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Identifying interactions of the CLAVATA-related receptors FEA3 and BAM1D with TurboID-based proximity labeling in maize meristems

ABSTRACT: Plant development is defined by extensive post-embryonic growth, which is governed by meristems, tissues which contain undifferentiated cells that persist throughout the plant’s life. Meristem activity is regulated by the CLAVATA (CLV) signaling pathway, consisting of a suite of CLV receptors and their CLE peptide ligands. While the CLV signaling pathway has been much studied over the years, downstream signaling targets of CLV receptors remain obscure. Furthermore, we do not know how CLV receptors interact to control meristem maintenance. To clarify CLV receptor interactions, we employed TurboID-based proximity labeling in maize shoot apices with two maize CLV receptors, FASCIATED EAR3 (FEA3) and BARELY ANY MERISTEM1D (BAM1D). From our proximity labeling dataset, we identified hundreds of putative interactors of FEA3 and BAM1D, greatly expanding our knowledge of the meristem receptor signaling landscape.

INSTRUMENT(S):

ORGANISM(S): Zea Mays (maize)

TISSUE(S): Shoot

SUBMITTER: Shouling Xu

LAB HEAD: SHOULING XU

PROVIDER: PXD064582 | Pride | 2026-01-16

REPOSITORIES: Pride

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Project description:Stomata are pores in the epidermis of plants that can open and close, allowing for gas exchange with the environment, vital for photosynthesis, and regulating transpiration. They are formed from protodermal cells by a series of asymmetric and symmetric divisions and differentiation steps. Initiation into and progression within the stomatal lineage are driven by the consecutive expression and action of three sets of bHLH transcription factor dimers (SPCH, MUTE, FAMA plus their heterodimer partners SCRM or SCRM2) and is accompanied by massive changes in the transcriptome as well as the chromatin landscape. Strong shifts in chromatin accessibility have been observed specifically at the initiation stage and at the transition from division to differentiation. In line with this, FAMA, which promotes the differentiation of stomata, has been shown to interact with RBR, which can recruit the repressive PRC2 complex, to shut down the early stomatal lineage transcriptional program. Interestingly, several of the stomatal lineage bHLHs bind chromatin regions that are closed/inaccessible in a primordial state (the shoot apical meristem). This suggests that the stomatal lineage bHLHs could be able to access closed chromatin and that they might also be directly involved in opening (and closing) of chromatin at a subset of their target regions. In order to test this hypothesis and identify chromatin modifiers that associate with the stomatal lineage bHLH dimers, we did proximity labeling with TurboID fused to SCRM, which is expressed throughout the stomatal lineage and is the main heterodimerization partner of SPCH, MUTE and FAMA. We identified a number of proteins acting as chromatin modifiers and remodelers, including the histone acetyl transferase HAC1, which deposits activating marks on nucleosomes, and multiple subunits of the ATPase-dependent chromatin remodeling SWI/SNF complex. Together, these data support a role of SCRM and its partners in regulating target gene accessibility to impose lasting changes in gene expression within the stomatal lineage.

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Dataset Information

Identifying interactions of the CLAVATA-related receptors FEA3 and BAM1D with TurboID-based proximity labeling in maize meristems

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