Stephen L. Johnson
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View article: Proton Pachinko: Probing Excited‐State Intramolecular Proton Transfer of St. John's Wort‐Derived Fluorescent Photosensitizer Hypericin with Ultrafast Spectroscopy**
Proton Pachinko: Probing Excited‐State Intramolecular Proton Transfer of St. John's Wort‐Derived Fluorescent Photosensitizer Hypericin with Ultrafast Spectroscopy** Open
Hypericin from St. John's wort has been used as a potent photosensitizer, but its working mechanism remains elusive which hinders its rational design for improved functionality. We implement ultrafast spectroscopy and quantum calculations …
View article: Probing transport energies and defect states in organic semiconductors using energy resolved electrochemical impedance spectroscopy
Probing transport energies and defect states in organic semiconductors using energy resolved electrochemical impedance spectroscopy Open
Determining the relative energies of transport states in organic semiconductors is critical to understanding the properties of electronic devices and in designing device stacks. Futhermore, defect states are also highly important and can g…
View article: Epigenetic dynamics shaping melanophore and iridophore cell fate in zebrafish
Epigenetic dynamics shaping melanophore and iridophore cell fate in zebrafish Open
Background Zebrafish pigment cell differentiation provides an attractive model for studying cell fate progression as a neural crest progenitor engenders diverse cell types, including two morphologically distinct pigment cells: black melano…
View article: Novel regulators of growth identified in the evolution of fin proportion in flying fish
Novel regulators of growth identified in the evolution of fin proportion in flying fish Open
Identifying the genetic foundations of trait variation and evolution is challenging as it is often difficult to parse meaningful signals from confounding signatures such as drift and epistasis. However, identification of the genetic loci u…
View article: Additional file 2 of Epigenetic dynamics shaping melanophore and iridophore cell fate in zebrafish
Additional file 2 of Epigenetic dynamics shaping melanophore and iridophore cell fate in zebrafish Open
Additional file 2: Table S1-S8
View article: ALDH2 Mediates 5-Nitrofuran Activity in Multiple Species
ALDH2 Mediates 5-Nitrofuran Activity in Multiple Species Open
(Chemistry & Biology 19, 883–892; July 27, 2012) In the originally published version of this article, the No probe control figure panels were inadvertently generated from the Pr-FN control figure panels. The revised Figure 5A appears below…
View article: Cellular diversity of the regenerating caudal fin
Cellular diversity of the regenerating caudal fin Open
A single-cell atlas defines cell type composition and cell state transitions in zebrafish caudal fin regeneration.
View article: Regenerating zebrafish fin epigenome is characterized by stable lineage-specific DNA methylation and dynamic chromatin accessibility
Regenerating zebrafish fin epigenome is characterized by stable lineage-specific DNA methylation and dynamic chromatin accessibility Open
Background Zebrafish can faithfully regenerate injured fins through the formation of a blastema, a mass of proliferative cells that can grow and develop into the lost body part. After amputation, various cell types contribute to blastema f…
View article: Additional file 4 of Regenerating zebrafish fin epigenome is characterized by stable lineage-specific DNA methylation and dynamic chromatin accessibility
Additional file 4 of Regenerating zebrafish fin epigenome is characterized by stable lineage-specific DNA methylation and dynamic chromatin accessibility Open
Table S3. Differentially accessible regions during fin regeneration. a DARs with increasing signals in sp7+ cells during fin regeneration. b DARs with decreasing signals in sp7+ cells during fin regeneration. c DARs with increasing signals…
View article: Additional file 3 of Regenerating zebrafish fin epigenome is characterized by stable lineage-specific DNA methylation and dynamic chromatin accessibility
Additional file 3 of Regenerating zebrafish fin epigenome is characterized by stable lineage-specific DNA methylation and dynamic chromatin accessibility Open
Table S2. Differentially expressed genes during fin regeneration. a Upregulated genes in sp7+ cells during fin regeneration. b Downregulated genes in sp7+ cells during fin regeneration. c Upregulated genes in sp7− cells during fin regenera…
View article: GABA‐A receptor and mitochondrial TSPO signaling act in parallel to regulate melanocyte stem cell quiescence in larval zebrafish
GABA‐A receptor and mitochondrial TSPO signaling act in parallel to regulate melanocyte stem cell quiescence in larval zebrafish Open
Tissue regeneration and homeostasis often require recruitment of undifferentiated precursors (adult stem cells; ASCs). While many ASCs continuously proliferate throughout the lifetime of an organism, others are recruited from a quiescent s…
View article: Maintenance of Melanocyte Stem Cell Quiescence by GABA-A Signaling in Larval Zebrafish
Maintenance of Melanocyte Stem Cell Quiescence by GABA-A Signaling in Larval Zebrafish Open
In larval zebrafish, melanocyte stem cells (MSCs) are quiescent, but can be recruited to regenerate the larval pigment pattern following melanocyte ablation. Through pharmacological experiments, we found that inhibition of γ-aminobutyric a…
View article: GABA-A signaling maintains melanocyte stem cell quiescence in larval zebrafish
GABA-A signaling maintains melanocyte stem cell quiescence in larval zebrafish Open
Adult stem cells (ASCs) contribute to long-term homeostasis and regeneration of many adult tissues. Some ASCs proliferate continuously, others remain quiescent awaiting activation. To identify pathways that regulate ASC quiescence and tiss…
View article: Trace Phosphate Improves ZIC-pHILIC Peak Shape, Sensitivity, and Coverage for Untargeted Metabolomics
Trace Phosphate Improves ZIC-pHILIC Peak Shape, Sensitivity, and Coverage for Untargeted Metabolomics Open
Existing hydrophilic interaction liquid chromatography (HILIC) methods, considered individually, each exhibit poor chromatographic performance for a substantial fraction of polar metabolites. In addition to limiting metabolome coverage, su…
View article: Bioelectric-calcineurin signaling module regulates allometric growth and size of the zebrafish fin
Bioelectric-calcineurin signaling module regulates allometric growth and size of the zebrafish fin Open
The establishment of relative size of organs and structures is paramount for attaining final form and function of an organism. Importantly, variation in the proportions of structures frequently underlies adaptive change in morphology in ev…
View article: Dynein/dynactin is necessary for anterograde transport of <i>Mbp</i> mRNA in oligodendrocytes and for myelination in vivo
Dynein/dynactin is necessary for anterograde transport of <i>Mbp</i> mRNA in oligodendrocytes and for myelination in vivo Open
Significance Oligodendrocytes in the brain insulate neuronal axons in layers of fatty myelin to facilitate fast electrical signaling. Myelin basic protein (MBP), an important myelin component, is transported as mRNA away from the cell body…
View article: Whole Genome Sequencing-Based Mapping and Candidate Identification of Mutations from Fixed Zebrafish Tissue
Whole Genome Sequencing-Based Mapping and Candidate Identification of Mutations from Fixed Zebrafish Tissue Open
As forward genetic screens in zebrafish become more common, the number of mutants that cannot be identified by gross morphology or through transgenic approaches, such as many nervous system defects, has also increased. Screening for these …
View article: Cx43 suppresses <i>evx1</i> expression to regulate joint initiation in the regenerating fin
Cx43 suppresses <i>evx1</i> expression to regulate joint initiation in the regenerating fin Open
Background : How joints are correctly positioned in the vertebrate skeleton remains poorly understood. From our studies on the regenerating fin, we have evidence that the gap junction protein Cx43 suppresses joint formation by suppressing …
View article: Three-Dimensional Printed Fish Graders: A Tool to Rapidly and Reliably Size Select Zebrafish
Three-Dimensional Printed Fish Graders: A Tool to Rapidly and Reliably Size Select Zebrafish Open
Research into adult zebrafish often requires fish to be of a specific size. Currently, fish must be individually measured to achieve this goal. Here, we design and utilize fish graders to quickly sort fish by width. We characterize graders…
View article: Bar Coding MS<sup>2</sup> Spectra for Metabolite Identification
Bar Coding MS<sup>2</sup> Spectra for Metabolite Identification Open
Metabolite identifications are most frequently achieved in untargeted metabolomics by matching precursor mass and full, high-resolution MS(2) spectra to metabolite databases and standards. Here we considered an alternative approach for est…