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: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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Project description:Arabidopsis thaliana plants that have experienced an initial exposure to dehydration stress (“trained plants”) have an increased ability to maintain leaf relative water content (RWC) during subsequent stresses than plants experiencing the stress for the first time and transcription of selected dehydration response genes is altered during successive exposures to dehydration stress. This physiological and transcriptional behavior of trained plants is consistent with a “memory “of an earlier stress. It is unknown whether such memory is present in other Angiosperm lineages and whether it is an evolutionarily conserved response to stress. Here, we analyzed the behavior and transcriptomes of maize (Zea mays) plants experiencing multiple dehydration stresses and compare them with responses of the evolutionarily distant A. thaliana. We found structurally related genes in maize that displayed the same memory-type responses as in A. thaliana, providing evidence of the conservation of function and transcriptional memory in the evolution of plants’ dehydration stress response systems. Similar to A. thaliana, trained Z. mays plants retained higher RWC during dehydration stress than untrained plants, due in part to maintaining reduced stomatal conductance, despite full recovery of RWC, after the first stress. Divergent transcriptional memory responses were also expressed, suggesting diversification of function among stress memory genes. Some dehydration stress memory genes were also shared with other stress and hormone responding pathways, indicating complex and dynamic interactions between different plant signaling networks. The results provide new insight into how plants respond to multiple dehydration stresses and provide a platform for studies of the functions of memory genes in adaptive responses to water deficit in monocot and eudicot plants .
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Project description:Arabidopsis thaliana plants that have experienced an initial exposure to dehydration stress (“trained plants”) have an increased ability to maintain leaf relative water content (RWC) during subsequent stresses than plants experiencing the stress for the first time and transcription of selected dehydration response genes is altered during successive exposures to dehydration stress. This physiological and transcriptional behavior of trained plants is consistent with a “memory “of an earlier stress. It is unknown whether such memory is present in other Angiosperm lineages and whether it is an evolutionarily conserved response to stress (see E-GEOD-48235). Here, we analyzed the behavior and transcriptomes of maize (Zea mays) plants experiencing multiple dehydration stresses and compare them with responses of the evolutionarily distant A. thaliana. We found structurally related genes in maize that displayed the same memory-type responses as in A. thaliana, providing evidence of the conservation of function and transcriptional memory in the evolution of plants’ dehydration stress response systems. Similar to A. thaliana, trained Z. mays plants retained higher RWC during dehydration stress than untrained plants, due in part to maintaining reduced stomatal conductance, despite full recovery of RWC, after the first stress. Divergent transcriptional memory responses were also expressed, suggesting diversification of function among stress memory genes. Some dehydration stress memory genes were also shared with other stress and hormone responding pathways, indicating complex and dynamic interactions between different plant signaling networks. The results provide new insight into how plants respond to multiple dehydration stresses and provide a platform for studies of the functions of memory genes in adaptive responses to water deficit in monocot and eudicot plants . For each condition (water, S1, and S3) the transcriptome was sequenced for two replicates. The watered condition is considered the control.
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