ArticleThe Plant cell2003
Regulatory elements of the floral homeotic gene AGAMOUS identified by phylogenetic footprinting and shadowing.
Article in The Plant cell, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 97 papers.
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Who cites it
97 citing papers in PubMed, 216 citations in OpenAlex.
- Genome-wide regulatory and interaction landscape underlying the functional divergence of rice AGAMOUS-like transcription factors.Journal of experimental botany · 2026Article
- Ribozyme-Enabled Tissue Specificity (RETS): A System for Precise Gene Expression without Specialized Promoters.ACS synthetic biology · 2026Article
- Elucidating design principles for Ribozyme-Enabled Tissue Specificity (RETS) to allow precise expression without specialized promoters.bioRxiv : the preprint server for biology · 2025Article
- Enhancers in Plant Development, Adaptation and Evolution.Plant & cell physiology · 2025Review
- The MADS-box gene XAANTAL1 participates in Arabidopsis thaliana primary root growth and columella stem cell patterns in response to ROS, via direct regulation of PEROXIDASE 28 and RETINOBLASTOMA-RELATED genes.Journal of experimental botany · 2025Article
- Genome-wide identification of the PI-PLC gene family inFrontiers in plant science · 2025Article
- Workflow to Select Functional Promoter DNA Baits and Screen Arrayed Gene Libraries in Yeast.Current protocols · 2024Article
- Biological function research of Fusarium oxysporum f. sp. cubense inducible banana long noncoding RNA Malnc2310 in Arabidopsis.Plant molecular biology · 2023Article
- Ectopic expression of AtNF-YA6-VP16 in petals results in a novel petal phenotype in Torenia fournieri.Planta · 2022Article
- Cis-regulatory sequences in plants: Their importance, discovery, and future challenges.The Plant cell · 2022Review
- iRegNet: an integrative Regulatory Network analysis tool for Arabidopsis thaliana.Plant physiology · 2021Article
- Identification of cis-regulatory motifs in first introns and the prediction of intron-mediated enhancement of gene expression in Arabidopsis thaliana.BMC genomics · 2021Article
- Article
- DNA-binding properties of the MADS-domain transcription factor SEPALLATA3 and mutant variants characterized by SELEX-seq.Plant molecular biology · 2021Article
- Transcription Factors as the "Blitzkrieg" of Plant Defense: A Pragmatic View of Nitric Oxide's Role in Gene Regulation.International journal of molecular sciences · 2021Review
- Expression and Functional Analyses ofFrontiers in plant science · 2021Article
- Complete chloroplast genome features and phylogenetic analysis of Eruca sativa (Brassicaceae).PloS one · 2021Article
- Transcriptional regulation of genes bearing intronic heterochromatin in the rice genome.PLoS genetics · 2020Article
- Article
- The Artificial PromoterInternational journal of molecular sciences · 2019Article
37 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 2 institutions in 2 countries.
Funding
Abstract
In Arabidopsis thaliana, cis-regulatory sequences of the floral homeotic gene AGAMOUS (AG) are located in the second intron. This 3-kb intron contains binding sites for two direct activators of AG, LEAFY (LFY) and WUSCHEL (WUS), along with other putative regulatory elements. We have used phylogenetic footprinting and the related technique of phylogenetic shadowing to identify putative cis-regulatory elements in this intron. Among 29 Brassicaceae species, several other motifs, but not the LFY and WUS binding sites identified previously, are largely invariant. Using reporter gene analyses, we tested six of these motifs and found that they are all functionally important for the activity of AG regulatory sequences in A. thaliana. Although there is little obvious sequence similarity outside the Brassicaceae, the intron from cucumber AG has at least partial activity in A. thaliana. Our studies underscore the value of the comparative approach as a tool that complements gene-by-gene promoter dissection but also demonstrate that sequence-based studies alone are insufficient for a complete identification of cis-regulatory sites.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.