ArticlePLoS pathogens2013
Genome-wide prediction and functional validation of promoter motifs regulating gene expression in spore and infection stages of Phytophthora infestans.
Article in PLoS pathogens, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed, 35 citations in OpenAlex.
- Promoter Analysis and Dissection Using Reporter Genes, Comparative Genomics, and Gel Shift Assays in Phytophthora.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Specific Transcriptional Regulation Controls Plant Organ-Specific Infection by the Oomycete Pathogen Phytophthora sojae.Molecular plant pathology · 2024Article
- Transcription factor binding specificities of the oomycete Phytophthora infestans reflect conserved and divergent evolutionary patterns and predict function.BMC genomics · 2024Article
- A MYB-related transcription factor regulates effector gene expression in an oomycete pathogen.Molecular plant pathology · 2024Article
- High-throughput time series expression profiling of Plasmopara halstedii infecting Helianthus annuus reveals conserved sequence motifs upstream of co-expressed genes.BMC genomics · 2023Article
- Comparative genomics among cyst nematodes reveals distinct evolutionary histories among effector families and an irregular distribution of effector-associated promoter motifs.Molecular ecology · 2023Article
- RNA silencing proteins and small RNAs in oomycete plant pathogens and biocontrol agents.Frontiers in microbiology · 2023Article
- Identification of Cis-Regulatory Sequences Controlling Pollen-Specific Expression of Hydroxyproline-Rich Glycoprotein Genes inPlants (Basel, Switzerland) · 2020Article
- Sex chromosome evolution in parasitic nematodes of humans.Nature communications · 2020Article
- Promoter tools for further development ofFungal biology and biotechnology · 2020Article
- A High-Quality Grapevine Downy Mildew Genome Assembly Reveals Rapidly Evolving and Lineage-Specific Putative Host Adaptation Genes.Genome biology and evolution · 2019Article
- Ancestral Function and Diversification of a Horizontally Acquired Oomycete Carboxylic Acid Transporter.Molecular biology and evolution · 2018Article
- The MADS-box Transcription Factor PsMAD1 Is Involved in Zoosporogenesis and Pathogenesis ofFrontiers in microbiology · 2018Article
- Gene Expression and Silencing Studies in Phytophthora infestans Reveal Infection-Specific Nutrient Transporters and a Role for the Nitrate Reductase Pathway in Plant Pathogenesis.PLoS pathogens · 2016Article
- Genome analyses of the sunflower pathogen Plasmopara halstedii provide insights into effector evolution in downy mildews and Phytophthora.BMC genomics · 2015Article
- Article
- Identification of putative TAL effector targets of the citrus canker pathogens shows functional convergence underlying disease development and defense response.BMC genomics · 2014Article
- Patterns of genomic variation in the poplar rust fungus Melampsora larici-populina identify pathogenesis-related factors.Frontiers in plant science · 2014Article
- Phylogenetic and transcriptional analysis of an expanded bZIP transcription factor family in Phytophthora sojae.BMC genomics · 2013Article
- Phenotypic diversification by gene silencing in Phytophthora plant pathogens.Communicative & integrative biology · 2013Review
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Most eukaryotic pathogens have complex life cycles in which gene expression networks orchestrate the formation of cells specialized for dissemination or host colonization. In the oomycete Phytophthora infestans, the potato late blight pathogen, major shifts in mRNA profiles during developmental transitions were identified using microarrays. We used those data with search algorithms to discover about 100 motifs that are over-represented in promoters of genes up-regulated in hyphae, sporangia, sporangia undergoing zoosporogenesis, swimming zoospores, or germinated cysts forming appressoria (infection structures). Most of the putative stage-specific transcription factor binding sites (TFBSs) thus identified had features typical of TFBSs such as position or orientation bias, palindromy, and conservation in related species. Each of six motifs tested in P. infestans transformants using the GUS reporter gene conferred the expected stage-specific expression pattern, and several were shown to bind nuclear proteins in gel-shift assays. Motifs linked to the appressoria-forming stage, including a functionally validated TFBS, were over-represented in promoters of genes encoding effectors and other pathogenesis-related proteins. To understand how promoter and genome architecture influence expression, we also mapped transcription patterns to the P. infestans genome assembly. Adjacent genes were not typically induced in the same stage, including genes transcribed in opposite directions from small intergenic regions, but co-regulated gene pairs occurred more than expected by random chance. These data help illuminate the processes regulating development and pathogenesis, and will enable future attempts to purify the cognate transcription factors.
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