Ontology highlight
ABSTRACT:
PROVIDER: PRJNA800025 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR17818421.fastq.gz | Fastqsanger.gz | |||
| SRR17818422.fastq.gz | Fastqsanger.gz | |||
| SRR17818423.fastq.gz | Fastqsanger.gz | |||
| SRR17818424.fastq.gz | Fastqsanger.gz | |||
| SRR17818425.fastq.gz | Fastqsanger.gz |
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Project description:To examine the P. patens genome-wide methylation landscape and assess its functional significance during dehydration, we generated the first single-base resolution genome methylation maps for P. patens gametophores of hydrated (HD), moderate dehydrated (MDH), severe dehydrated (SDH), partially recovered (PRE) and fully recovered (FRE). The overall density of methyl-cytosine was not broadly altered by dehydration and recovery. There is, however, a small increase in intensity both for the whole genome and regionally during MDH and FRE. Only 225 differentially expressed genes were located in differentially methylated regions (DMRs) during the dehydration-recovery cycle. The finding may provide an important clue for exploring molecular mechanisms and the regulation of desiccation tolerance at the whole-genome level.
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Project description:Genome-wide small RNAtranscriptome analysis during dehydration and recovery in gametophores of Physcomitrella patens
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Project description:Gene transcript abundances were analyzed with samples taken from hydrated (HD), moderate dehydration (MDH), desiccated (SDH), partially recovered (PRE) and fully recovered (FRE) gametophores of P. patens by using RNA-Seq. Totally, 14686 transcripts were identified as differentially expressed transcripts.The results provided insight for exploring the mechanisms of desiccation tolerance and their evolution.
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Project description:Small RNA transcript abundances were analyzed with samples taken from hydrated (HD), moderate dehydration (MDH), desiccated (SDH), partially recovered (PRE) and fully recovered (FRE) gametophores of P. patens by using next generation sequencing. Totally, 147 microRNAs were identified as differentially expressed miRNAs.The results provided insight for exploring the mechanisms of desiccation tolerance and their evolution.
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Project description:Molecular oxygen (O2) is necessary for plant metabolic and physiological processes. Land plants have successfully adapted to a range of habitats characterised by very different dynamics of O2 availability. O2 sensing has been mainly characterised in angiosperms, where it is mediated by the N-Cys branch of the N-degron pathway. We aimed to characterise the transcriptional response to limited oxygen availability (hypoxia) in non-seed plants. We set out to compare the transcriptional response to hypoxia in a range of species that recapitulate the major events in the evolution of land plants: M. polymorpha for Hepatophyta, P. patens for Bryophyta, S. moellendorffii for Lycophyta, E. hyemale and P. vittata for eusporangiate and leptosporangiate Monilophyta. Given the differences in each division’s life cycle, we selected the developmental phase that includes the main photosynthetically active organs, to enable comparability of tissues with similar metabolic features. Therefore, we treated mature sporophytes of Marchantia (n), Selaginella (2n), Equisetum (2n) and Pteris (2n) with 1% O2 in the dark for 8 h, while we subjected Physcomitrium gametophores to the same treatment. Controls were maintained under aerobic conditions (21% O2) in the dark. We extracted total mRNAs and sequenced them using the Illumina technology (cit.) to identify differentially expressed genes. We compared the effect of hypoxia on these five species with the datasets available for photosynthetic sporophytes of angiosperms, Arabidopsis thaliana and Oryza sativa . We observed a different extent of response for these species, where P. patens exhibited the mildest changes, in terms of both number of DEGs and extent of up- and down-regulation. In contrast, Arabidopsis and Rice showed a strong response to the treatment.
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