Ontology highlight
ABSTRACT:
PROVIDER: PRJNA824660 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR18682805_1.fastq.gz | Fastqsanger.gz | |||
| SRR18682805_2.fastq.gz | Fastqsanger.gz | |||
| SRR18682806_1.fastq.gz | Fastqsanger.gz | |||
| SRR18682806_2.fastq.gz | Fastqsanger.gz | |||
| SRR18682807_1.fastq.gz | Fastqsanger.gz |
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Project description:This work aimed to characterize the molecular adaptations occurring in cork oak (Quercus suber) stems in adaptation to drought, and identify key genetic pathways regulating phellem development. One-year-old cork oak plants were grown for additional 6 months under well-watered (WW) or water-deficit (WD) conditions and main stems were targeted for transcriptomic analysis. WD had a negative impact on secondary growth, decreasing the activity of the vascular cambium and phellogen. Following a tissue-specific approach, we analyzed the transcriptional changes imposed by WD in phellem (outer bark), inner bark, and xylem, and found a global downregulation of genes related to cell division, cell wall biogenesis, lignin and/or suberin biosynthesis. Phellem and phloem showed a concerted upregulation of photosynthesis-related genes, suggesting a determinant role of stem photosynthesis in the adaptation of young plants to long-term drought. The data gathered will be important to further harness the diverse genetic background of this species for the development of optimized management practices.
2024-04-29 | E-MTAB-13376 | biostudies-arrayexpress
Project description:Phytophthora cinnamomi Rands is a cosmopolite and phyllophagous pathogen of woody plants which during the last couple of centuries has spread all over the world from its center of origin in Southeast Asia. Despite Chinese cork tree (Quercus variabilis Blume) forests native to Asia being generally healthy, the populations of cork trees (Quercus suber L.) in Europe have been decimated by P. cinnamomi. The present study tries to identify the differences in the early proteomic and metabolomic response of these two tree species that lead to their contrasting susceptibility to P. cinnamomi attack. By using micropropagated clonal plants, we tried to minimize the plant-to-plant differences in the defense response that is maximized by the high intraspecific genetic variability inherent to the Quercus genus. The evolution on the content of Phytophthora proteins in the roots during the first 36 hours after inoculation suggest a slower infection process in Q. variabilis plants. These plants displayed a significant decrease in sugars in the roots, together with a downregulation of proteins related to carbon metabolism. In the leaves, the biggest changes in proteomic profiling were observed 16 hours after inoculation. and included increased abundance of peroxidases, superoxidedismutases and gluthatione S-transferases in Q. variabilis plants, which probably aided its resistance against P. cinnamomi attack.
2022-08-02 | PXD033162 | Pride
Project description:Analysis of the Quercus cerris x suber transcriptome during cork formation and production
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Project description:The phellogen or cork cambium is a bifacial stem cell population from which derivatives are formed by periclinal divisions and specified on opposing sides as phelloderm (inwardly) and phellem or cork (outwardly). Altogether the three layers constitute the periderm which covers and protects the radially-grown organs (stems, roots and tubers) and wounded tissues from dehydration and pathogen attack. The phellem is the final responsible of the protective function of periderm and despite its vital importance, just the suberin biosynthetic process has been studied molecularly while other processes are poorly understood. To shed some light on the phellem cell development from its formation to its final maturation, we used the innercork living material of cork planks extracted from cork oak (Quercus suber) in which we analysed the transcriptome at three time-points: at the beginning (April), maximum (June) and final (July) cork seasonal growth. Since cork presents seasonal growth and the process from phellogen derivative proliferation and specification to phellem cells is continuous, the time-course cork samples were used to approach the phellem cell formation and development. The June enrichment of phellem cells undergoing suberization was confirmed transcriptionally, observing highest expression of suberin-related genes in this month, thus validating our strategy. To highlight the major molecular processes embracing from phellogen to mature phellem cell, the differentially expressed genes between time-points were clustered based on their expression pattern. April transcriptome upregulates the processes involved in the meristem proliferation and maintenance and the triggering of cell differentiation, in agreement with the enrichment of phellogenic cells from which phellem cells are specified. The processes upregulated in Juny and July cork samples, were secondary metabolic processes compatible with the biosynthesis of secondary metabolites deposited within phellem cell wall such as suberin, lignin, extractives including fatty aciyl-derived compounds and triterpenes and also soluble aromatic compounds. The processes with a maximum in July showed upregulation of polyssacharides- and lignin-related processes compatible with a reinforcement of the cork cell wall, presumably related with the latecork formation with smaller and thickened-cells at the end of the growing season. For the above mentioned processes, we discuss the putative function of the most relevant genes in the context of phellem ontogeny. This work provides the most important molecular mechanisms during phellem cell development and provide relevant data for the understanding of the seasonal growth of cork, a material of important circular economic value.
2021-06-16 | GSE155544 | GEO
Project description:Quercus ilex, Quercus suber, Quercus ilex x suber Raw sequence reads RADS
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