transposon regulation and development [Bisulfite-seq]

Organism:: Physcomitrium patens

Type:: Methylation profiling by high throughput sequencing

Platform:: GPL29161
2 Samples

Download data: GFF

Series

Accession:: GSE197592

ID:: 200197592

PubMed Full text in PMC Similar studies

Select item 20021392010.

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

(Submitter supplied) 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.

Organism:: Physcomitrium patens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL32682
5 Samples

Download data: TXT

Series

Accession:: GSE213920

ID:: 200213920

PubMed Similar studies

Select item 20018884311.

Genes affected by auxin and decapitation in moss gametophores

(Submitter supplied) The goal of this study is to identify genes whose expression is affected by decapitation and auxin in moss gametophores Project ngs2017_09_moss1-auxin in CATdb What genes are misregulated in response to decapitation or auxin response?

Organism:: Physcomitrium patens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL30955
21 Samples

Download data: TXT

Series

Accession:: GSE188843

ID:: 200188843

PubMed Similar studies

Select item 20020525712.

A Physcomitrella protein acts in spermatogenesis and sporophyte abortion

(Submitter supplied) Functional targeting of PpPINC gene in Physcomitrella, researching it's role during gametangia and sporophyte development.

Organism:: Physcomitrium patens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL32248
12 Samples

Download data: TXT

Series

Accession:: GSE205257

ID:: 200205257

Select item 20014842313.

Global analysis reveals large scale dynamics of protein-RNA interaction and RNA secondary structure characteristics of Physcomitrella patens ABA response (PIP-Seq)

(Submitter supplied) Eukaryotic RNA molecules undergo multiple regulatory steps prior to being translated as proteins. Two features of post-transcriptional regulation are RNA secondary structure and RNA-binding protein (RBP) interactions with mRNAs. Here we reveal the global landscape of RBP-RNA interactions the bryophyte Physcomitrella patens undergoes as part of its response to the phytohormone abscisic acid (ABA). We show that P. more...

Organism:: Physcomitrium patens

Type:: Other

Platform:: GPL17793
24 Samples

Download data: BED, BED12

Series

Accession:: GSE148423

ID:: 200148423

SRA Run Selector

Select item 20014842214.

Global analysis reveals large scale dynamics of protein-RNA interaction and RNA secondary structure characteristics of Physcomitrella patens ABA response (mRNA)

Organism:: Physcomitrium patens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17793
6 Samples

Download data: TXT

Series

Accession:: GSE148422

ID:: 200148422

SRA Run Selector

Select item 20018211215.

The Physcomitrium patens egg cell changes the epigenetic program and utilizes homologs of Arabidopsis male genes, including BONOBOs, for cell specification

(Submitter supplied) We used single cell laser-assisted microdissection (LAM) to perform egg cell transcriptome analysis for comparison with available expression profiles of vegetative tissues and male reproductive organs. We observed an overlap in gene activity between bryophyte and angiosperm egg cells, but also clear differences. Strikingly, several processes that are male germline-specific in Arabidopsis are active in the P. more...

Organism:: Physcomitrium patens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL30513
4 Samples

Download data: TXT

Series

Accession:: GSE182112

ID:: 200182112

SRA Run Selector

Select item 20014205416.

Non-CG methylation is more potent than CG methylation in moss genome regulation

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Physcomitrium patens; Arabidopsis thaliana

Type:: Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing

5 related Platforms
29 Samples

Download data: GFF

Series

Accession:: GSE142054

ID:: 200142054

Select item 20014205317.

Non-CG methylation is more potent than CG methylation in moss genome regulation [Ppatens RNA-Seq]

(Submitter supplied) Cytosine methylation is commonly targeted to symmetrical CG sites, as well as to non-CGs, such as the symmetrical-CHG and asymmetric-CHH sites in plants (H= A, C or T). Thus far, depletion of CG methylation in plants was associated with ample transcriptional activation of transposons. Here, we profiled transcription in various context specific methylation mutants in the early-diverged plant, Physcomitrella patens. more...

Organism:: Physcomitrium patens

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL27916 GPL17793
20 Samples

Download data: TXT

Series

Accession:: GSE142053

ID:: 200142053

SRA Run Selector

Select item 20014205118.

Non-CG methylation is more potent than CG methylation in moss genome regulation [Ppatens BS-Seq]

Organism:: Physcomitrium patens

Type:: Methylation profiling by high throughput sequencing

Platforms:: GPL29161 GPL14798
3 Samples

Download data: GFF

Series

Accession:: GSE142051

ID:: 200142051

SRA Run Selector

Select item 20014505019.

Two novel PLS-class pentatricopeptide repeat proteins are involved in the group II intron splicing of mitochondrial transcripts in the moss Physcomitrella patens

(Submitter supplied) Pentatricopeptide repeat (PPR) proteins are RNA binding proteins that function in posttranscriptional regulation as gene-specific regulators of RNA metabolism in plant organelles. Plant PPR proteins are divided into four classes: P, PLS, E and DYW. The E- and DYW-class proteins are mainly implicated in RNA editing, whereas most of the P-class proteins predominantly participate in RNA cleavage, splicing and stabilization. more...