Effect of MpMET loss of function on gene and TE expression in Marchantia polymorpha
Ontology highlight
ABSTRACT:
ORGANISM(S): Marchantia polymorpha
PROVIDER: GSE234509 | GEO | 2023/09/21
REPOSITORIES: GEO
Similar Datasets
Project description:To evaluate role of PRC2 on transcriptional regulation in bryophytes, we generated loss of function mutants of a Ez homolog in Marchantia polymorpha by CRISPR/Cas9 based mutagenesis. To avoid lethality of PRC2 knockout, we first mutate MpKNOX2 gene then additionally knocked MpEz1 out. Then we performed comparative transcriptome analyses using data obtained from Mpknox2 ez1 and Mpknox2.
2023-09-21 | GSE221631 | GEO
Project description:JAZ genes are negative regulators of jasmonate responses with a dual function as repressors of transcription factors and co-receptors, together with COI1, of the hormone jasmonoyl-isoleucine (JA-Ile). This family has been mainly studied in angiosperms, where high gene redundancy hinders the characterization of a complete depletion of JAZ function. Moreover, the recent discovery that JA-Ile is not the sole COI1/JAZ ligand in land plants, as dn-OPDA is the bioactive ligand in Marchantia polymorpha, underscores the importance of studying JAZ co-receptors in bryophytes. Here we exploited the low gene redundancy of the liverwort Marchantia polymorpha to characterize the function of the single MpJAZ in this early-divergent plant lineage. We demonstrate that MpJAZ is the ortholog of AtJAZ and acts as a repressor of dinor-OPDA responses in Marchantia. Mpjaz mutants show a dwarf phenotype and severe developmental defects related to growth inhibition, consistent with a constitutive activation of the dinor-OPDA pathway and the overaccumulation of both dinor-OPDA and its precursor OPDA. The expression of AtJAZ3 in Mpjaz complements MpJAZ repressor function, indicating that JAZ function is conserved across land plants. However, AtJAZ3 is unable to form co-receptor complexes with MpCOI1 and dn-OPDA, which evidences that the Jas domain, and not only COI1, determines ligand specificity.
2018-11-10 | GSE118149 | GEO
Project description:The lipid-derived phytohormone jasmonoyl-isoleucine (JA-Ile) regulates plant immunity, growth and development in vascular plants by activating genome-wide transcriptional reprogramming. In Arabidopsis, this is largely orchestrated by the master regulator MYC2 and related transcription factors (TFs). However, the TFs activating this pathway in basal plant lineages are currently unknown. We report the functional conservation of MYC-related TFs between the eudicot Arabidopsis thaliana and the liverwort Marchantia polymorpha, a plant belonging to one of the most basal land-plants lineages. Phylogenetic analysis suggests that MYC function first appeared in charophycean algae, and therefore predates the evolutionary appearance of any other jasmonate pathway component. Marchantia possesses two functionally interchangeable MYC genes, one in females and one in males. Similar to AtMYC2, MpMYCs showed nuclear localization, interaction with JAZ-repressors, and regulation by light. Phenotypic and molecular characterization of loss- or gain-of-function mutants demonstrated that MpMYCs are necessary and sufficient for the activation of the pathway in Marchantia, but unlike their Arabidopsis orthologs, do not regulate fertility. Our results show that despite 450 million years of independent evolution, MYCs are functionally conserved between bryophytes and eudicots. Genetic conservation in one of the most basal lineages suggests that MYC function existed in the common ancestor of land plants and evolved from a pre-existing MYC function in charophycean algae.
2019-03-19 | GSE124159 | GEO
Project description:WGBS of 169 ddm1-derived epiHybrids and their corresponding maternal msCol lines A large number of epiHybrids families (169 epiHybrids) were generated by crossing a male sterile maternal plant of the Columbia accession (msCol) to different paternal ddm1-2 derived epiRILs (Johannes et al., 2009)
2024-01-26 | GSE211715 | GEO
Project description:VSMCs expressing SCA1 have increased proliferative capacity (Dobnikar et al, 2018; Worssam et al, 2022; Pan et al, 2020). We therefore, mapped chromatin accessibility changes using bulk ATAC-seq for SCA1+ and SCA1- lineage traced VSMCs.
2024-04-09 | GSE246646 | GEO
Project description:In plants, jasmonate signalling regulates a wide range of processes from growth and develop-ment to defence responses and thermotolerance. Bioactive jasmonates, such as JA, JA-Ile, OPDA and dn-OPDA, are derived from C18- and C16- fatty acids (FAs), which are found ubiquitously in the plant kingdom. Bryophytes also contain long chain C20- and C22- FAs (LCFAs), which are absent in most vascular plants but are found in organisms of other king-doms, including mammals. The existence of bioactive jasmonates derived from LCFAs is cur-rently unknown. Here, we describe the identification of an OPDA-like molecule derived from a C20-FA in Marchantia polymorpha, which we term C20-OPDA. This molecule accumulates upon wounding, and when applied exogenously can activate known COI1-dependent and -independent jasmonate responses. Furthermore, we identify a dn-OPDA-like molecule (Δ4-dn-OPDA) deriving from C20-OPDA and demonstrate it to be a ligand of the jasmonate co-receptor (MpCOI1-MpJAZ) in Marchantia. By analysing mutants involved in the production of LCFAs, we elucidate the major biosynthetic pathway of C20-OPDA and Δ4-dn-OPDA. Moreover, using a double mutant compromised in the production of both Δ4-dn-OPDA and dn-OPDA, we demonstrate the additive nature of these molecules in the activation of jasmonate responses. Taken together, our data identify LCFAs as a source of bioactive jasmonates that are essential to plant plasticity and resilience.
2022-05-17 | GSE195838 | GEO
Project description:Additional data for study Bischerour et al. 2018
| PRJEB79659 | ENA
Project description:Adult neural stem cells (aNSCs) show multilineage differentiation potential influenced by intrinsic and extrinsic signaling cues. We and others have shown that stimulation of aNSCs with bone marrow mesenchymal stem cell (MSC) secreted factors substantially enhances in vitro oligodendrogenesis at an expense of astrogenesis by yet unknown mechanisms (Rivera et al. 2006, Jadasz et al. 2013; 2018, Rivera et al., 2019). In the present study, we demonstrate that aNSCs pre-treated with MSC secretomes for different periods in vitro preferentially differentiate to oligodendrocytic cells in vivo after transplantation into the adult rat spinal cord. Analysis of different time points after transplantation revealed a stable survival rate of transplanted aNSCs and an emphasized pro-oligodendroglial differentiation in response to MSC secreted factors. MSC derived secretomes were then analyzed by mass spectrometry-based proteomics and label-free quantification to identify secreted proteins contributing to oligodendroglial lineage fate determination. To exclude possible contaminants derived from dead cells or serum, our approach includes a comparison of the abundances of proteins present in MSC derived secretomes with corresponding proteins in cell lysates (Grube et al., 2018, Schira-Heinen et al., 2019).
2020-06-18 | PXD018231 | Pride
Project description:• Marchantia polymorpha is a model liverwort and its overall low genetic redundancy is advantageous for dissecting complex pathways. Proximity-dependent in vivo biotin-labelling methods have emerged as powerful interactomics tools in recent years. However, interactomics studies applying proximity labelling are currently limited to angiosperm species in plants. • Here, we established and evaluated a miniTurbo-based interactomics method in M. polymorpha using MpSYP12A and MpSYP13B, two plasma membrane-localized SNARE proteins, as baits. • We show that our method yields a manifold of potential interactors of MpSYP12A and MpSYP13B compared to a co-immunoprecipitation approach. Our method could capture specific candidates for each SNARE. • We conclude that a miniTurbo-based method is a feasible tool for interactomics in M. polymorpha, potentially applicable to other model bryophytes. Our interactome dataset on MpSYP12A and MpSYP13B will be a useful resource to elucidate the evolution of SNARE functions.
2022-04-01 | PXD030429 | Pride
Project description:In plants, jasmonate signalling regulates a wide range of processes from growth and develop-ment to defence responses and thermotolerance. Bioactive jasmonates, such as JA, JA-Ile, OPDA and dn-OPDA, are derived from C18- and C16- fatty acids (FAs), which are found ubiquitously in the plant kingdom. Bryophytes also contain long chain C20- and C22- FAs (LCFAs), which are absent in most vascular plants but are found in organisms of other king-doms, including mammals. The existence of bioactive jasmonates derived from LCFAs is cur-rently unknown. Here, we describe the identification of an OPDA-like molecule derived from a C20-FA in Marchantia polymorpha, which we term C20-OPDA. This molecule accumulates upon wounding, and when applied exogenously can activate known COI1-dependent and -independent jasmonate responses. Furthermore, we identify a dn-OPDA-like molecule (Δ4-dn-OPDA) deriving from C20-OPDA and demonstrate it to be a ligand of the jasmonate co-receptor (MpCOI1-MpJAZ) in Marchantia. By analysing mutants involved in the production of LCFAs, we elucidate the major biosynthetic pathway of C20-OPDA and Δ4-dn-OPDA. Moreover, using a double mutant compromised in the production of both Δ4-dn-OPDA and dn-OPDA, we demonstrate the additive nature of these molecules in the activation of jasmonate responses. Taken together, our data identify LCFAs as a source of bioactive jasmonates that are essential to plant plasticity and resilience.
2022-05-17 | GSE195837 | GEO