Full Text Journal Articles by
Author Daniel J Dickinson

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Highly improved cloning efficiency for plasmid-based CRISPR knock-in in C. elegans.

Ella DeMott, Daniel J Dickinson, Ryan Doonan,

Plasmid-based CRISPR knock-in is a streamlined, scalable, and versatile approach for generating fluorescent protein tags in <i>C. elegans</i> (Dickinson <i>et al</i>. 2015; Schwartz and Jorgensen 2016). However, compared to more recent protocols that utilize commercially available Cas9/RNP products and linear DNA repair templates (Dokshin <i>et al</i>. 2018; Ghanta and Mello ... Read more >>

MicroPubl Biol (microPublication biology)
[2021, 2021:]

Cited: 0 times

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Improved CRISPR/Cas9 knock-in efficiency via the self-excising cassette (SEC) selection method in C. elegans.

George Huang, Bailey de Jesus, Alex Koh, Sara Blanco, Aubrie Rettmann, Ella DeMott, Melynda Sylvester, Cassie Ren, Carrie Meng, Skye Waterland, Anita Rhodes, Persephone Alicea, Abbey Flynn, Daniel J Dickinson, Ryan Doonan,

Streamlined, selection-based CRISPR knock-in protocols for <i>C. elegans</i> were first introduced six years ago (Dickinson <i>et al</i>. 2015; Schwartz and Jorgensen 2016). Though these selection-based approaches are powerful, one drawback has been the requirement to inject large numbers of P0 worms (~30-60 per gene target). We have found that a ... Read more >>

MicroPubl Biol (microPublication biology)
[2021, 2021:]

Cited: 3 times

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Rapid extraction and kinetic analysis of protein complexes from single cells.

Sena Sarıkaya, Daniel J Dickinson,

Proteins contribute to cell biology by forming dynamic, regulated interactions, and measuring these interactions is a foundational approach in biochemistry. We present a rapid, quantitative in vivo assay for protein-protein interactions, based on optical cell lysis followed by time-resolved single-molecule analysis of protein complex binding to an antibody-coated substrate. We show ... Read more >>

Biophys J (Biophysical journal)
[2021, 120(22):5018-5031]

Cited: 0 times

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An expanded auxin-inducible degron toolkit for Caenorhabditis elegans.

Guinevere E Ashley, Tam Duong, Max T Levenson, Michael A Q Martinez, Londen C Johnson, Jonathan D Hibshman, Hannah N Saeger, Nicholas J Palmisano, Ryan Doonan, Raquel Martinez-Mendez, Brittany R Davidson, Wan Zhang, James Matthew Ragle, Taylor N Medwig-Kinney, Sydney S Sirota, Bob Goldstein, David Q Matus, Daniel J Dickinson, David J Reiner, Jordan D Ward,

The auxin-inducible degron (AID) system has emerged as a powerful tool to conditionally deplete proteins in a range of organisms and cell types. Here, we describe a toolkit to augment the use of the AID system in Caenorhabditis elegans. We have generated a set of single-copy, tissue-specific (germline, intestine, neuron, ... Read more >>

Genetics (Genetics)
[2021, 217(3):]

Cited: 7 times

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Tissue Morphogenesis: A Cellular View of Adhesion-Dependent Cell Sorting.

Daniel J Dickinson,

Cells from different germ layers - endoderm, mesoderm and ectoderm - can spontaneously segregate within a cell aggregate, and differential cell-cell adhesion has been proposed to explain this behavior. New observations at subcellular resolution suggest a more nuanced view. ... Read more >>

Curr Biol (Current biology : CB)
[2020, 30(19):R1071-R1073]

Cited: 0 times

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Optogenetic dissection of mitotic spindle positioning in vivo.

Lars-Eric Fielmich, Ruben Schmidt, Daniel J Dickinson, Bob Goldstein, Anna Akhmanova, Sander van den Heuvel,

The position of the mitotic spindle determines the plane of cell cleavage, and thereby daughter cell location, size, and content. Spindle positioning is driven by dynein-mediated pulling forces exerted on astral microtubules, which requires an evolutionarily conserved complex of Gα∙GDP, GPR-1/2<sup>Pins/LGN</sup>, and LIN-5<sup>Mud/NuMA</sup> proteins. To examine individual functions of the ... Read more >>

Elife (eLife)
[2018, 7:]

Cited: 22 times

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Ras-Dependent Cell Fate Decisions Are Reinforced by the RAP-1 Small GTPase in Caenorhabditis elegans.

Neal R Rasmussen, Daniel J Dickinson, David J Reiner,

The notoriety of the small GTPase Ras as the most mutated oncoprotein has led to a well-characterized signaling network largely conserved across metazoans. Yet the role of its close relative Rap1 (Ras Proximal), which shares 100% identity between their core effector binding sequences, remains unclear. A long-standing controversy in the ... Read more >>

Genetics (Genetics)
[2018, 210(4):1339-1354]

Cited: 6 times

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Light-Dependent Cytoplasmic Recruitment Enhances the Dynamic Range of a Nuclear Import Photoswitch.

Hayretin Yumerefendi, Hui Wang, Daniel J Dickinson, Andrew M Lerner, Per Malkus, Bob Goldstein, Klaus Hahn, Brian Kuhlman,

Cellular signal transduction is often regulated at multiple steps to achieve more complex logic or precise control of a pathway. For instance, some signaling mechanisms couple allosteric activation with localization to achieve high signal to noise. Here, we create a system for light-activated nuclear import that incorporates two levels of ... Read more >>

Chembiochem (Chembiochem : a European journal of chemical biology)
[2018, 19(12):1319-1325]

Cited: 8 times

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A CRISPR Tagging-Based Screen Reveals Localized Players in Wnt-Directed Asymmetric Cell Division.

Jennifer K Heppert, Ariel M Pani, Allyson M Roberts, Daniel J Dickinson, Bob Goldstein,

Oriented cell divisions are critical to establish and maintain cell fates and tissue organization. Diverse extracellular and intracellular cues have been shown to provide spatial information for mitotic spindle positioning; however, the molecular mechanisms by which extracellular signals communicate with cells to direct mitotic spindle positioning are largely unknown. In ... Read more >>

Genetics (Genetics)
[2018, 208(3):1147-1164]

Cited: 19 times

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Measuring Protein Binding to F-actin by Co-sedimentation.

Jonathon A Heier, Daniel J Dickinson, Adam V Kwiatkowski,

Filamentous actin (F-actin) organization within cells is regulated by a large number of actin-binding proteins that control actin nucleation, growth, cross-linking and/or disassembly. This protocol describes a technique - the actin co-sedimentation, or pelleting, assay - to determine whether a protein or protein domain binds F-actin and to measure the ... Read more >>

J Vis Exp (Journal of visualized experiments : JoVE)
[2017, (123):]

Cited: 4 times

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Comparative assessment of fluorescent proteins for in vivo imaging in an animal model system.

Jennifer K Heppert, Daniel J Dickinson, Ariel M Pani, Christopher D Higgins, Annette Steward, Julie Ahringer, Jeffrey R Kuhn, Bob Goldstein,

Fluorescent protein tags are fundamental tools used to visualize gene products and analyze their dynamics in vivo. Recent advances in genome editing have expedited the precise insertion of fluorescent protein tags into the genomes of diverse organisms. These advances expand the potential of in vivo imaging experiments and facilitate experimentation ... Read more >>

Mol Biol Cell (Molecular biology of the cell)
[2016, 27(22):3385-3394]

Cited: 42 times

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Identifying Regulators of Morphogenesis Common to Vertebrate Neural Tube Closure and Caenorhabditis elegans Gastrulation.

Jessica L Sullivan-Brown, Panna Tandon, Kim E Bird, Daniel J Dickinson, Sophia C Tintori, Jennifer K Heppert, Joy H Meserve, Kathryn P Trogden, Sara K Orlowski, Frank L Conlon, Bob Goldstein,

Neural tube defects including spina bifida are common and severe congenital disorders. In mice, mutations in more than 200 genes can result in neural tube defects. We hypothesized that this large gene set might include genes whose homologs contribute to morphogenesis in diverse animals. To test this hypothesis, we screened ... Read more >>

Genetics (Genetics)
[2016, 202(1):123-139]

Cited: 9 times

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CRISPR-Based Methods for Caenorhabditis elegans Genome Engineering.

Daniel J Dickinson, Bob Goldstein,

The advent of genome editing techniques based on the clustered regularly interspersed short palindromic repeats (CRISPR)-Cas9 system has revolutionized research in the biological sciences. CRISPR is quickly becoming an indispensible experimental tool for researchers using genetic model organisms, including the nematode Caenorhabditis elegans. Here, we provide an overview of CRISPR-based ... Read more >>

Genetics (Genetics)
[2016, 202(3):885-901]

Cited: 110 times

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Streamlined Genome Engineering with a Self-Excising Drug Selection Cassette.

Daniel J Dickinson, Ariel M Pani, Jennifer K Heppert, Christopher D Higgins, Bob Goldstein,

A central goal in the development of genome engineering technology is to reduce the time and labor required to produce custom genome modifications. Here we describe a new selection strategy for producing fluorescent protein (FP) knock-ins using CRISPR/Cas9-triggered homologous recombination. We have tested our approach in Caenorhabditis elegans. This approach ... Read more >>

Genetics (Genetics)
[2015, 200(4):1035-1049]

Cited: 223 times

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Control of Protein Activity and Cell Fate Specification via Light-Mediated Nuclear Translocation.

Hayretin Yumerefendi, Daniel J Dickinson, Hui Wang, Seth P Zimmerman, James E Bear, Bob Goldstein, Klaus Hahn, Brian Kuhlman,

Light-activatable proteins allow precise spatial and temporal control of biological processes in living cells and animals. Several approaches have been developed for controlling protein localization with light, including the conditional inhibition of a nuclear localization signal (NLS) with the Light Oxygen Voltage (AsLOV2) domain of phototropin 1 from Avena sativa. ... Read more >>

PLoS One (PloS one)
[2015, 10(6):e0128443]

Cited: 45 times

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Studying epithelial morphogenesis in Dictyostelium.

Daniel J Dickinson, W James Nelson, William I Weis,

The discovery of polarized epithelial tissue in the social amoeba Dictyostelium discoideum establishes this classical model organism as a novel system for the study of epithelial polarity and morphogenesis. D. discoideum grows as single cells and is easily maintained in cell culture. Starvation of the cells triggers a multicellular developmental ... Read more >>

Methods Mol Biol (Methods in molecular biology (Clifton, N.J.))
[2015, 1189:267-281]

Cited: 1 time

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Evolution and cell physiology. 3. Using Dictyostelium discoideum to investigate mechanisms of epithelial polarity.

William I Weis, W James Nelson, Daniel J Dickinson,

In Metazoa, a polarized epithelium forms a single-cell-layered barrier that separates the outside from the inside of the organism. In tubular epithelia, the apical side of the cell is constricted relative to the basal side, forming a wedge-shaped cell that can pack into a tube. Apical constriction is mediated by ... Read more >>

Am J Physiol Cell Physiol (American journal of physiology. Cell physiology)
[2013, 305(11):C1091-5]

Cited: 2 times

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α-catenin and IQGAP regulate myosin localization to control epithelial tube morphogenesis in Dictyostelium.

Daniel J Dickinson, Douglas N Robinson, W James Nelson, William I Weis,

Apical actomyosin activity in animal epithelial cells influences tissue morphology and drives morphogenetic movements during development. The molecular mechanisms leading to myosin II accumulation at the apical membrane and its exclusion from other membranes are poorly understood. We show that in the nonmetazoan Dictyostelium discoideum, myosin II localizes apically in ... Read more >>

Dev Cell (Developmental cell)
[2012, 23(3):533-546]

Cited: 15 times

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Engineering the Caenorhabditis elegans genome using Cas9-triggered homologous recombination.

Daniel J Dickinson, Jordan D Ward, David J Reiner, Bob Goldstein,

Study of the nematode Caenorhabditis elegans has provided important insights in a wide range of fields in biology. The ability to precisely modify genomes is critical to fully realize the utility of model organisms. Here we report a method to edit the C. elegans genome using the clustered, regularly interspersed, ... Read more >>

Nat Methods (Nature methods)
[2013, 10(10):1028-1034]

Cited: 450 times

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Roles of cadherins and catenins in cell-cell adhesion and epithelial cell polarity.

W James Nelson, Daniel J Dickinson, William I Weis,

A simple epithelium is the building block of all metazoans and a multicellular stage of a nonmetazoan. It comprises a closed monolayer of quiescent cells that surround a luminal space. Cells are held together by cell-cell adhesion complexes and surrounded by extracellular matrix. These extracellular contacts are required for the ... Read more >>

Prog Mol Biol Transl Sci (Progress in molecular biology and translational science)
[2013, 116:3-23]

Cited: 35 times

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An epithelial tissue in Dictyostelium challenges the traditional origin of metazoan multicellularity.

Daniel J Dickinson, W James Nelson, William I Weis,

We hypothesize that aspects of animal multicellularity originated before the divergence of metazoans from fungi and social amoebae. Polarized epithelial tissues are a defining feature of metazoans and contribute to the diversity of animal body plans. The recent finding of a polarized epithelium in the non-metazoan social amoeba Dictyostelium discoideum ... Read more >>

Bioessays (BioEssays : news and reviews in molecular, cellular and developmental biology)
[2012, 34(10):833-840]

Cited: 21 times

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Protein evolution in cell and tissue development: going beyond sequence and transcriptional analysis.

Daniel J Dickinson, William I Weis, W James Nelson,

Studies of animal evolution often focus on sequence and transcriptional analysis, based on an assumption that the evolution of development is driven by changes in gene expression. We argue that biochemical and cell biological approaches are also required, because sequence-conserved proteins can have different biochemical, cellular, and developmental properties. ... Read more >>

Dev Cell (Developmental cell)
[2011, 21(1):32-34]

Cited: 9 times

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A polarized epithelium organized by beta- and alpha-catenin predates cadherin and metazoan origins.

Daniel J Dickinson, W James Nelson, William I Weis,

A fundamental characteristic of metazoans is the formation of a simple, polarized epithelium. In higher animals, the structural integrity and functional polarization of simple epithelia require a cell-cell adhesion complex that contains a classical cadherin, the Wnt-signaling protein β-catenin and the actin-binding protein α-catenin. We show that the non-metazoan Dictyostelium ... Read more >>

Science (Science (New York, N.Y.))
[2011, 331(6022):1336-1339]

Cited: 74 times

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Current concepts for the combined treatment modality of ionizing radiation with anticancer agents.

Christoph Oehler, Daniel J Dickinson, Angela Broggini-Tenzer, Barbara Hofstetter, Andreas Hollenstein, Oliver Riesterer, Van Vuong, Martin Pruschy,

In current applied radiobiology, there exists a tremendous effort in basic and translational research to identify novel treatment modalities combining ionizing radiation with anticancer agents. This is mainly due to the highly improved molecular understanding of intrinsic radioresistance and the profiling of cellular stress responses to irradiation during recent years. ... Read more >>

Curr Pharm Des (Current pharmaceutical design)
[2007, 13(5):519-535]

Cited: 14 times

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