The mechanisms by which organisms alter their growth and development in response to changes in their ambient environment are largely unknown. Plants exhibit an enormous array of phenotypic plasticity because most plant organs do not arise until after the seed germinates, allowing organ size and shape to be optimized to the local environment. Because they are sessile and photosynthetic, plants are especially attuned to their light environment. Light influences every developmental transition from seed germination to flowering, having particularly dramatic effects on the morphogenesis of seedlings where it alters the expression of thousands of genes within a few hours. Light signals do not act autonomously, but are integrated with seasonal/diurnal changes in temperature, as well as with intrinsic programs to specify correct spatial and temporal regulation of gene expression, organelle development, and cellular differentiation. The proposed studies aim to understand how one photoreceptor, phytochrome B (PHYB), influences the development of plants that are in competition with other plants for light. Genetic and biochemical approaches have identified a number of proteins that act in close proximity to PHYB under a variety of different growth conditions, yet mechanistic details of how these interactions regulate growth are lacking. In previous years of this grant, it was shown that the synthesis and transport of an endogenous plant hormone, auxin, is altered by light quality cues. The primary goals are to: (1) Determine the mechanism by which auxin homeostasis is altered by shade light;(2) Link phytochrome to auxin-regulated growth promotion by a better understanding of the positive regulator, PIF7;(3) Identify the auxin-independent inputs to shade avoidance. The diverse responses that plants have to light provide a unique model system for understanding phenotypic plasticity. The system combines developmental complexity and sophisticated genetics with the ability to reversibly activate the receptor. As a result, the study of light signaling in plants has led to the discoveryof proteins that regulate DNA damage, transcription, and lipid metabolism in metazoans. Defining common and unique themes in signal transduction between animals and plants will thus explain the origin of key regulatory proteins and may help predict ways in which they can be altered for human benefit.

Public Health Relevance

The diverse and dramatic responses that plants have to light provide a unique model system for understanding how all organisms alter their growth and development in response to changes in their local environment. The system combines developmental complexity and sophisticated genetics with the ability to reversibly activate photoreceptors, which has resulted in the discovery of key regulatory proteins common to both plants and metazoans. Defining common and unique themes in signal transduction between animals and plants may explain the origin of these regulatory proteins and help to predict ways in which they can be altered for human benefit.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Research Project (R01)
Project #
5R01GM052413-18
Application #
8726989
Study Section
Development - 1 Study Section (DEV1)
Program Officer
Flicker, Paula F
Project Start
1995-05-01
Project End
2017-04-30
Budget Start
2014-05-01
Budget End
2015-04-30
Support Year
18
Fiscal Year
2014
Total Cost
$401,479
Indirect Cost
$194,531
Name
Salk Institute for Biological Studies
Department
Type
DUNS #
078731668
City
La Jolla
State
CA
Country
United States
Zip Code
92037
Zhang, Yijuan; Wen, Chunhong; Liu, Songbai et al. (2016) Shade avoidance 6 encodes an Arabidopsis flap endonuclease required for maintenance of genome integrity and development. Nucleic Acids Res 44:1271-84
Procko, Carl; Burko, Yogev; Jaillais, Yvon et al. (2016) The epidermis coordinates auxin-induced stem growth in response to shade. Genes Dev 30:1529-41
Hetzel, Jonathan; Duttke, Sascha H; Benner, Christopher et al. (2016) Nascent RNA sequencing reveals distinct features in plant transcription. Proc Natl Acad Sci U S A 113:12316-12321
Zheng, Zuyu; Guo, Yongxia; Novák, Ondřej et al. (2016) Local auxin metabolism regulates environment-induced hypocotyl elongation. Nat Plants 2:16025
Pedmale, Ullas V; Huang, Shao-Shan Carol; Zander, Mark et al. (2016) Cryptochromes Interact Directly with PIFs to Control Plant Growth in Limiting Blue Light. Cell 164:233-45
Yu, Jie; Qiu, Hong; Liu, Xin et al. (2015) Characterization of tub4(P287L) , a β-tubulin mutant, revealed new aspects of microtubule regulation in shade. J Integr Plant Biol 57:757-69
Kaiserli, Eirini; Páldi, Katalin; O'Donnell, Liz et al. (2015) Integration of Light and Photoperiodic Signaling in Transcriptional Nuclear Foci. Dev Cell 35:311-21
Li, Lin; Zhang, Qian; Pedmale, Ullas V et al. (2014) PIL1 participates in a negative feedback loop that regulates its own gene expression in response to shade. Mol Plant 7:1582-5
Procko, Carl; Crenshaw, Charisse Michelle; Ljung, Karin et al. (2014) Cotyledon-Generated Auxin Is Required for Shade-Induced Hypocotyl Growth in Brassica rapa. Plant Physiol 165:1285-1301
Zheng, Zuyu; Germain, Alexandre de Saint; Chory, Joanne (2014) Unfolding the mysteries of strigolactone signaling. Mol Plant 7:934-6

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