ArticlePlant physiology2012
Integration of bioinformatics and synthetic promoters leads to the discovery of novel elicitor-responsive cis-regulatory sequences in Arabidopsis.
Article in Plant physiology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed, 60 citations in OpenAlex.
- Synthetic Biology of Plants and Microbes for Agriculture, Environment, and Future Applications.Chemical reviews · 2026Review
- Web-Based Discovery of Regulatory Motifs in Non-model Plants.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Expression of a modified Avr3a gene under the control of a synthetic pathogen-inducible promoter leads to Phytophthora infestans resistance in potato.Plant biotechnology journal · 2025Article
- Differential gene expression during floral transition in pineapple.Plant direct · 2023Article
- Article
- Genomic distribution and context dependent functionality of novel WRKY transcription factor binding sites.BMC genomics · 2022Article
- Biological and Molecular Components for Genetically Engineering Biosensors in Plants.Biodesign research · 2022Article
- Rational design and testing of abiotic stress-inducible synthetic promoters from poplar cis-regulatory elements.Plant biotechnology journal · 2021Article
- Genome-Wide Identification, Diversification, and Expression Analysis of Lectin Receptor-Like Kinase (LecRLK) Gene Family in Cucumber under Biotic Stress.International journal of molecular sciences · 2021Article
- Tuning promoter boundaries improves regulatory motif discovery in nonmodel plants: the peach example.Plant physiology · 2021Article
- Sweet Basil Has Distinct Synthases for Eugenol Biosynthesis in Glandular Trichomes and Roots with Different Regulatory Mechanisms.International journal of molecular sciences · 2021Article
- Unusual DNA-binding properties of the Arabidopsis thaliana WRKY50 transcription factor at target gene promoters.Plant cell reports · 2021Article
- An update and perspectives on the use of promoters in plant genetic engineering.Journal of biosciences · 2020Review
- A strong NF-κB p65 responsive cis-regulatory sequence from Arabidopsis thaliana interacts with WRKY40.Plant cell reports · 2019Article
- A Fruitful Decade Using Synthetic Promoters in the Improvement of Transgenic Plants.Frontiers in plant science · 2019Review
- Transcription factors involved in basal immunity in mammals and plants interact with the same MAMP-responsive cis-sequence from Arabidopsis thaliana.Plant molecular biology · 2018Article
- Spearmint R2R3-MYB transcription factor MsMYB negatively regulates monoterpene production and suppresses the expression of geranyl diphosphate synthase large subunit (MsGPPS.LSU).Plant biotechnology journal · 2017Article
- Synthetic Botany.Cold Spring Harbor perspectives in biology · 2017Review
- Combinatorial requirement of W- and WT-boxes in microbe-associated molecular pattern-responsive synthetic promoters.Plant cell reports · 2017Article
- A cis-regulatory sequence from a short intergenic region gives rise to a strong microbe-associated molecular pattern-responsive synthetic promoter.Molecular genetics and genomics : MGG · 2016Article
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Authors and funding
8 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A combination of bioinformatic tools, high-throughput gene expression profiles, and the use of synthetic promoters is a powerful approach to discover and evaluate novel cis-sequences in response to specific stimuli. With Arabidopsis (Arabidopsis thaliana) microarray data annotated to the PathoPlant database, 732 different queries with a focus on fungal and oomycete pathogens were performed, leading to 510 up-regulated gene groups. Using the binding site estimation suite of tools, BEST, 407 conserved sequence motifs were identified in promoter regions of these coregulated gene sets. Motif similarities were determined with STAMP, classifying the 407 sequence motifs into 37 families. A comparative analysis of these 37 families with the AthaMap, PLACE, and AGRIS databases revealed similarities to known cis-elements but also led to the discovery of cis-sequences not yet implicated in pathogen response. Using a parsley (Petroselinum crispum) protoplast system and a modified reporter gene vector with an internal transformation control, 25 elicitor-responsive cis-sequences from 10 different motif families were identified. Many of the elicitor-responsive cis-sequences also drive reporter gene expression in an Agrobacterium tumefaciens infection assay in Nicotiana benthamiana. This work significantly increases the number of known elicitor-responsive cis-sequences and demonstrates the successful integration of a diverse set of bioinformatic resources combined with synthetic promoter analysis for data mining and functional screening in plant-pathogen interaction.
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