Yi Wu, PhDAssociate Professor, Genetics and Genome Sciences
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Degree | Institution | Major |
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PhD | Northwestern University | Cell Biology |
Post-Graduate Training
Training | Institution | Specialty |
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Postdoctoral | University of North Carolina |
Awards
Name of Award/Honor | Awarding Organization |
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AHA Postdoctoral Fellowship | American Heart Association |
Name & Description | Category | Role | Type | Scope | Start Year | End Year |
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Graduate Admissions Committee | Education Committee | Member | University | 2019 | 2020 | |
Advisory Committee for Imaging Facility | Advisory Committee | Member | University | 2019 | 2020 | |
Graduate Admissions Committee | Education Committee | Chair | University | 2018 | 2019 | |
Graduate Admissions Committee | Education Committee | Member | University | 2016 | 2017 |
Research of our laboratory focuses on developing quantitative imaging tools that are capable of revealing dynamics of cellular signaling at high spatial and temporal resolution (biosensors), or that enable optical control of signaling proteins at precise times and subcellular locations (optogenetics). These tools are being applied in live cell microscopy to understand the signaling networks that govern polarity and motility of epithelial cells, axon guidance and development of dendritic spines in neurons.Biosensors Our current studies employ structural design strategies and technologies of fluorescent proteins to design FRET-based, activity reporters for signaling proteins with high specificity, fast kinetics, minimal perturbation, and superior dynamic range. Multiple live cell imaging modalities are being used in the lab including TIRF, confocal, intensity-based ratiometric imaging, and fluorescence lifetime microscopy (FLIM). We are also interested in developing methods of analysis and modeling to quantitatively extract and process biosensor data for a better understanding of signalingOptogenetics Optogenetics has become one of the most exciting areas of research for its promise of enabling biologists to exert precise control of signaling in living systems. The core of optogenetics relies on both development of new optical manipulation technologies and molecular engineering at the genetic level using natural photosensory proteins. We are interested in exploring the use of the flavin-binding LOV (light-oxygen-voltage) domain from the plant photoreceptor phototropin. Upon light illumination, the LOV domain undergoes conformational changes including dissociation and unwinding of a C-terminal helical extension. Tethering the LOV domain to the N-terminus of a constitutively-active mutant of Rac, a member of the Rho family of small G proteins, can sterically block the interactions of Rac with its downstream effectors in the dark and restore its binding upon blue light illumination. This produced a genetically-encoded photoactivatable analog of Rac (PA-Rac) that enables precise modulation of Rac activity at regions that are submicrons in size and capable of controlling activation with microseconds precision in living cells. Current projects in the lab focus on extending such technology to other signaling proteins.
Accepting Lab Rotation Students: Fall Block 2024, Spring 1 and 2 Block 2025
Current active projects in the lab include the following.
1) Receptor tyrosine kinase (RTK) signaling in primary cilia.
2) Insulin receptor signaling in pancreatic beta cells and diabetes.
3) Role of small G proteins in regulated secretion in neurons and neuroendocrine cells.
4) Mechanotransduction and gene regulation in breast cancer.
5) Super-resolution imaging in 3D using light sheet microscopy.
6) Technology development in biosensors and optogenetics.
Students are welcome regardless their research background and can join the lab for the purpose of learning a technique.
Journal Articles
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Metabolic and transcriptional activities underlie stationary-phase Pseudomonas aeruginosa sensitivity to Levofloxacin.
Microbiology spectrum 2023 Dec;e0356723
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Persistent growth of microtubules at low density.
Molecular biology of the cell 2021 Mar;32(5):435-445
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Role of glutamine synthetase in angiogenesis beyond glutamine synthesis.
Nature 2018 Sep;561(7721):63-69
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The C-terminus of the oncoprotein TGAT is necessary for plasma membrane association and efficient RhoA-mediated signaling.
BMC cell biology 2018 Jun;19(1):6
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Role of membrane-tension gated Ca2+flux in cell mechanosensation.
Journal of cell science 2018 Feb;131(4):
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Neurodevelopmental disease-associated de novo mutations and rare sequence variants affect TRIO GDP/GTP exchange factor activity.
Human molecular genetics 2017 Dec;26(23):4728-4740
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Optogenetic activation of EphB2 receptor in dendrites induced actin polymerization by activating Arg kinase.
Biology open 2017 Nov;61820-1830
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The balance between Gαi-Cdc42/Rac and Gα12/13-RhoA pathways determines endothelial barrier regulation by Sphingosine-1-Phosphate.
Molecular biology of the cell 2017 Sep;283371-3382
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Optogenetic activation of Plexin-B1 reveals contact repulsion between osteoclasts and osteoblasts.
Nature communications 2017 Jun;815831
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Brain Region and Isoform-Specific Phosphorylation Alters Kalirin SH2 Domain Interaction Sites and Calpain Sensitivity.
ACS chemical neuroscience 2017 Apr;81554-1569
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Phosphorylated cortactin recruits Vav2 guanine nucleotide exchange factor to activate Rac3 and promote invadopodial function in invasive breast cancer cells.
Molecular biology of the cell 2017 Mar;281347-1360
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Kinetics of recruitment and allosteric activation of ARHGEF25 isoforms by the heterotrimeric G-protein Gαq.
Scientific reports 2016 Nov;636825
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Alternate promoter usage generates two subpopulations of the neuronal RhoGEF Kalirin-7.
Journal of neurochemistry 2016 Jul;140889-902
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Rapid remodeling of invadosomes by Gi-coupled receptors: dissecting the role of Rho GTPases.
The Journal of biological chemistry 2016 Jan;2914323-33
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F-actin-rich contractile endothelial pores prevent vascular leakage during leukocyte diapedesis through local RhoA signalling.
Nature communications 2016 Jan;710493
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Spatiotemporal analysis of RhoA/B/C activation in primary human endothelial cells.
Scientific reports 2016 Jan;625502
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Integration of Linear and Dendritic Actin Nucleation in Nck-Induced Actin Comets.
Molecular biology of the cell 2015 Nov;27247-59
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Labelling and optical erasure of synaptic memory traces in the motor cortex.
Nature 2015 Sep;525(7569):333-8
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A local VE-cadherin and Trio-based signaling complex stabilizes endothelial junctions through Rac1.
Journal of cell science 2015 Jun;128(16):3041-54
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Single-molecule tracking of small GTPase Rac1 uncovers spatial regulation of membrane translocation and mechanism for polarized signaling.
Proceedings of the National Academy of Sciences of the United States of America 2015 Jan;112(3):E267-76
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Interplay between chemotaxis and contact inhibition of locomotion determines exploratory cell migration.
Nature communications 2015 Jan;66619
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Optogenetics: optical control of a photoactivatable Rac in living cells.
Methods in molecular biology (Clifton, N.J.) 2015 Jan;1251277-89
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Plasma membrane restricted RhoGEF activity is sufficient for RhoA-mediated actin polymerization.
Scientific reports 2015 Jan;514693
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Phosphorylation of Dok1 by Abl family kinases inhibits CrkI transforming activity.
Oncogene 2014 Jul;34(20):2650-9
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Identification of novel integrin binding partners for calcium and integrin binding protein 1 (CIB1): structural and thermodynamic basis of CIB1 promiscuity.
Biochemistry 2013 Oct;52(40):7082-90
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Guiding lights: recent developments in optogenetic control of biochemical signals.
Pflügers Archiv : European journal of physiology 2013 Mar;465(3):397-408
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External push and internal pull forces recruit curvature-sensing N-BAR domain proteins to the plasma membrane.
Nature cell biology 2012 Aug;14(8):874-81
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Redesign of the PAK1 autoinhibitory domain for enhanced stability and affinity in biosensor applications.
Journal of molecular biology 2011 Oct;413(2):513-22
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Vimentin organization modulates the formation of lamellipodia.
Molecular biology of the cell 2011 Apr;22(8):1274-89
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Spatiotemporal control of small GTPases with light using the LOV domain.
Methods in enzymology 2011 Jan;497393-407
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Light-mediated activation reveals a key role for Rac in collective guidance of cell movement in vivo.
Nature cell biology 2010 Jun;12(6):591-7
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Differential regulation of protrusion and polarity by PI3K during neutrophil motility in live zebrafish.
Developmental cell 2010 Feb;18(2):226-36
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A genetically encoded photoactivatable Rac controls the motility of living cells.
Nature 2009 Sep;461(7260):104-8
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Modulation of the membrane type 1 matrix metalloproteinase cytoplasmic tail enhances tumor cell invasion and proliferation in three-dimensional collagen matrices.
The Journal of biological chemistry 2009 Jul;284(30):19791-9
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Activation-coupled membrane-type 1 matrix metalloproteinase membrane trafficking.
The Biochemical journal 2007 Oct;407(2):171-7
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Multi-step pericellular proteolysis controls the transition from individual to collective cancer cell invasion.
Nature cell biology 2007 Aug;9(8):893-904
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Differential regulation of membrane type 1-matrix metalloproteinase activity by ERK 1/2- and p38 MAPK-modulated tissue inhibitor of metalloproteinases 2 expression controls transforming growth factor-beta1-induced pericellular collagenolysis.
The Journal of biological chemistry 2004 Sep;279(37):39042-50
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Membrane protease proteomics: Isotope-coded affinity tag MS identification of undescribed MT1-matrix metalloproteinase substrates.
Proceedings of the National Academy of Sciences of the United States of America 2004 May;101(18):6917-22
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Glycosylation broadens the substrate profile of membrane type 1 matrix metalloproteinase.
The Journal of biological chemistry 2004 Feb;279(9):8278-89
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Calcium regulation of matrix metalloproteinase-mediated migration in oral squamous cell carcinoma cells.
The Journal of biological chemistry 2002 Nov;277(44):41480-8
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Collagen binding properties of the membrane type-1 matrix metalloproteinase (MT1-MMP) hemopexin C domain. The ectodomain of the 44-kDa autocatalytic product of MT1-MMP inhibits cell invasion by disrupting native type I collagen cleavage.
The Journal of biological chemistry 2002 Oct;277(41):39005-14
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Proteinase suppression by E-cadherin-mediated cell-cell attachment in premalignant oral keratinocytes.
The Journal of biological chemistry 2002 Oct;277(41):38159-67
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Functional interplay between type I collagen and cell surface matrix metalloproteinase activity.
The Journal of biological chemistry 2001 Jul;276(27):24833-42
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Type I collagen stabilization of matrix metalloproteinase-2.
Archives of biochemistry and biophysics 2001 Jun;390(1):51-6
Editorials
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Editorial: Cell polarity in a complex environment.
Frontiers in cell and developmental biology 2023 Jan;111329874
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Editorial: Establishing and Maintaining Cell Polarity.
Frontiers in cell and developmental biology 2021 Jan;9722003
Title or Abstract | Type | Sponsor/Event | Date/Year | Location |
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Relearn the signaling circuit of a living cell | Lecture | 2019 | University of Notre Dame | |
Optogenetics | Talk | Johns Hopkins Center for Cell Dynamics | 2012 | Johns Hopkins University |
Interrogating cellular signaling with biosensors and photoactivatable proteins | Talk | NIH/NIGMS National Center for Systems Biology | 2011 | Univ of New Mexico |
Controlling the signaling Dynamics of Rho GTPases and Cell Motility using Genetically Encoded Photoactivatable Proteins | Talk | High-Content Analysis | 2010 | San Francisco |
Interrogating cell signaling with biosensors and photoactivatable proteins | Talk | 7th Annual Science@theInterface Symposium | 2010 | University of Chicago |