Optogenetic Methods in Plant Biology

Towards translational optogenetics

(2022) Akshaya Bansal et al.   Nature Biomedical Engineering

A synthetic switch based on orange carotenoid protein to control blue–green light responses in chloroplasts

(2022) Luca Piccinini et al.   PLANT PHYSIOLOGY

Neurophotonic Tools for Microscopic Measurements and Manipulation: Status Report

(2022) Ahmed Abdelfattah et al.   Neurophotonics

Kalium channelrhodopsins are natural light-gated potassium channels that mediate optogenetic inhibition

(2022) Elena G. Govorunova et al.   NATURE NEUROSCIENCE

An optimized genetically encoded dual reporter for simultaneous ratio imaging of Ca 2+ ‐ and H + reveals new insights into ion signaling in plants

(2021) Kunkun Li et al.   NEW PHYTOLOGIST

Perception and Signaling of Ultraviolet-B Radiation in Plants

(2021) Roman Podolec et al.   Annual Review of Plant Biology

Signaling, Deconstructed: Using Optogenetics to Dissect and Direct Information Flow in Biological Systems

(2021) Payam E. Farahani et al.   Annual Review of Biomedical Engineering

Phytochrome Signaling Networks

(2021) Mei-Chun Cheng et al.   Annual Review of Plant Biology

Extending the Anion Channelrhodopsin-Based Toolbox for Plant Optogenetics

(2021) Yang Zhou et al.   Membranes

Microbial Rhodopsins: The Last Two Decades

(2021) Andrey Rozenberg et al.   Annual Review of Microbiology

mem-iLID, a fast and economic protein purification method

(2021) Ruijing Tang et al.   BIOSCIENCE REPORTS

Hypothalamic dopamine neurons motivate mating through persistent cAMP signalling

(2021) Stephen X. Zhang et al.   NATURE

Partial recovery of visual function in a blind patient after optogenetic therapy

(2021) José-Alain Sahel et al.   NATURE MEDICINE

BiPOLES is an optogenetic tool developed for bidirectional dual-color control of neurons

(2021) Johannes Vierock et al.   Nature Communications

Optogenetic control of the guard cell membrane potential and stomatal movement by the light-gated anion channel GtACR1

(2021) Shouguang Huang et al.   Science Advances

Electrical Signals, Plant Tolerance to Actions of Stressors, and Programmed Cell Death: Is Interaction Possible?

(2021) Ekaterina Sukhova et al.   Plants-Basel

Single‐Component Optogenetic Tools for Inducible RhoA GTPase Signaling

(2021) Erin E. Berlew et al.   Advanced Biology

PACmn for improved optogenetic control of intracellular cAMP

(2021) Shang Yang et al.   BMC BIOLOGY

Temperature-responsive optogenetic probes of cell signaling

(2021) William Benman et al.   Nature Chemical Biology

Stepwise synaptic plasticity events drive the early phase of memory consolidation

(2021) Akihiro Goto et al.   SCIENCE

Modified Rhodopsins From Aureobasidium pullulans Excel With Very High Proton-Transport Rates

(2021) Sabine Panzer et al.   Frontiers in Molecular Biosciences

Mechanisms of Cryptochrome-Mediated Photoresponses in Plants

(2020) Qin Wang et al.   Annual Review of Plant Biology

Dual-Reporting Transcriptionally Linked Genetically Encoded Fluorescent Indicators Resolve the Spatiotemporal Coordination of Cytosolic Abscisic Acid and Second Messenger Dynamics in Arabidopsis

(2020) Rainer Waadt et al.   PLANT CELL

Optogenetic control of gene expression in plants in the presence of ambient white light

(2020) Rocio Ochoa-Fernandez et al.   NATURE METHODS

Channelrhodopsin-mediated optogenetics highlights a central role of depolarization-dependent plant proton pumps

(2020) Antonella Reyer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Optogenetic control of protein binding using light-switchable nanobodies

(2020) Agnieszka A. Gil et al.   Nature Communications

Structural basis for unique color tuning mechanism in heliorhodopsin

(2020) Tatsuki Tanaka et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Optogenetics in plants

(2020) John M. Christie et al.   NEW PHYTOLOGIST

Cardiac optogenetics: a decade of enlightenment

(2020) Emilia Entcheva et al.   Nature Reviews Cardiology

Design of a light-gated proton channel based on the crystal structure of Coccomyxa rhodopsin

(2019) Roman Fudim et al.   Science Signaling

Optogenetic manipulation of stomatal kinetics improves carbon assimilation, water use, and growth

(2019) M. Papanatsiou et al.   SCIENCE

Plant photoreceptors: Multi-functional sensory proteins and their signaling networks

(2019) Inyup Paik et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Fluorescent Light Incites a Conserved Immune and Inflammatory Genetic Response within Vertebrate Organs (Danio Rerio, Oryzias Latipes and Mus Musculus)

(2019) Boswell et al.   Genes

Mutated Channelrhodopsins with Increased Sodium and Calcium Permeability

(2019) Xiaodong Duan et al.   Applied Sciences-Basel

Controlling protein conformation with light

(2019) Onur Dagliyan et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Arabidopsis H+-ATPase AHA1 controls slow wave potential duration and wound-response jasmonate pathway activation

(2019) Archana Kumari et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Optogenetic activation of intracellular antibodies for direct modulation of endogenous proteins

(2019) Daseuli Yu et al.   NATURE METHODS

Quantification of reactive oxygen species production by the red fluorescent proteins KillerRed, SuperNova and mCherry

(2019) John O. Onukwufor et al.   FREE RADICAL BIOLOGY AND MEDICINE

Tip-localized Ca2+ -permeable channels control pollen tube growth via kinase-dependent R- and S-type anion channel regulation

(2018) Timo Gutermuth et al.   NEW PHYTOLOGIST

Rhodopsin-cyclases for photocontrol of cGMP/cAMP and 2.3 Å structure of the adenylyl cyclase domain

(2018) Ulrike Scheib et al.   Nature Communications

A Green-Light-Responsive System for the Control of Transgene Expression in Mammalian and Plant Cells

(2018) Claire Chatelle et al.   ACS Synthetic Biology

OptoBase: A Web Platform for Molecular Optogenetics

(2018) Katja Kolar et al.   ACS Synthetic Biology

Understanding Colour Tuning Rules and Predicting Absorption Wavelengths of Microbial Rhodopsins by Data-Driven Machine-Learning Approach

(2018) Masayuki Karasuyama et al.   Scientific Reports

Simultaneous Optogenetics and Cellular Resolution Calcium Imaging During Active Behavior Using a Miniaturized Microscope

(2018) Alice M. Stamatakis et al.   Frontiers in Neuroscience

Mapping Local and Global Liquid Phase Behavior in Living Cells Using Photo-Oligomerizable Seeds

(2018) Dan Bracha et al.   CELL

Potassium channel-based optogenetic silencing

(2018) Yinth Andrea Bernal Sierra et al.   Nature Communications

Synthetic Light-Activated Ion Channels for Optogenetic Activation and Inhibition

(2018) Sebastian Beck et al.   Frontiers in Neuroscience

Integration of optogenetics with complementary methodologies in systems neuroscience

(2017) Christina K. Kim et al.   NATURE REVIEWS NEUROSCIENCE

Interaction of the signaling state analog and the apoprotein form of the orange carotenoid protein with the fluorescence recovery protein

(2017) Marcus Moldenhauer et al.   PHOTOSYNTHESIS RESEARCH

Synthetic OCP heterodimers are photoactive and recapitulate the fusion of two primitive carotenoproteins in the evolution of cyanobacterial photoprotection

(2017) Sigal Lechno-Yossef et al.   PLANT JOURNAL

Phytochromes and Phytochrome Interacting Factors

(2017) Vinh Ngoc Pham et al.   PLANT PHYSIOLOGY

Mechano-dependent signaling by Latrophilin/CIRL quenches cAMP in proprioceptive neurons

(2017) Nicole Scholz et al.   eLife

Photodynamic Physiology—Photonanomanipulations in Cellular Physiology with Protein Photosensitizers

(2017) Hong Ning Jiang et al.   Frontiers in Physiology

The Expanding Family of Natural Anion Channelrhodopsins Reveals Large Variations in Kinetics, Conductance and Spectral Sensitivity

(2017) Elena G. Govorunova et al.   Scientific Reports

An optimized transit peptide for effective targeting of diverse foreign proteins into chloroplasts in rice

(2017) Bo-Ran Shen et al.   Scientific Reports

Molecular determinants of proton selectivity and gating in the red-light activated channelrhodopsin Chrimson

(2017) Johannes Vierock et al.   Scientific Reports

Plant hormone-mediated regulation of stress responses

(2016) Vivek Verma et al.   BMC PLANT BIOLOGY

Marine Bacterial and Archaeal Ion-Pumping Rhodopsins: Genetic Diversity, Physiology, and Ecology

(2016) Jarone Pinhassi et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

ROS, Calcium, and Electric Signals: Key Mediators of Rapid Systemic Signaling in Plants

(2016) Simon Gilroy et al.   PLANT PHYSIOLOGY

Functional and topological diversity of LOV domain photoreceptors

(2016) Spencer T. Glantz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Sensitive red protein calcium indicators for imaging neural activity

(2016) Hod Dana et al.   eLife

Natural Photoreceptors as a Source of Fluorescent Proteins, Biosensors, and Optogenetic Tools

(2015) Daria M. Shcherbakova et al.   Annual Review of Biochemistry

Biophysics of Channelrhodopsin

(2015) Franziska Schneider et al.   Annual Review of Biophysics

Proteorhodopsin light-enhanced growth linked to vitamin-B1 acquisition in marine Flavobacteria

(2015) Laura Gómez-Consarnau et al.   ISME Journal

All-Optical Interrogation of Neural Circuits

(2015) V. Emiliani et al.   JOURNAL OF NEUROSCIENCE

Converting a Light-Driven Proton Pump into a Light-Gated Proton Channel

(2015) Keiichi Inoue et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Live Cell Imaging with R-GECO1 Sheds Light on flg22- and Chitin-Induced Transient [Ca 2+ ] cyt Patterns in Arabidopsis

(2015) Nana F. Keinath et al.   Molecular Plant

Structural basis for gene regulation by a B12-dependent photoreceptor

(2015) Marco Jost et al.   NATURE

Optogenetics: 10 years after ChR2 in neurons—views from the community

(2015) Antoine Adamantidis et al.   NATURE NEUROSCIENCE

How Does Photoreceptor UVR8 Perceive a UV-B Signal?

(2015) Xiaojing Yang et al.   PHOTOCHEMISTRY AND PHOTOBIOLOGY

Engineering of a light-gated potassium channel

(2015) C. Cosentino et al.   SCIENCE

Natural light-gated anion channels: A family of microbial rhodopsins for advanced optogenetics

(2015) E. G. Govorunova et al.   SCIENCE

The rhodopsin–guanylyl cyclase of the aquatic fungusBlastocladiella emersoniienables fast optical control of cGMP signaling

(2015) Ulrike Scheib et al.   Science Signaling

Optogenetic manipulation of cGMP in cells and animals by the tightly light-regulated guanylyl-cyclase opsin CyclOp

(2015) Shiqiang Gao et al.   Nature Communications

The rhodopsin–guanylyl cyclase of the aquatic fungusBlastocladiella emersoniienables fast optical control of cGMP signaling

(2015) Ulrike Scheib et al.   Science Signaling

Shifting the Sun: Solar Spectral Conversion and Extrinsic Sensitization in Natural and Artificial Photosynthesis

(2015) Lothar Wondraczek et al.   Advanced Science

A Rhodopsin-Guanylyl Cyclase Gene Fusion Functions in Visual Perception in a Fungus

(2014) Gabriela M. Avelar et al.   CURRENT BIOLOGY

A red light-controlled synthetic gene expression switch for plant systems

(2014) Konrad Müller et al.   Molecular BioSystems

Independent optical excitation of distinct neural populations

(2014) Nathan C Klapoetke et al.   NATURE METHODS

Noninvasive optical inhibition with a red-shifted microbial rhodopsin

(2014) Amy S Chuong et al.   NATURE NEUROSCIENCE

Phytochromes: An Atomic Perspective on Photoactivation and Signaling

(2014) E. Sethe Burgie et al.   PLANT CELL

Cyanobacterial Light-Driven Proton Pump, Gloeobacter Rhodopsin: Complementarity between Rhodopsin-Based Energy Production and Photosynthesis

(2014) Ah Reum Choi et al.   PLoS One

Channelrhodopsin-2-XXL, a powerful optogenetic tool for low-light applications

(2014) A. Dawydow et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Engineering an improved light-induced dimer (iLID) for controlling the localization and activity of signaling proteins

(2014) Gurkan Guntas et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Microbial and Animal Rhodopsins: Structures, Functions, and Molecular Mechanisms

(2013) Oliver P. Ernst et al.   CHEMICAL REVIEWS

From channelrhodopsins to optogenetics

(2013) Peter Hegemann et al.   EMBO Molecular Medicine

Multi-chromatic control of mammalian gene expression and signaling

(2013) Konrad Müller et al.   NUCLEIC ACIDS RESEARCH

The Orange Carotenoid Protein: a blue-green light photoactive protein

(2013) Diana Kirilovsky et al.   PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES

Pollen Tube Growth Regulation by Free Anions Depends on the Interaction between the Anion Channel SLAH3 and Calcium-Dependent Protein Kinases CPK2 and CPK20

(2013) T. Gutermuth et al.   PLANT CELL

A quantitative ratiometric sensor for time-resolved analysis of auxin dynamics

(2013) Sabrina Wend et al.   Scientific Reports

Genetically encoded calcium indicators for multi-color neural activity imaging and combination with optogenetics

(2013) Jasper Akerboom et al.   Frontiers in Molecular Neuroscience

Degradation of channelopsin-2 in the absence of retinal and degradation resistance in certain mutants

(2012) Sybille Ullrich et al.   BIOLOGICAL CHEMISTRY

LOV to BLUF: Flavoprotein Contributions to the Optogenetic Toolkit

(2012) John M. Christie et al.   Molecular Plant

Structural basis of ultraviolet-B perception by UVR8

(2012) Di Wu et al.   NATURE

Ion Channels in Plants

(2012) Rainer Hedrich   PHYSIOLOGICAL REVIEWS

Photo-inducible cell ablation in Caenorhabditis elegans using the genetically encoded singlet oxygen generating protein miniSOG

(2012) Y. B. Qi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Plant UVR8 Photoreceptor Senses UV-B by Tryptophan-Mediated Disruption of Cross-Dimer Salt Bridges

(2012) J. M. Christie et al.   SCIENCE

In Vivo Imaging of Ca2+, pH, and Reactive Oxygen Species Using Fluorescent Probes in Plants

(2011) Sarah J. Swanson et al.   Annual Review of Plant Biology

Ultra light-sensitive and fast neuronal activation with the Ca2+-permeable channelrhodopsin CatCh

(2011) Sonja Kleinlogel et al.   NATURE NEUROSCIENCE

Function, structure and mechanism of bacterial photosensory LOV proteins

(2011) Julien Herrou et al.   NATURE REVIEWS MICROBIOLOGY

An Expanded Palette of Genetically Encoded Ca2+ Indicators

(2011) Y. Zhao et al.   SCIENCE

The Language of Calcium Signaling

(2010) Antony N. Dodd et al.   Annual Review of Plant Biology

Structure and Function of Plant Photoreceptors

(2010) Andreas Möglich et al.   Annual Review of Plant Biology

Comparative metaproteomics reveals ocean-scale shifts in microbial nutrient utilization and energy transduction

(2010) Robert M Morris et al.   ISME Journal

Natural and Engineered Photoactivated Nucleotidyl Cyclases for Optogenetic Applications

(2010) Min-Hyung Ryu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Light Modulation of Cellular cAMP by a Small Bacterial Photoactivated Adenylyl Cyclase, bPAC, of the Soil BacteriumBeggiatoa

(2010) Manuela Stierl et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural basis for the photoconversion of a phytochrome to the activated Pfr form

(2010) Andrew T. Ulijasz et al.   NATURE

Rapid blue-light–mediated induction of protein interactions in living cells

(2010) Matthew J Kennedy et al.   NATURE METHODS

Interaction of COP1 and UVR8 regulates UV-B-induced photomorphogenesis and stress acclimation in Arabidopsis

(2009) Jean-Jacques Favory et al.   EMBO JOURNAL

Light enhanced amino acid uptake by dominant bacterioplankton groups in surface waters of the Atlantic Ocean

(2009) Isabelle Mary et al.   FEMS MICROBIOLOGY ECOLOGY

In VitroCharacterization of a Recombinant Blh Protein from an Uncultured Marine Bacterium as a β-Carotene 15,15′-Dioxygenase

(2009) Yeong-Su Kim et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Spatiotemporal control of cell signalling using a light-switchable protein interaction

(2009) Anselm Levskaya et al.   NATURE

A genetically encoded photoactivatable Rac controls the motility of living cells

(2009) Yi I. Wu et al.   NATURE

The Plant NADPH Oxidase RBOHD Mediates Rapid Systemic Signaling in Response to Diverse Stimuli

(2009) G. Miller et al.   Science Signaling

Activation of protein splicing with light in yeast

(2008) Amy B Tyszkiewicz et al.   NATURE METHODS

Genetically encoded photoswitching of actin assembly through the Cdc42-WASP-Arp2/3 complex pathway

(2008) D. W. Leung et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA