Apple orchard microbiomes
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB32801 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Closed terminal buds of apple trees (Malus x domestica Borkh, Royal Gala and Castel Gala varieties) grown in commercial orchards were harvested during autumn and winter and exposed to cold treatments
2015-04-06 | GSE64717 | GEO
Project description:Based on sensorial analysis over 4 years, 6 apple genotypes with contrasted fruit texture (mealy or not) were selected among a progeny. Apple samples were collected at 100 days after flowering (100 DAF), harvest (H), after 2 and 4 months of cold storage (60DAH and 120DAH respectively). 6 apple hybrids were analysed in dye-switch. Biological replicates are fruits from 2 to 4 different harvest years. Each mealy hybrid was compared to a non-mealy hybrid from the same harvest year in 12 dye-swap 3 pairs at 4 four time points).
2015-06-25 | E-GEOD-59947 | biostudies-arrayexpress
Project description:Based on sensorial analysis over 4 years, 6 apple genotypes with contrasted fruit texture (mealy or not) were selected among a progeny. Apple samples were collected at 100 days after flowering (100 DAF), harvest (H), after 2 and 4 months of cold storage (60DAH and 120DAH respectively).
2015-06-25 | GSE59947 | GEO
Project description:Closed terminal buds of apple trees (Malus x domestica Borkh, Royal Gala and Castel Gala varieties) grown in commercial orchards were harvested during autumn and winter and exposed to cold treatments 18 biological samples, consisting of 9 pairs of replicates, were analysed in dye-swap. Samples are whole closed terminal buds. Biological replicates are buds from 2 different harvest year subjected to similar cold treatments. Samples with contrasting dormancy status in the same harvest year were compared in 8 dye-swap. Most samples were hybridized more than once in different combinations
2015-04-06 | E-GEOD-64717 | biostudies-arrayexpress
Project description:Root and leave samples of 4 different apple genotypes were investigated in order to analyse the gene expression after infection with Apple Replant Disease (ARD). All genotypes were cultivated in ARD-infected soil and gamma-irradiated (disinfected) soil in the greenhouse for 7 days. The ARD soil originated from two different orchards representing two different soil compositions. After 7 days root tissue was collected from each plant and used for the subsequent gene expression analysis. This work was part of the project BonaRes-ORDIAmur funded by the German Federal Ministry of Research and Education within the frame of the program BonaRes (grant no. 031B0025B). It was also funded by the German Research Foundation (DFG) via the research training group GRK1798 "Signaling at the Plant-Soil Interface" and a grant to BL and LB (BE 1174/19-1).
2019-12-09 | GSE135081 | GEO
Project description:in order to understand the role of phloems of apple dwarfing rootstocks,and investigated the expression differences of dwarfing and vigorous apple stocks in the phloem tissue at active growing stage. The phloem tissue at active growing stage(60 DABB(days after buds break) of three apple dwarfing rootstocks including M9,B9,A1d（a partial GA insensitive mutant of Malus hupensis）and two vigorous apple rootstock PYTC ( WT of Malus hupensis) and M. sylvestris were sampled and underwent RNA-Seq analysis.
2024-10-24 | GSE253335 | GEO
Project description:Russeting is a commercially important defect in apple (Malus x domestica) fruit production. Apple russeting is mainly characterized by the accumulation of suberin on the inner part of the cell wall. However, knowledge on the underlying genetic components triggering this trait remains sketchy. A bulk transcriptomic profiling was performed on the exocarps of three russeted and three waxy apple varieties using RNA sequencing. This experimental design was chosen to lower the specificities of each genotype. A qPCR validation was carried out on representative genes and additional contrasting varieties. Gene ontology enrichment revealed a repression of the lignin and cuticle biosynthesis genes in the russeted exocarps, concomitantly with an enhanced expression of suberin deposition, stress responsive, primary sensing, NAC and MYB-family transcription factors, and specific triterpene biosynthetic genes. Notably, a strong correlation (R2=0.976) between the expression of a MYB93-like transcription factor and key suberin biosynthetic genes was found. Our results suggest that russeting is induced by a decreased expression of the cuticle layer biosynthetic genes, leading to a stress response which not only affects suberin deposition, but also the entire structure of the cell wall. In addition, the large number of candidate genes highlighted in this study provides a solid platform for further functional investigations. In order to draw a consistent picture of the gene expression profiles specific to both russeted and waxy apples and at the same time to highlight and interpret the mechanism leading to the russeted phenotype, a bulk RNA-sequencing was performed on the exocarp of a group of three distinct fully-russeted apple varieties ('Patte de loup', 'Reinette Parmentier', 'St Edmund's Pippin') and a second one including 3 fully waxy varieties ('Gala', 'CRAW/Ma/AF42', and 'CRAW/Ma/AG94').
2015-02-01 | E-GEOD-61040 | biostudies-arrayexpress
Project description:In order to understand the role of phloems of apple dwarfing rootstocks,and investigated the expression differences of dwarfing and vigorous apple stocks in the bud break stage, The phloem tissue at bud break stage(0 DABB(days after buds break) of three apple rootstocks including A1d（a partial GA insensitive mutant of Malus hupehensis ),WT Malus hupehensis and were QZ1(a hybrid of Malus hupensis and a Cylindrical apple variety) were sampled and underwent RNA-Seq analysis.
2024-10-24 | GSE276181 | GEO
Project description:Human volunteers (N=143; 98 females and 45 males; aged 18-45 years) consumed one litre of blueberry-apple juice per day for four weeks. Before and after the intervention blood was drawn and lymphocytes were isolated for subsequent RNA isolation. Each participant acted as his own control.
2014-02-01 | GSE41781 | GEO
Project description:Comparison of seed of two different types of developing fruits in apple: central and lateral. Our objective is to find transcriptomic signatures that allow to explain the physiological drop of young lateral fruitlets Apple seeds transcriptomes were generated by deep sequencing by triplicate from seeds collected from central and lateral fruitlets at 20 days after petal fall (DAPF)
2014-11-21 | E-GEOD-62415 | biostudies-arrayexpress