ArticleScientific reports2025
Regulation of meristem and hormone function revealed through analysis of directly-regulated SHOOT MERISTEMLESS target genes.
Article in Scientific reports, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed.
- The molecular regulation of axillary bud fate determination and outgrowth into branch crown in strawberry involves BRC1.The New phytologist · 2026Article
- KNOX1 Transcription Factors in Plants with a Special Focus on Horticultural Crops: A Review.Plants (Basel, Switzerland) · 2026Review
- A universal spikey silica nanoparticle-mediated siRNA delivery for red seaweeds and land plants reveals PyKNOX 's role during haploid-diploid transition in Pyropia yezoensis.BMC plant biology · 2026Article
- Integrating meristem initiation and floral fate control: towardFrontiers in plant science · 2026Review
- Big data approaches to understanding gene regulatory networks in the shoot apical meristem andFrontiers in plant science · 2026Review
- Superabsorbent polymers seed coatings modulate transcriptomic and physiological responses to drought in rapeseed.Frontiers in plant science · 2026Article
- "Bud to bloom"-hormonal coordination in floral initiation.Plant biology (Stuttgart, Germany) · 2025Review
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Authors and funding
4 authors.
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Abstract
The Arabidopsis Knotted1-like homeobox (KNOX) gene SHOOT MERISTEMLESS (STM) encodes a homeodomain transcription factor that operates as a central component of the gene regulatory network (GRN) controlling shoot apical meristem formation and maintenance. It regulates the expression of target genes that include transcriptional regulators associated with meristem function, particularly those involved in pluripotency and cellular differentiation, as well as genes involved in hormone metabolism and signaling. Previous studies have identified KNOX-regulated genes and their associated cis-regulatory elements in several plant species. However, little is known about STM-DNA interactions in the regulatory regions of target genes in Arabidopsis. Here, we identify and map STM binding sites in the Arabidopsis genome using global ChIP-seq analysis to reveal potential directly-regulated STM target genes. We show that in the majority of target loci, STM binds within 1 kb upstream of the TSS, with other loci showing STM binding at more distal enhancer sites, and we reveal enrichment of DNA motifs containing a TGAC and/or TGAT core in STM-bound target gene cis-regulatory elements. We further demonstrate that many STM-bound genes are transcriptionally responsive to altered levels of STM activity, and show that among these, transcriptional regulators with key roles in meristem and hormone function are highly represented. Finally, we use a subset of these target genes to perform Bayesian network analysis to infer gene regulatory associations and to construct a refined GRN for STM-mediated control of meristem function.
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