Similar Datasets
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:This RNA-seq experiment captures expression data from challenged and mock-inoculated apple flowers (Malus domestica Golden Delicious) to assess the susceptible response of the primary infection court (48h) of apple by the fire blight pathogen Erwinia amylovora (CFBP 1430).
2016-01-18 | E-MTAB-4110 | 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 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:Winter dormancy is an adaptative mechanism that temperate and boreal trees have developed to protect their meristems against low temperatures. In apple trees (Malus domestica), cold temperatures induce bud dormancy at the end of summer/beginning of the fall. Apple buds stay dormant during winter until they are exposed to a period of cold, after which they can resume growth (budbreak) and initiate flowering in response to warm temperatures in spring. It is well-known that small RNAs modulate temperature responses in many plant species, but however, how small RNAs are involved in genetic networks of temperature-mediated dormancy control in fruit tree species remains unclear. Here, we have made use of a recently developed ARGONAUTE (AGO)-purification technique to isolate small RNAs from apple buds. A small RNA-seq experiment resulted in the identification of small RNAs that change their pattern of expression in apple buds during dormancy.
2021-11-30 | GSE189658 | GEO
Project description:we performed RNA-seq and pathways analysis on human preadipocytes isolated from abdominal (A) and gluteofemoral (GF) fat of 10 apple-shaped women and 7 pear-shaped women . Out of the 23,511 annotated transcripts, 636 and 752 genes were differentially expressed in apple- compared to pear-shaped cells in A-FAT and GF-FAT respectively. Interestingly, one of the most significantly over-represented pathways from the apple-specific gene list was “Nucleotide Excision Repair pathway”.
2021-08-19 | GSE176603 | GEO
Project description:Our data showed that lipid and glucose metabolic pathways genes were expressed at higher levels in gluteofemoral adipocyte fraction in pears, while genes associated with inflammation were higher in both abdominal and gluteofemoral apple adipocyte fraction. Gluteofemoral adipocyte chromatin from pear-shaped women contained a significantly higher number of differentially open ATAC-seq peaks relative to chromatin from the apple-shaped gluteofemoral adipocytes. In contrast, abdominal adipocyte chromatin openness showed few differences between apple and pear-shaped women. We revealed a correlation between gene transcription and open chromatin at the proximity of the TSS of some of the differentially expressed genes.
2020-06-08 | GSE143449 | GEO
Project description:miRNAs are key players in multiple biological processes, therefore analysis and characterization of these small regulatory RNAs is a critical step towards better understanding of animal and plant biology. In apple (Malus domestica) two hundred microRNAs are known, which most probably represents only a fraction of miRNAome diversity. As a result, more effort is required to better annotate miRNAs and their functions in this economically important species. We performed deep sequencing of twelve small RNA libraries obtained for fire blight resistant and fire blight sensitive trees. In the sequencing results we identified 116 novel microRNAs and confirmed a majority of previously reported apple miRNAs. We then experimentally verified selected candidates with RT-PCR and stem-loop qPCR and performed differential expression analysis. Finally, we identified and characterized putative targets of all known apple miRNAs. In this study we considerably expand the apple miRNAome by identifying and characterizing dozens of novel microRNAs. Moreover, our data suggests that apple microRNAs might be considered as regulators and markers of fire blight resistance.
2015-01-09 | GSE59482 | GEO
Project description:Fire blight (FB) is a bacterial disease affecting plants from Rosaceae family, including apple and pear. FB develops after the infection of Erwinia amylovora, gram-negative enterobacterium, and results in burnt-like damages and wilting, which can affect all organs of the plant. Although the mechanisms underlying disease response in apples are not elucidated yet, it has been well described that FB resistance depends on the rootstock type. The main objective of this work was to identify miRNAs involved in response to bacterial infection in order to better explain apple defense mechanisms against fire blight disease. We performed deep sequencing of eighteen small RNA libraries obtained from inoculated and non-inoculated Gala apple leaves. 233 novel plant mature miRNAs were identified together with their targets and potential role in response to bacterial infection. We identify three apple miRNAs responding to inoculation (mdm-miR168a,b, mdm-miR194C and mdm-miR1392C) as well as miRNAs reacting to bacterial infection in a rootstock-specific manner (miR395 family). Our results provide insights into the mechanisms of fire blight resistance in apple.
2016-08-28 | GSE72346 | GEO