High-throughput time series expression profiling of Plasmopara halstedii infecting Helianthus annuus reveals conserved promoter sequence motifs in co-expressed genes

Downy mildew disease of sunflower, caused by the obligate biotrophic oomycete Plasmopara halstedii, can have significant economic impact on sunflower cultivation. Using high-throughput whole transcriptome sequencing, four developmental phases in 16 time-points of Pl. halstedii infecting Helianthus annuus, were investigated. With the aim of identifying motifs that might be involved in transcriptional regulation of co-expressed genes, time-series derived gene expression profiles were clustered based on their time-course, and their upstream regulatory gene sequences were analyzed here. Several conserved motifs were found in promoters of co-expressed genes, which might be involved in binding specific transcription factors. Such motifs were also found in virulence related genes, but future studies on a genetically tractable model are needed to clarify, if these promoter regions are involved in regulating different stages of pathogenesis.

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Data and Resources

Additional Info

Field Value
Taxonomic coverage
Species Plasmopara halstedii
Genus Plasmopara
Family Peronosporaceae
Order Peronosporales
Division/ Phylum Oomycota
Kingdom Chromista
General taxonomic description Kingdom: Chromista, Phylum: Oomycota, Order: Peronosporales, Family: Peronosporaceae, Genus: Plasmopara, Species: Plasmopara halstedii
Other info
Last Updated December 5, 2024, 10:43 AM (UTC+00:00)
Created February 2, 2023, 10:13 AM (UTC+00:00)

Responsible parties

Creator and point of contact
Name Sakshi Bharti

Creator
Name Marco Thines

Creator
Name Sebastian Ploch

Associated publications

Publication
Link https://doi.org/10.1007/s11557-023-01911-7
Publication
Link https://doi.org/10.1186/s12864-023-09214-7

Research data management planning

Types of data that will be / are / were created during the project Models, code , Molecular Sequence Data
Estimated volume of created data Cannot estimate
Data will be stored at (long-term archived) https://www.ebi.ac.uk/ena/browser/home

Link to this dataset:

https://dataportal.senckenberg.de/dataset/d0d9ad58-1883-4c03-b549-96eb20a659d5