The Mediator complex subunit MED25 interacts with HDA9 and PIF4 to regulate thermomorphogenesis

Shapulatov, Umidjon; Zanten, Martijn van; Hoogdalem, Mark van; Meisenburg, Mara; Hall, Alexander van; Kappers, Iris F.; Fasano, Carlo; Facella, Paolo; Loh, Chi Cheng; Perrella, Giorgio; Krol, Alexander R. van der

doi:10.1093/plphys/kiac581

Cited by 15 publications

(6 citation statements)

References 84 publications

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“…Previous genetic analysis suggested that MED25 acts downstream of phyB (Cerdan & Chory, 2003). More recently, MED25 was identified to interact with PIF4 control hypocotyl elongation in tomato and Arabidopsis (Sun et al ., 2020; Shapulatov et al ., 2022). We performed in vitro pull‐down experiments using purified GST‐MED25 and MBP‐HDA19‐GFP and found that GST‐MED25 pulled down MBP‐HDA19‐GFP, but not MBP‐GFP (Fig.…”

Section: Resultsmentioning

confidence: 99%

“…HDA19 belongs to the RPD3‐like subclass and does not bind to DNA directly, but is instead recruited to chromatin as a member of transcriptional repressive complexes (Song et al ., 2005; Wang et al ., 2013; Jing et al ., 2021). We and others demonstrate that HDA19 is an essential negative regulator of photomorphogenesis, whereas HDA15 and HDA9 positively regulate skotomorphogenesis and thermomorphogenesis, respectively (Benhamed et al ., 2006; Liu et al ., 2013; Gu et al ., 2017; van der Woude et al ., 2019; Zhao et al ., 2019; Jing et al ., 2021; Shapulatov et al ., 2022).…”

Section: Introductionmentioning

confidence: 99%

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The PIF1/PIF3‐MED25‐HDA19 transcriptional repression complex regulates phytochrome signaling in Arabidopsis

Guo,

Jing,

Gao

et al. 2023

New Phytologist

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Summary Light signals are perceived by photoreceptors, triggering the contrasting developmental transition in dark‐germinated seedlings. Phytochrome‐interacting factors (PIFs) are key regulators of this transition. Despite their prominent functions in transcriptional activation, little is known about PIFs' roles in transcriptional repression. Here, we provide evidence that histone acetylation is involved in regulating phytochrome‐PIFs signaling in Arabidopsis. The histone deacetylase HDA19 interacts and forms a complex with PIF1 and PIF3 and the Mediator subunit MED25. The med25/hda19 double mutant mimics and enhances the phenotype of pif1/pif3 in both light and darkness. HDA19 and MED25 are recruited by PIF1/PIF3 to the target loci to reduce histone acetylation and chromatin accessibility, providing a mechanism for PIF1/PIF3‐mediated transcriptional repression. Furthermore, MED25 forms liquid‐like condensates, which can compartmentalize PIF1/PIF3 and HDA19 in vitro and in vivo, and the number of MED25 puncta increases in darkness. Collectively, our study establishes a mechanism wherein PIF1/PIF3 interact with HDA19 and MED25 to mediate transcriptional repression in the phytochrome signaling pathway and suggests that condensate formation with Mediator may explain the distinct and specific transcriptional activity of PIF proteins.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

The PIF1/PIF3‐MED25‐HDA19 transcriptional repression complex regulates phytochrome signaling in Arabidopsis

Guo,

Jing,

Gao

et al. 2023

New Phytologist

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“…An additional functional link between PIFs and HDACs are the subunits MED25 (MEDIATOR 25) and MED14 (MEDIATOR 14) of the Mediator complex (Bajracharya et al, 2022;Guo et al, 2023;Shapulatov et al, 2023), which is an evolutionary conserved large multi-subunit protein complex regulating RNAPII function on various levels (Allen and Taatjes, 2015;Soutourina, 2018). MED25 or PFT1 (PHYTOCHROME AND FLOWERING TIME 1) was first discovered as a SAS regulator and can interact with PIF4 in Arabidopsis and tomato to recruit RNAPII (Sun et al, 2020;Shapulatov et al, 2023). During TM, MED25 can associate with HDA9, thereby potentially facilitating the PIF4-mediated recruitment of HDA9 for histone deacetylation at the PIF4 and YUC8 gene (Figure 1) (Shapulatov et al, 2023).…”

Section: Histone Acetylation Dynamicsmentioning

confidence: 99%

“…MED25 or PFT1 (PHYTOCHROME AND FLOWERING TIME 1) was first discovered as a SAS regulator and can interact with PIF4 in Arabidopsis and tomato to recruit RNAPII (Sun et al, 2020;Shapulatov et al, 2023). During TM, MED25 can associate with HDA9, thereby potentially facilitating the PIF4-mediated recruitment of HDA9 for histone deacetylation at the PIF4 and YUC8 gene (Figure 1) (Shapulatov et al, 2023). Moreover, PIF1 and PIF3 also interact with MED25 and HDA19 to down-regulate the expression of positive the positive PM regulators BBX21 and GLK1 via histone deacetylation and reducing chromatin accessibility (Figure 1) (Guo et al, 2023).…”

Section: Histone Acetylation Dynamicsmentioning

confidence: 99%

PIF transcription factors-versatile plant epigenome landscapers

Ammari,

Maseh,

Zander

2024

Front. Epigenet. Epigenom.

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Plants are exquisitely responsive to their local light and temperature environment utilizing these environmental cues to modulate their developmental pathways and adjust growth patterns. This responsiveness is primarily achieved by the intricate interplay between the photoreceptor phyB (phytochrome B) and PIF (PHYTOCHROME INTERACTING FACTORs) transcription factors (TFs), forming a pivotal signaling nexus. phyB and PIFs co-associate in photobodies (PBs) and depending on environmental conditions, PIFs can dissociate from PBs to orchestrate gene expression. Until recently, the mechanisms governing epigenome modifications subsequent to PIF binding to target genes remained elusive. This mini review sheds light on the emerging role of PIFs in mediating epigenome reprogramming by recruiting chromatin regulators (CRs). The formation of numerous different PIF-CR complexes enables precise temporal and spatial control over the gene regulatory networks (GRNs) governing plant-environment interactions. We refer to PIFs as epigenome landscapers, as while they do not directly reprogram the epigenome, they act as critical sequence-specific recruitment platforms for CRs. Intriguingly, in the absence of PIFs, the efficacy of epigenome reprogramming is largely compromised in light and temperature-controlled processes. We have thoroughly examined the composition and function of known PIF-CR complexes and will explore also unanswered questions regarding the precise of locations PIF-mediated epigenome reprogramming within genes, nuclei, and plants.

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“…This likely explains why the overexpression of GLK2 resembled the phenotypes of pif4-2 upon high temperature and/or exogenous auxin treatment (Figures 5.2 and 5.5). We also propose that the impeded thermomorphogenesis caused by GLK2 overexpression in this study might be due to feedback regulation of PIF4 as PIF4 can modulates its own expression by binding its own promoter (Lee et al, 2021b;Shapulatov et al, 2023). GLK2 thus may affect the expression of PIF4, downstream of PIF4, and acts as an autofeedback regulator to modulate thermomorphogenesis.…”

Section: Glk2 In Thermomorphogenesis Chaptermentioning

confidence: 71%

Deciphering acclimation strategies to combined abiotic stresses in Arabidopsis thaliana

Jiang

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Plants grown in natural or agricultural environments are frequently exposed to abiotic stress and their combinations. Research on plant stress resilience usually focusses on single environmental stressors mostly imposed at a lethal severity. However, plant responses to sublethal abiotic stress combinations are often distinct from either stress applied in isolation. Investigating acclimation strategies mediating relevant stress combinations is therefore essential. In this thesis we studied the morphological, physiological, and molecular mechanisms underlying the acclimation responses of the model plant Arabidopsis thaliana to combined or sequential abiotic stresses. We focused on i) combined high temperature and drought and ii) flooding followed by drought, both of which are relevant in natural and agricultural settings and have already - and will further - increase in frequency due to climate change. We uncovered the unique phenotypic and molecular signatures of plant responses to combinatorial stresses in comparison with the corresponding single stresses and identified key molecular processes and putative candidate regulators mediating the acclimation responses. These putative regulators were further validated for their functions in plant growth, development, and physiology under combined or sequential stresses. Additionally, we described a novel role for the transcription factor GOLDEN2-LIKE 2 in thermomorphogenesis. The results presented in this thesis provide a comprehensive understanding of plant acclimation mechanisms to complex environmental challenges, which can potentially contribute to the development of climate change-resilient field crops.

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The Mediator complex subunit MED25 interacts with HDA9 and PIF4 to regulate thermomorphogenesis

Cited by 15 publications

References 84 publications

The PIF1/PIF3‐MED25‐HDA19 transcriptional repression complex regulates phytochrome signaling in Arabidopsis

The PIF1/PIF3‐MED25‐HDA19 transcriptional repression complex regulates phytochrome signaling in Arabidopsis

PIF transcription factors-versatile plant epigenome landscapers

Deciphering acclimation strategies to combined abiotic stresses in Arabidopsis thaliana

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