High-throughput time series expression profiling of Plasmopara halstedii infecting Helianthus annuus reveals conserved sequence motifs upstream of co-expressed genes.
Computational biology
Downy mildew
Gene expression
Obligate biotrophs
Oomycetes
Promotors
Transcriptional regulation
Journal
BMC genomics
ISSN: 1471-2164
Titre abrégé: BMC Genomics
Pays: England
ID NLM: 100965258
Informations de publication
Date de publication:
21 Mar 2023
21 Mar 2023
Historique:
received:
12
11
2021
accepted:
27
02
2023
entrez:
22
3
2023
pubmed:
23
3
2023
medline:
24
3
2023
Statut:
epublish
Résumé
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 potential functional and regulatory motifs upstream of co-expressed genes, time-series derived gene expression profiles were clustered based on their time-course similarity, and their upstream regulatory gene sequences were analyzed here. Several conserved motifs were found upstream of co-expressed genes, which might be involved in binding specific transcription factors. Such motifs were also found associated with virulence related genes, and could be studied on a genetically tractable model to clarify, if these are involved in regulating different stages of pathogenesis.
Identifiants
pubmed: 36944935
doi: 10.1186/s12864-023-09214-7
pii: 10.1186/s12864-023-09214-7
pmc: PMC10031896
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
140Informations de copyright
© 2023. The Author(s).
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