EaAstIrre1
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ABSTRACT:
PROVIDER: PRJEB73498 | ENA |
REPOSITORIES: ENA
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Project description:Astropecten irregularis (sand star) genome assembly, eaAstIrre1, alternate haplotype
| PRJEB73499 | ENA
Project description:Astropecten irregularis (sand star), genomic and transcriptomic data
| PRJEB64717 | ENA
Project description:This work describes the molecular mechanisms of meiotic maturation and cell cycle in the starfish Astropecten Aranciacus. The study has been conducted assembling a de-novo transcriptome from the different cellular stages: oocytes, egg, zygote and early embryos. Differential expression analysis followed by rtPCR are used to assess the validity of the assembly.
2017-08-22 | E-MTAB-5679 | biostudies-arrayexpress
Project description:Purpose: The recent publication of the fungal mutualist R. irregularis genome facilitated transcriptomic studies. We here wanted to understand the large host range of this fungus, throught its gene regulation in divergent plants Methods: mRNA from Medicago truncatula (legume), Brachypodium distachyon (grass) and Lunularia cruciata (liverwort) in association with R. irregularis were sequenced. Reads were mapped on the genome assembly with the software CLC workbench. Fungal gene expression in the different plants was compared to extra radical hyphae as a control. Results: 529, 486 and 523 R. irregularis gene were highly overexpressed (fold change >5 ; FDR <0,05 and experimental value > l10l) in M. truncatula, B. distachyon and L. cruciata, respectively. Among those genes, 262 were induced in all hosts. qPCR validation on 32 genes supported these results in an extended set of hosts (Zea mays spp parviglumis, Pisum sativum, Marchantia paleacea).
2017-09-29 | GSE67926 | GEO
Project description:Purpose: The recent publication of the fungal mutualist R. irregularis genome facilitated transcriptomic studies. We here adress the gene regulation of R. irregularis in response to root exudates from rice wild-type and osnope1 (no perception candidate - mutant unable to host arbuscular mycorrhizal fungi) Methods: Spores of R. irregularis were treated with root exudates and collected at 1 hour, 24 hours and 7 days after addition. To monitor fungal gene regulation, control conditions were also prepared at T0, 1h, 24h and 7d. mRNA were sequenced by HiSeq Illumina. Reads were mapped on the Rhizophagus irregularis genome assembly (Gloin1 - Tisserant et al., PNAS, 2013) using CLCworkbench suite. Results: -At 1h, a set of 92 fungal genes were found up-regulated in response to wt root exudates (92), not to osnope1 root exudates, many of them being involved in cell signaling. -At 24h and 7d, numerous genes putatively involved in primary metabolism were up-regulated in response to wt root exudates, not in response to osnope1 root exudates -Several vital genes involved in cell development are repressed in response to osnope1 RE compared to wt RE. Conclusions: these results argue for a high metabolic activity induced by wt root exudates, not by osnope1 root exudates.
2017-02-04 | GSE65595 | GEO
Project description:Arbuscular mycorrhizal (AM) fungi form mutualistic relationships with most land plant species. AM fungi have long been considered as ancient asexuals. Long-term clonal evolution would be remarkable for a eukaryotic lineage and suggests the importance of alternative mechanisms to promote genetic variability facilitating adaptation. Here, we assessed the potential of transposable elements (TEs) for generating genomic diversity. The dynamic expression of TEs during Rhizophagus irregularis spore development suggests ongoing TE activity. We find Mutator-like elements located near genes belonging to highly expanded gene families. Characterising the epigenomic status of R. irregularis provides evidence of DNA methylation and small RNA production occurring at TE loci. Our results support a potential role for TEs in shaping the genome, and roles for DNA methylation and small RNA-mediated silencing in regulating TEs. A well-controlled balance between TE activity and repression may therefore contribute to genome evolution in AM fungi.
2022-02-17 | PXD025245 | Pride
Project description:Arbuscular mycorrhizal symbiosis is a predominant relationship between plant and arbuscular mycorrhizal fungi. To idendify arbuscular mycorrhiza responsive miRNAs, small RNA libraries were constructed in tomato roots colonized with Rhizophagus irregularis and without Rhizophagus irregularis. We identify miRNAs in tomato roots and provide a new profile of tomato miRNAs. And we found that some miRNAs were responsive to arbuscular mycorrhiza by comparing miRNAs in treatment with that in control. Examination of arbuscular mycorrhiza responsive miRNAs in tomato through high-throughput small RNA sequencing of roots with Rhizophagus irregularis and that without Rhizophagus irregularis
2016-07-20 | E-GEOD-76204 | biostudies-arrayexpress
Project description:We report polyA+ mRNA profiles in a developmental assay where R. irregularis spores were exposed to either medium containing rice root-derived exudates or a mock nutrient medium. We report small RNA repertoires produced from R. irregularis spores using two different isolation techniques. We report the application of single-molecule-based DNA sequencing for profiling of CG methylation in untreated R. irregularis. spores.
2021-09-16 | GSE172187 | GEO