Neighbor Detection Induces Organ-Specific Transcriptomes, Revealing Patterns Underlying Hypocotyl-Specific Growth

Kohnen, Markus V.; Schmid‐Siegert, Emanuel; Trevisan, Martine; Petrolati, Laure Allenbach; Sénéchal, Fabien; Müller-Moulé, Patricia; Maloof, Julin; Xenarios, Ioannis; Fankhauser, Christian

doi:10.1105/tpc.16.00463

Cited by 141 publications

(332 citation statements)

References 85 publications

(221 reference statements)

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“…Among the numerous PIF targets, several YUC genes were directly linked to auxin production and elongation responses (12,19,25). In this study we show that the PIF-YUC regulon is also essential for low R/FRinduced leaf hyponasty ( Fig.…”

Section: Discussionmentioning

confidence: 59%

“…Moreover, PIN3, 4, and 7 are required for both shade-regulated growth responses and leaf hyponasty (Fig. S3) (18,24,25). Despite the involvement of common elements controlling petiole growth and position, our study reveals a bifurcation in the signaling pathways underlying these responses.…”

Section: Discussionmentioning

confidence: 83%

“…S3B). To control petiole and hypocotyl elongation, auxin needs to be transported from the site of synthesis to the site of action, a process requiring several members of the PIN-FORMED family of auxin efflux carriers (16,18,25). Therefore, we examined the pin3pin4pin7 mutant and found that these plants displayed severely reduced movements in control conditions as well as in response to shade (Fig.…”

Section: Resultsmentioning

confidence: 99%

“…S3A). PIFs control auxin production downstream of TAA1, at the level of YUC expression, and a yuc2yuc5yu-c8yuc9 mutant lacking four shade-induced YUC genes lacks several shade responses (19,25). Therefore, we analyzed the yuc2yuc5yuc8yuc9 mutant and found that it maintained normal leaf movements in control conditions but was unresponsive to a reduction of the R/FR (Fig.…”

Section: Resultsmentioning

confidence: 99%

“…A key step in this process is PIF-dependent expression of several members of the YUCCA family of auxin biosynthetic enzymes (12,13,19). PIFs also control the expression of additional players contributing to growth regulation, including several hormonal pathways and cell-wall components (20)(21)(22)(23)(24)(25).…”

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confidence: 99%

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Local auxin production underlies a spatially restricted neighbor-detection response in Arabidopsis

Michaud

Fiorucci

Xenarios

et al. 2017

Proc. Natl. Acad. Sci. U.S.A.

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153

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Competition for light triggers numerous developmental adaptations known as the "shade-avoidance syndrome" (SAS). Important molecular events underlying specific SAS responses have been identified. However, in natural environments light is often heterogeneous, and it is currently unknown how shading affecting part of a plant leads to local responses. To study this question, we analyzed upwards leaf movement (hyponasty), a rapid adaptation to neighbor proximity, in Arabidopsis. We show that manipulation of the light environment at the leaf tip triggers a hyponastic response that is restricted to the treated leaf. This response is mediated by auxin synthesized in the blade and transported to the petiole. Our results suggest that a strong auxin response in the vasculature of the treated leaf and auxin signaling in the epidermis mediate leaf elevation. Moreover, the analysis of an auxinsignaling mutant reveals signaling bifurcation in the control of petiole elongation versus hyponasty. Our work identifies a mechanism for a local shade response that may pertain to other plant adaptations to heterogeneous environments.neighbor detection | organ-specific response | hyponasty | auxin | PIF

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Section: Discussionmentioning

confidence: 59%

Section: Discussionmentioning

confidence: 83%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

mentioning

confidence: 99%

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Local auxin production underlies a spatially restricted neighbor-detection response in Arabidopsis

Michaud

Fiorucci

Xenarios

et al. 2017

Proc. Natl. Acad. Sci. U.S.A.

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153

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Proteomic and metabolomic analysis of Nicotiana benthamiana under dark stress

Shen

Chen

et al. 2021

FEBS Open Bio

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Exposure to extended periods of darkness is a common source of abiotic stress that significantly affects plant growth and development. To understand how Nicotiana benthamiana responds to dark stress, the proteomes and metabolomes of leaves treated with darkness were studied. In total, 5763 proteins and 165 primary metabolites were identified following dark treatment. Additionally, the expression of autophagy-related gene (ATG) proteins was transiently upregulated. Weighted gene coexpression network analysis (WGCNA) was utilized to find the protein modules associated with the response to dark stress. A total of four coexpression modules were obtained. The results indicated that heat-shock protein (HSP70), SnRK1-interacting protein 1, 2A phosphatase-associated protein of 46 kDa (Tap46), and glutamate dehydrogenase (GDH) might play crucial roles in N. benthamiana's response to dark stress. Furthermore, a protein-protein interaction (PPI) network was constructed and top-degreed proteins were predicted to identify potential key factors in the response to dark stress. These proteins include isopropylmalate isomerase (IPMI), eukaryotic elongation factor 5A (ELF5A), and ribosomal protein 5A (RPS5A). Finally, metabolic analysis suggested that some amino acids and sugars were involved in the dark-responsive pathways. Thus, these results provide a new avenue for understanding the defensive mechanism against dark stress at the protein and metabolic levels in N. benthamiana.The direct effect of illumination on plants is to carry out photosynthesis, so that organic material could be produced for plants to store energy. Illumination can also be used as a signal factor to regulate plant growth and development, including all stages of plant growth [1]. Lack of illumination is likely to lead to

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Pectin methylesterification state and cell wall mechanical properties contribute to neighbor proximity‐induced hypocotyl growth in Arabidopsis

Sénéchal,

Robinson,

Van Schaik

et al. 2024

Plant Direct

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Plants growing with neighbors compete for light and consequently increase the growth of their vegetative organs to enhance access to sunlight. This response, called shade avoidance syndrome (SAS), involves photoreceptors such as phytochromes as well as phytochrome interacting factors (PIFs), which regulate the expression of growth‐mediating genes. Numerous cell wall‐related genes belong to the putative targets of PIFs, and the importance of cell wall modifications for enabling growth was extensively shown in developmental models such as dark‐grown hypocotyl. However, the contribution of the cell wall in the growth of de‐etiolated seedlings regulated by shade cues remains poorly established. Through analyses of mechanical and biochemical properties of the cell wall coupled with transcriptomic analysis of cell wall‐related genes from previously published data, we provide evidence suggesting that cell wall modifications are important for neighbor proximity‐induced elongation. Further analysis using loss‐of‐function mutants impaired in the synthesis and remodeling of the main cell wall polymers corroborated this. We focused on the cgr2cgr3 double mutant that is defective in methylesterification of homogalacturonan (HG)‐type pectins. By following hypocotyl growth kinetically and spatially and analyzing the mechanical and biochemical properties of cell walls, we found that methylesterification of HG‐type pectins was required to enable global cell wall modifications underlying neighbor proximity‐induced hypocotyl growth. Collectively, our work suggests that plant competition for light induces changes in the expression of numerous cell wall genes to enable modifications in biochemical and mechanical properties of cell walls that contribute to neighbor proximity‐induced growth.

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Neighbor Detection Induces Organ-Specific Transcriptomes, Revealing Patterns Underlying Hypocotyl-Specific Growth

Cited by 141 publications

References 85 publications

Local auxin production underlies a spatially restricted neighbor-detection response in Arabidopsis

Local auxin production underlies a spatially restricted neighbor-detection response in Arabidopsis

Proteomic and metabolomic analysis of Nicotiana benthamiana under dark stress

Pectin methylesterification state and cell wall mechanical properties contribute to neighbor proximity‐induced hypocotyl growth in Arabidopsis

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