ArticleNature communications2018
The DNA binding landscape of the maize AUXIN RESPONSE FACTOR family.
Article in Nature communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 112 papers, 1 of them a synthesis that pooled it.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
112 citing papers in PubMed, 1 synthesis or guideline pooled it.
- ChIP-Hub provides an integrative platform for exploring plant regulome.Nature communications · 2022Pooled it
- AUXIN RESPONSE FACTORs: from transcription factors to auxin effectors.The New phytologist · 2026Review
- Article
- A review of ARGOS-mediated regulation of plant organ size: molecular mechanisms, environmental interactions, and agricultural implications.Functional & integrative genomics · 2026Review
- Nanoclustering of a plant transcription factor enables strong yet specific DNA binding.Science advances · 2026Article
- Evolution trajectory of auxin response factor across Triticeae species underpin candidate genes for the regulation of salt/alkali stress responsive networks.Plant cell reports · 2026Article
- Article
- The incomplete dominance of gene expression controlled by Trans-eQTL hotspots contributes to heterosis in maize.Nature communications · 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
- WUSCHEL-dependent chromatin regulation in maize inflorescence development at single-cell resolution.Genome biology · 2025Article
- Altered chromatin accessibility in light and hormone responses of rice seedlings.Plant physiology · 2025Article
- Alterations in arabinogalactan proteins in banana peel during fruit development and ripening.Annals of botany · 2025Article
- Mechanisms driving functional divergence of transcription factor paralogs.The New phytologist · 2025Review
- Review
- deepTFBS: Improving within- and Cross-Species Prediction of Transcription Factor Binding Using Deep Multi-Task and Transfer Learning.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Auxin Metabolite Balance During Haploid and Zygotic Oat Embryo Development-Quantitative and Localization Studies.International journal of molecular sciences · 2025Article
- Transcription factor binding divergence drives transcriptional and phenotypic variation in maize.Nature plants · 2025Article
- Many transcription factor families have evolutionarily conserved binding motifs in plants.Plant physiology · 2025Article
- A conserved ARF-DNA interface underlies auxin-triggered transcriptional response.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
52 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
9 authors.
Funding
Abstract
AUXIN RESPONSE FACTORS (ARFs) are plant-specific transcription factors (TFs) that couple perception of the hormone auxin to gene expression programs essential to all land plants. As with many large TF families, a key question is whether individual members determine developmental specificity by binding distinct target genes. We use DAP-seq to generate genome-wide in vitro TF:DNA interaction maps for fourteen maize ARFs from the evolutionarily conserved A and B clades. Comparative analysis reveal a high degree of binding site overlap for ARFs of the same clade, but largely distinct clade A and B binding. Many sites are however co-occupied by ARFs from both clades, suggesting transcriptional coordination for many genes. Among these, we investigate known QTLs and use machine learning to predict the impact of cis-regulatory variation. Overall, large-scale comparative analysis of ARF binding suggests that auxin response specificity may be determined by factors other than individual ARF binding site selection.
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Registered trials
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.