Prunus
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA489327 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR10569000_1.fastq.gz | Fastqsanger.gz | |||
| SRR10569000_2.fastq.gz | Fastqsanger.gz | |||
| SRR10569001_1.fastq.gz | Fastqsanger.gz | |||
| SRR10569001_2.fastq.gz | Fastqsanger.gz | |||
| SRR10569002_1.fastq.gz | Fastqsanger.gz |
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Project description:Prunus rootstocks and mapping population. GBS raw sequence reads
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Project description:Purpose: The State of Rio Grande do Sul is the largest producer of peaches from Brazil. However, it still has low values of productivity when compared to other States. One of the problems associated to it this is the occurrence of drainage soils problems, which can suffer flooding situations potentially hampering the development and productivity such culture. For studies to assist in the selection of flood tolerant genotypes, it is essential to understand the physiological and molecular changes of the plants in situations of oxygen deprivation. Using Illumina Hiseq2500 we performed transcriptome analysis of leaves from ‘Capdeboscq’ (Prunus persica) and ‘Julior’ (Prunus insititia x Prunus domestica) rootstocks under flooding for 48 hours. Methods: The mRNA of Prunus spp. plants cv. Capdeboscq e Julior was generated using deep sequencing, in triplicate, using Illumina Hi-Seq 2500, for the following treatments:I) control: plants received irrigation daily until field capacity; and II) plants exposed to flood stress, maintaining a water level of approximately 3 cm above the ground. The sequence reads that passed quality filters were analyzed at the transcript level using this method: Mapping using STAR and identification of differentially expressed genes (DEGs) was performed with the edgeR (false discovery rates - FDRs of <0.05). RT–qPCR validation was performed using SYBR Green assays. Results: Flooding stress causes important high transcriptional changes in the ‘Capdeboscq’ compared to 'Julior' and this is mainly due to their sensitivity/tolerance levels. ‘Capdeboscq’ had photosynthesis as the most affected physiological process at the molecular level, showing a large number of down-regulated enriched GOs, even though it activated cellular signaling pathways under flooding. 'Julior' was more efficient in defense responses, which include the activation of flavonoid biosynthesis pathways. Conclusions: The analysis of two Prunus spp. rootstocks contrasting to the level of tolerance / sensitivity provide new insights into the process of plant flood stress tolerance.
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Project description:Prunus subgenus Ceresus is a renowned ornamental wooden plant for its landscape applications and economic value in gardens. However, waterlogging during the rainy season in some areas cause deaths and heavy losses. Fortunately, we have found that a variety of Prunus subgenus Ceresus × Incisa 'Gotenba zakura' could generate aerial roots when suffering from heavy rains and sustainable floods. In this study, we conducted an associated analysis to explore the core regulating network of aerial root growth mechanism in Prunus subgenus Ceresus × Incisa 'Gotenba zakura' by combining phenological observations, physiological assays, and transcriptome comparisons across five separate stages. By analyzing the heatmap of DEGs and gene co-expression network (GCN), we have recognized genes that may play very critical roles under waterlogging stress. Gene network indicates that aerial roots can improve the tolerance under waterlogging by ROS degradation, endogenous hormone induction, as well as energy production. This discover provides a valid foundation of waterlogging tolerance of Prunus subgenus Ceresus, and molecular evidence for selecting promising rootstocks.
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