Bacterial Phytochromes, Cyanobacteriochromes and Allophycocyanins as a Source of Near-Infrared Fluorescent Probes

Interaction of Biliverdin Chromophore with Near-Infrared Fluorescent Protein BphP1-FP Engineered from Bacterial Phytochrome

(2017) Olesya Stepanenko et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Near-infrared optogenetic pair for protein regulation and spectral multiplexing

(2017) Taras A Redchuk et al.   Nature Chemical Biology

Hydrophobic Residues near the Bilin Chromophore-Binding Pocket Modulate Spectral Tuning of Insert-Cys Subfamily Cyanobacteriochromes

(2017) Sung Mi Cho et al.   Scientific Reports

Development of an inducible mouse model of iRFP713 to track recombinase activity and tumour development in vivo

(2017) Andreas K. Hock et al.   Scientific Reports

Identification of Cyanobacteriochromes Detecting Far-Red Light

(2016) Nathan C. Rockwell et al.   BIOCHEMISTRY

Cyanobacteriochrome Photoreceptors Lacking the Canonical Cys Residue

(2016) Keiji Fushimi et al.   BIOCHEMISTRY

Far-red light photoacclimation: Chromophorylation of FR induced α- and β-subunits of allophycocyanin from Chroococcidiopsis thermalis sp. PCC7203

(2016) Qian-Zhao Xu et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Adapting photosynthesis to the near-infrared: non-covalent binding of phycocyanobilin provides an extreme spectral red-shift to phycobilisome core-membrane linker from Synechococcus sp. PCC7335

(2016) Dan Miao et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Genetically encoded far-red fluorescent sensors for caspase-3 activity

(2016) Olga A. Zlobovskaya et al.   BIOTECHNIQUES

In vivo near-infrared fluorescence imaging of Leishmania amazonensis expressing infrared fluorescence protein (iRFP) for real-time monitoring of cutaneous leishmaniasis in mice

(2016) Janaina Correia Oliveira et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Development of a light-regulated cell-recovery system for non-photosynthetic bacteria

(2016) Mitsuharu Nakajima et al.   Microbial Cell Factories

Using Dual Fluorescence Reporting Genes to Establish an In Vivo Imaging Model of Orthotopic Lung Adenocarcinoma in Mice

(2016) Cheng-Wei Lai et al.   MOLECULAR IMAGING AND BIOLOGY

A far-red fluorescent protein evolved from a cyanobacterial phycobiliprotein

(2016) Erik A Rodriguez et al.   NATURE METHODS

Crystal Structure of Deinococcus Phytochrome in the Photoactivated State Reveals a Cascade of Structural Rearrangements during Photoconversion

(2016) E. Sethe Burgie et al.   STRUCTURE

Two Cyanobacterial Photoreceptors Regulate Photosynthetic Light Harvesting by Sensing Teal, Green, Yellow, and Red Light

(2016) Lisa B. Wiltbank et al.   mBio

Bright monomeric near-infrared fluorescent proteins as tags and biosensors for multiscale imaging

(2016) Daria M. Shcherbakova et al.   Nature Communications

Allosteric effects of chromophore interaction with dimeric near-infrared fluorescent proteins engineered from bacterial phytochromes

(2016) Olesya V. Stepanenko et al.   Scientific Reports

Repurposing Synechocystis PCC6803 UirS–UirR as a UV-Violet/Green Photoreversible Transcriptional Regulatory Tool in E. coli

(2016) Prabha Ramakrishnan et al.   ACS Synthetic Biology

Photoconversion and Fluorescence Properties of a Red/Green-Type Cyanobacteriochrome AM1_C0023g2 That Binds Not Only Phycocyanobilin But Also Biliverdin

(2016) Keiji Fushimi et al.   Frontiers in Microbiology

Marking cells with infrared fluorescent proteins to preserve photoresponsiveness in the retina

(2016) Bozena Fyk-Kolodziej et al.   BIOTECHNIQUES

The role of local and remote amino acid substitutions for optimizing fluorescence in bacteriophytochromes: A case study on iRFP

(2016) David Buhrke et al.   Scientific Reports

Bright blue-shifted fluorescent proteins with Cys in the GAF domain engineered from bacterial phytochromes: fluorescence mechanisms and excited-state dynamics

(2016) Yusaku Hontani et al.   Scientific Reports

Near-infrared bioluminescent proteins for two-color multimodal imaging

(2016) Konstantin A. Rumyantsev et al.   Scientific Reports

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

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

Red-shifted red/green-type cyanobacteriochrome AM1_1870g3 from the chlorophyll d -bearing cyanobacterium Acaryochloris marina

(2015) Rei Narikawa et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

A Red/Green Cyanobacteriochrome Sustains Its Color Despite a Change in the Bilin Chromophore’s Protonation State

(2015) Chen Song et al.   BIOCHEMISTRY

Characterization of Red/Green Cyanobacteriochrome NpR6012g4 by Solution Nuclear Magnetic Resonance Spectroscopy: A Hydrophobic Pocket for the C15-E,anti Chromophore in the Photoproduct

(2015) Nathan C. Rockwell et al.   BIOCHEMISTRY

Conservation and Diversity in the Primary Forward Photodynamics of Red/Green Cyanobacteriochromes

(2015) Sean M. Gottlieb et al.   BIOCHEMISTRY

Detailed insight into the ultrafast photoconversion of the cyanobacteriochrome Slr1393 from Synechocystis sp.

(2015) Chavdar Slavov et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Novel near-infrared BiFC systems from a bacterial phytochrome for imaging protein interactions and drug evaluation under physiological conditions

(2015) Minghai Chen et al.   BIOMATERIALS

In Vivo Tomographic Imaging of Deep-Seated Cancer Using Fluorescence Lifetime Contrast

(2015) W. L. Rice et al.   CANCER RESEARCH

Molecular Basis of Spectral Diversity in Near-Infrared Phytochrome-Based Fluorescent Proteins

(2015) Daria M. Shcherbakova et al.   CHEMISTRY & BIOLOGY

Near-infrared fluorescent proteins engineered from bacterial phytochromes

(2015) Daria M Shcherbakova et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

The family of phytochrome-like photoreceptors: diverse, complex and multi-colored, but very useful

(2015) Katrin Anders et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Microfluidics-based selection of red-fluorescent proteins with decreased rates of photobleaching

(2015) Kevin M. Dean et al.   Integrative Biology

Genomic Survey and Biochemical Analysis of Recombinant Candidate Cyanobacteriochromes Reveals Enrichment for Near UV/Violet Sensors in the Halotolerant and Alkaliphilic CyanobacteriumMicrocoleusIPPAS B353

(2015) Sung Mi Cho et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Light-induced Changes in the Dimerization Interface of Bacteriophytochromes

(2015) Heikki Takala et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Color Tuning in Red/Green Cyanobacteriochrome AnPixJ: Photoisomerization at C15 Causes an Excited-State Destabilization

(2015) Chen Song et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Multiscale photoacoustic tomography using reversibly switchable bacterial phytochrome as a near-infrared photochromic probe

(2015) Junjie Yao et al.   NATURE METHODS

A naturally monomeric infrared fluorescent protein for protein labeling in vivo

(2015) Dan Yu et al.   NATURE METHODS

NpR3784 is the prototype for a distinctive group of red/green cyanobacteriochromes using alternative Phe residues for photoproduct tuning

(2015) Nathan C. Rockwell et al.   PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES

Photochromic conversion in a red/green cyanobacteriochrome from Synechocystis PCC6803: quantum yields in solution and photoswitching dynamics in living E. coli cells

(2015) Francesca Pennacchietti et al.   PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES

Identification of DXCF cyanobacteriochrome lineages with predictable photocycles

(2015) Nathan C. Rockwell et al.   PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES

Crystal Structure of Allophycocyanin from Marine Cyanobacterium Phormidium sp. A09DM

(2015) Ravi Raghav Sonani et al.   PLoS One

The terminal phycobilisome emitter, LCM: A light-harvesting pigment with a phytochrome chromophore

(2015) Kun Tang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rationally designed fluorogenic protease reporter visualizes spatiotemporal dynamics of apoptosis in vivo

(2015) Tsz-Leung To et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Longitudinal far red gene-reporter imaging of cancer metastasis in preclinical models: a tool for accelerating drug discovery

(2015) Banghe Zhu et al.   Biomedical Optics Express

Minimal domain of bacterial phytochrome required for chromophore binding and fluorescence

(2015) Konstantin A. Rumyantsev et al.   Scientific Reports

Ultrafast excited-state dynamics and fluorescence deactivation of near-infrared fluorescent proteins engineered from bacteriophytochromes

(2015) Jingyi Zhu et al.   Scientific Reports

A biliverdin-binding cyanobacteriochrome from the chlorophyll d–bearing cyanobacterium Acaryochloris marina

(2015) Rei Narikawa et al.   Scientific Reports

Multiparametric Flow Cytometry Using Near-Infrared Fluorescent Proteins Engineered from Bacterial Phytochromes

(2015) William G. Telford et al.   PLoS One

A New Type of Dual-Cys Cyanobacteriochrome GAF Domain Found in Cyanobacterium Acaryochloris marina, Which Has an Unusual Red/Blue Reversible Photoconversion Cycle

(2014) Rei Narikawa et al.   BIOCHEMISTRY

Conserved Phenylalanine Residues Are Required for Blue-Shifting of Cyanobacteriochrome Photoproducts

(2014) Nathan C. Rockwell et al.   BIOCHEMISTRY

A roadmap to directed enzyme evolution and screening systems for biotechnological applications

(2014) Ronny Martínez et al.   BIOLOGICAL RESEARCH

In Vivo image Analysis Using iRFP Transgenic Mice

(2014) Mai Thi Nhu Tran et al.   EXPERIMENTAL ANIMALS

Origins of Fluorescence in Evolved Bacteriophytochromes

(2014) Shyamosree Bhattacharya et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Noninvasive near-infrared fluorescent protein-based imaging of tumor progression and metastases in deep organs and intraosseous tissues

(2014) Carine Jiguet-Jiglaire et al.   JOURNAL OF BIOMEDICAL OPTICS

Assessingin vitrostem-cell function and tracking engraftment of stem cells in ischaemic hearts by using novel iRFP gene labelling

(2014) Yingjie Wang et al.   JOURNAL OF CELLULAR AND MOLECULAR MEDICINE

A high-throughput biliverdin assay using infrared fluorescence

(2014) Aleš Berlec et al.   JOURNAL OF VETERINARY DIAGNOSTIC INVESTIGATION

Signal amplification and transduction in phytochrome photosensors

(2014) Heikki Takala et al.   NATURE

Photoconversion changes bilin chromophore conjugation and protein secondary structure in the violet/orange cyanobacteriochrome NpF2163g3

(2014) Sunghyuk Lim et al.   PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES

Orange fluorescent proteins constructed from cyanobacteriochromes chromophorylated with phycoerythrobilin

(2014) Ya-Fang Sun et al.   PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES

Phytochromes: An Atomic Perspective on Photoactivation and Signaling

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

iRFP Is a Real Time Marker for Transformation Based Assays in High Content Screening

(2014) Viola Paulus-Hock et al.   PLoS One

An improved monomeric infrared fluorescent protein for neuronal and tumour brain imaging

(2014) Dan Yu et al.   Nature Communications

In Vivo Lymphatic Imaging of a Human Inflammatory Breast Cancer Model

(2014) Germaine D. Agollah et al.   Journal of Cancer

The structure of allophycocyanin B fromSynechocystisPCC 6803 reveals the structural basis for the extreme redshift of the terminal emitter in phycobilisomes

(2014) Pan-Pan Peng et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Photoconversion Mechanism of the Second GAF Domain of Cyanobacteriochrome AnPixJ and the Cofactor Structure of Its Green-Absorbing State

(2013) Francisco Velazquez Escobar et al.   BIOCHEMISTRY

Engineering of bacterial phytochromes for near-infrared imaging, sensing, and light-control in mammals

(2013) Kiryl D. Piatkevich et al.   CHEMICAL SOCIETY REVIEWS

Dynamic Structural Changes Underpin Photoconversion of a Blue/Green Cyanobacteriochrome between Its Dark and Photoactivated States

(2013) Claudia C. Cornilescu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Tumor Margin Detection Using Quantitative NIRF Molecular Imaging Targeting EpCAM Validated by Far Red Gene Reporter iRFP

(2013) Banghe Zhu et al.   MOLECULAR IMAGING AND BIOLOGY

Near-infrared fluorescent proteins for multicolor in vivo imaging

(2013) Daria M Shcherbakova et al.   NATURE METHODS

Green/red cyanobacteriochromes regulate complementary chromatic acclimation via a protochromic photocycle

(2013) Y. Hirose et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Far-red light photoactivatable near-infrared fluorescent proteins engineered from a bacterial phytochrome

(2013) Kiryl D. Piatkevich et al.   Nature Communications

Engineering of a green-light inducible gene expression system inSynechocystissp. PCC6803

(2013) Koichi Abe et al.   Microbial Biotechnology

Red Fluorescent Proteins: Advanced Imaging Applications and Future Design

(2012) Daria M. Shcherbakova et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Mechanistic Insight into the Photosensory Versatility of DXCF Cyanobacteriochromes

(2012) Nathan C. Rockwell et al.   BIOCHEMISTRY

Red/Green Cyanobacteriochromes: Sensors of Color and Power

(2012) Nathan C. Rockwell et al.   BIOCHEMISTRY

Phycoviolobilin Formation and Spectral Tuning in the DXCF Cyanobacteriochrome Subfamily

(2012) Nathan C. Rockwell et al.   BIOCHEMISTRY

The Human Biliverdin Reductase-based Peptide Fragments and Biliverdin Regulate Protein Kinase Cδ Activity

(2012) Tihomir Miralem et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structures of cyanobacteriochromes from phototaxis regulators AnPixJ and TePixJ reveal general and specific photoconversion mechanism

(2012) R. Narikawa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structure of a Bacteriophytochrome and Light-Stimulated Protomer Swapping with a Gene Repressor

(2012) Dom Bellini et al.   STRUCTURE

A Photo-Labile Thioether Linkage to Phycoviolobilin Provides the Foundation for the Blue/Green Photocycles in DXCF-Cyanobacteriochromes

(2012) E. Sethe Burgie et al.   STRUCTURE

Detection of Mercury Ion by Infrared Fluorescent Protein and Its Hydrogel-Based Paper Assay

(2011) Zhen Gu et al.   ANALYTICAL CHEMISTRY

Deep-Tissue Photoacoustic Tomography of a Genetically Encoded Near-Infrared Fluorescent Probe

(2011) Grigory S. Filonov et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

The Cyanobacteriochrome, TePixJ, Isomerizes Its Own Chromophore by Converting Phycocyanobilin to Phycoviolobilin

(2011) Takami Ishizuka et al.   BIOCHEMISTRY

Structure-guided Engineering Enhances a Phytochrome-based Infrared Fluorescent Protein

(2011) Michele E. Auldridge et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Emerging Perspectives on the Mechanisms, Regulation, and Distribution of Light Color Acclimation in Cyanobacteria

(2011) Andrian Gutu et al.   Molecular Plant

Bright and stable near-infrared fluorescent protein for in vivo imaging

(2011) Grigory S Filonov et al.   NATURE BIOTECHNOLOGY

An infrared fluorescent protein for deeper imaging

(2011) Jérôme Lecoq et al.   NATURE BIOTECHNOLOGY

Two-photon absorption properties of fluorescent proteins

(2011) Mikhail Drobizhev et al.   NATURE METHODS

Fluorescence quantum yield and photochemistry of bacteriophytochrome constructs

(2011) K. C. Toh et al.   PHYSICAL CHEMISTRY CHEMICAL PHYSICS

Novel Photosensory Two-Component System (PixA–NixB–NixC) Involved in the Regulation of Positive and Negative Phototaxis of Cyanobacterium Synechocystis sp. PCC 6803

(2011) Rei Narikawa et al.   PLANT AND CELL PHYSIOLOGY

Diverse two-cysteine photocycles in phytochromes and cyanobacteriochromes

(2011) N. C. Rockwell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phytochrome signaling mechanisms and the control of plant development

(2011) Meng Chen et al.   TRENDS IN CELL BIOLOGY

Fused-Gene Approach to Photoswitchable and Fluorescent Biliproteins

(2010) Juan Zhang et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Structure and Function of Plant Photoreceptors

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

Biosynthesis of Cyanobacterial Phycobiliproteins in Escherichia coli: Chromophorylation Efficiency and Specificity of All Bilin Lyases from Synechococcus sp. Strain PCC 7002

(2010) A. Biswas et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A Brief History of Phytochromes

(2010) Nathan C. Rockwell et al.   CHEMPHYSCHEM

Fluorescence of Phytochrome Adducts with Synthetic Locked Chromophores

(2010) Benjamin Zienicke et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Multichromatic Control of Gene Expression in Escherichia coli

(2010) Jeffrey J. Tabor et al.   JOURNAL OF MOLECULAR BIOLOGY

Proton-transfer and hydrogen-bond interactions determine fluorescence quantum yield and photochemical efficiency of bacteriophytochrome

(2010) K. C. Toh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cyanobacteriochrome CcaS regulates phycoerythrin accumulation in Nostoc punctiforme, a group II chromatic adapter

(2010) Y. Hirose et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cell Surface Biliverdin Reductase Mediates Biliverdin-induced Anti-inflammatory Effects via Phosphatidylinositol 3-Kinase and Akt

(2009) Barbara Wegiel et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Mammalian Expression of Infrared Fluorescent Proteins Engineered from a Bacterial Phytochrome

(2009) X. Shu et al.   SCIENCE

Structure and Signaling Mechanism of Per-ARNT-Sim Domains

(2009) Andreas Möglich et al.   STRUCTURE

A Second Conserved GAF Domain Cysteine Is Required for the Blue/Green Photoreversibility of Cyanobacteriochrome Tlr0924 fromThermosynechococcus elongatus†

(2008) Nathan C. Rockwell et al.   BIOCHEMISTRY

Mutational Analysis ofDeinococcus radioduransBacteriophytochrome Reveals Key Amino Acids Necessary for the Photochromicity and Proton Exchange Cycle of Phytochromes

(2008) Jeremiah R. Wagner et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Novel Photoactive GAF Domain of Cyanobacteriochrome AnPixJ That Shows Reversible Green/Red Photoconversion

(2008) Rei Narikawa et al.   JOURNAL OF MOLECULAR BIOLOGY

Biliprotein maturation: the chromophore attachment

(2008) H. Scheer et al.   MOLECULAR MICROBIOLOGY

Characterization of the photoactive GAF domain of the CikA homolog (SyCikA, Slr1969) of the cyanobacterium Synechocystis sp. PCC 6803

(2008) Rei Narikawa et al.   PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES

Cyanobacteriochromes: a new superfamily of tetrapyrrole-binding photoreceptors in cyanobacteria

(2008) Masahiko Ikeuchi et al.   PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES

Bacteriophytochromes in anoxygenic photosynthetic bacteria

(2008) Eric Giraud et al.   PHOTOSYNTHESIS RESEARCH

Cyanobacteriochrome CcaS is the green light receptor that induces the expression of phycobilisome linker protein

(2008) Y. Hirose et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA