ArticleNucleic acids research2020
Genome-wide binding of SEPALLATA3 and AGAMOUS complexes determined by sequential DNA-affinity purification sequencing.
Article in Nucleic acids research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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Who cites it
41 citing papers in PubMed, 67 citations in OpenAlex.
- Genome-wide regulatory and interaction landscape underlying the functional divergence of rice AGAMOUS-like transcription factors.Journal of experimental botany · 2026Article
- Many roads lead to a plant cistrome: mapping and interpreting transcription factor binding in plants.Genome biology · 2026Review
- Decoding a unique double flower pattern in herbaceous peony: insight into proliferate flower bud development.Annals of botany · 2026Article
- From binding to networks: methods for identifying transcription factor targets in plant systems.Frontiers in plant science · 2026Review
- The specificity landscape of WRKY transcription factors reveals the bidirectional influence of non-CG methylation.Nucleic acids research · 2025Article
- Tomato flowering depends on overlapping functions of AP1/FUL-like genes in reproductive meristem specification.The New phytologist · 2025Article
- The Role of CRABS CLAW Transcription Factor in Floral Organ Development in Plants.International journal of molecular sciences · 2025Review
- Mechanisms driving functional divergence of transcription factor paralogs.The New phytologist · 2025Review
- Review
- VvWUS increases carpel number by upregulating VvAG2 expression in grapevine.Plant cell reports · 2025Article
- Dancing molecules: group A bZIPs and PEBPs at the heart of plant development and stress responses.Journal of experimental botany · 2025Review
- Article
- In Vitro Genome-Wide Identification of Transcription Factor Binding Sites.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Uncoupling FRUITFULL's functions through modification of a protein motif identified by co-ortholog analysis.Nucleic acids research · 2024Article
- The overall regulatory network and contributions of ABC(D)E model genes in yellowhorn flower development.BMC plant biology · 2024Article
- SEPALLATA-driven MADS transcription factor tetramerization is required for inner whorl floral organ development.The Plant cell · 2024Article
- PLETHORA transcription factors promote early embryo development through induction of meristematic potential.Development (Cambridge, England) · 2024Article
- Transcription factor binding site divergence across maize inbred lines drives transcriptional and phenotypic variation.bioRxiv : the preprint server for biology · 2024Article
- Reflections on the ABC model of flower development.The Plant cell · 2024Review
- Identification and functional analysis of the LEAFY gene in longan flower induction.BMC genomics · 2024Article
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The MADS transcription factors (TF), SEPALLATA3 (SEP3) and AGAMOUS (AG) are required for floral organ identity and floral meristem determinacy. While dimerization is obligatory for DNA binding, SEP3 and SEP3-AG also form tetrameric complexes. How homo and hetero-dimerization and tetramerization of MADS TFs affect genome-wide DNA-binding and gene regulation is not known. Using sequential DNA affinity purification sequencing (seq-DAP-seq), we determined genome-wide binding of SEP3 homomeric and SEP3-AG heteromeric complexes, including SEP3Δtet-AG, a complex with a SEP3 splice variant, SEP3Δtet, which is largely dimeric and SEP3-AG tetramer. SEP3 and SEP3-AG share numerous bound regions, however each complex bound unique sites, demonstrating that protein identity plays a role in DNA-binding. SEP3-AG and SEP3Δtet-AG share a similar genome-wide binding pattern; however the tetrameric form could access new sites and demonstrated a global increase in DNA-binding affinity. Tetramerization exhibited significant cooperative binding with preferential distances between two sites, allowing efficient binding to regions that are poorly recognized by dimeric SEP3Δtet-AG. By intersecting seq-DAP-seq with ChIP-seq and expression data, we identified unique target genes bound either in SEP3-AG seq-DAP-seq or in SEP3/AG ChIP-seq. Seq-DAP-seq is a versatile genome-wide technique and complements in vivo methods to identify putative direct regulatory targets.
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