Gerst Lab —BIO-PROTOCOL

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About

Principal Investigator

Jeffrey E. Gerst
Ph.D.

Lab members

Camila Freze Baez

Sandipan Dasgupta

Daniella Ya-li Dayagi
M.S.c student

Gal Haimovich
Research scientist

Tamir Mittelman

Rohini R Nair
Faculty

Raman Singh

About Our Lab

Affiliation

Weizmann Institute of Science Rehovot

Research Interests

mRNA trafficking, Endosomal protein transport

Lab Home Page

Publications

Protein localization within the cell is a key determinant of whether cells establish sub-cellular domains necessary for different activities, confer the molecular interactions required for protein function, and create functional organelles. Yet, the mechanisms that determine protein localization at the intracellular level are not well understood and events that lead to the mislocalization of proteins can have dramatic consequences upon cell viability. Our lab studies the role of mRNA and protein transport in a variety of cellular processes, such as organelle biogenesis, polarized growth, and morphogenesis in simple organisms, such as yeast, and in mammalian cells.

Protocol Portfolio

Splitting cell culture

Author: Gal Haimovich, updated date: 04/01/2024, view: 8130, Q&A: 0

Tags: Cell Culture and Adherent cells

Calcium phosphate-mediated transfection into HEK 293T cells

Author: Gal Haimovich, updated date: 03/31/2024, view: 2597, Q&A: 0

Tags: Cell Culture, Transfection and HEK293T

Useful online tools for molecular biology/biochemistry

Author: Gal Haimovich, updated date: 03/31/2024, view: 803, Q&A: 0

Cloning sgRNA using BbsI

Author: Gal Haimovich, updated date: 03/31/2024, view: 2267, Q&A: 0

Tags: Cloning, CRISPR, Cas9, Cas13a and sgRNA

FISH probe labeling

Author: Gal Haimovich, updated date: 03/24/2024, view: 737, Q&A: 0

Tags: smFISH and oligo

Testing for mycoplasma in cell culture by PCR

Author: Sandipan Dasgupta, updated date: 03/24/2024, view: 774, Q&A: 0

Tags: PCR, Cell Culture, mycoplasma and Gel electrophoresis

Firefly luciferase assay

Author: Gal Haimovich, updated date: 03/21/2024, view: 1704, Q&A: 1

Tag: luciferase

smFISH-IF of adherent cells

Author: Gal Haimovich, updated date: 03/11/2024, view: 2225, Q&A: 0

Tags: Cell Culture, Protein, smFISH, Immunofluorescence, mRNA, Adherent cells and Mammalian cells

Dot blot for determininig biotinylation of 4-thiouridine RNA

Author: Gal Haimovich, updated date: 02/23/2024, view: 1098, Q&A: 0

Tags: RNA, Biotin-labeled RNA, Streptavidin and Dot blot

Immuno fluorescence on adherent cells

Author: Gal Haimovich, updated date: 02/21/2024, view: 454, Q&A: 0

Tags: IMMUNOFLUORESCENCE, IF and staining

Selected peer-reviewed publications

Haimovich G. and Jeffrey E. Gerst (2018) Single-molecule Fluorescence in situ Hybridization (smFISH) for RNA Detection in Adherent Animal Cells. Bio-protocol 8(21): e3070. DOI: 10.21769/BioProtoc.3070.

Jeffrey E. Gerst (2018). Pimp My Ribosome: Ribosomal Protein Paralogs Specify Translational Control. Trends Genet. 34(11):832-845. doi: 10.1016/j.tig.2018.08.004.

Osnat cohen-Zontag, Lisha Qiu Jin Lim, Dvir Dahary, Tsviya Olender, Yitzhak Pilpel, Jeffrey E. Gerst (2018). Identification of a secretion-enhancing cis regulatory targeting element (SECReTE) involved in mRNA localization and protein synthesis. bioRxiv DOI: https://doi.org/10.1101/303156

Haimovich, G. (2018). Plasmid Extract from Budding Yeast (Saccharomyces cerevisiae). Bio-protocol Bio101: e2931. DOI: 10.21769/BioProtoc.2931.

Rachel Kama; Galina Gabriely; Vydehi Kanneganti; Jeffrey E. Gerst (2018). Cdc48 and ubiquilins confer selective anterograde protein sorting and entry into the multivesicular body in yeast. Molecular Biology of the Cell. 29:(8)948-963.

Nadav Segev; Jeffrey E. Gerst (2018). Specialized ribosomes and specific ribosomal protein paralogs control translation of mitochondrial proteins. Journal of Cell Biology. 217:(1)117-126.

Gal Haimovich; Christopher M. Ecker; Margaret C. Dunagin; Elliott Eggan; Arjun Raj; Jeffrey E. Gerst; Robert H. Singer (2017). Intercellular mRNA trafficking via membrane nanotube-like extensions in mammalian cells. Proceedings Of The National Academy Of Sciences Of The United States Of America-Physical Sciences. 114:(46)E9873-E9882.

Dmitry Zabezhinsky; Hannah Sperber; Jeffrey Gerst (2017). Localizing mRNAs Encoding Mitochondrial Proteins in Yeast by Fluorescence Microscopy and Subcellular Fractionation. Mitochondria: Practical Protocols, 2nd Edition. 197-216.

Gal Haimovich, Osnat Cohen-Zontag, Jeffrey Gerst (2016). A role for mRNA trafficking and localized translation in peroxisome biogenesis and function. Biochimica et Biophysica Acta - Molecular Cell Research. 1863:(5)911-921.

Dmitry Zabezhinsky; Boris Slobodin; Doron Rapaport; Jeffrey Gerst (2016). An Essential Role for COPI in mRNA Localization to Mitochondria and Mitochondrial Function. Cell Reports. 15:(3)540-549.

D. Zabezhinsky; J. Gerst (2016). Yeast as a model for the study of RNA-binding proteins and their role in cell physiology. Molecular Biology of the Cell. 27.

Jeffrey Gerst; Gal Haimovich; D Zabezhinski; B. Haas; Boris Slobodin; Pravinkumar Purushothaman; L. Fan; J.Z. Levin; C Nusbaum (2016). Use of the MS2 aptamer and coat protein for RNA localization in yeast: A response to "MS2 coat proteins bound to yeast mRNAs block 5' to 3' degradation and trap mRNA decay products: implications for the localization of mRNAs by MS2-MCP system". RNA.12:(11)1886.

Niv Dobzinski; Silvia G. Chuartzman; Rachel Kama; Maya Schuldiner; Jeffrey Gerst (2015).Starvation-Dependent Regulation of Golgi Quality Control Links the TOR Signaling and Vacuolar Protein Sorting Pathways. Cell Reports. 12:(11)1876-1886.

Judith Kraut-Cohen; Evgenia Afanasieva; Liora Haim-Vilmovsky; Boris Slobodin; Ido Yosef; Eitan Bibi; Jeffrey Gerst (2013). Translation- and SRP-independent mRNA targeting to the endoplasmic reticulum in the yeast Saccharomyces cerevisiae. Molecular Biology of the Cell. 24:(19)3069-3084.

Rita Gelin-Licht; Saurabh Paliwal; Patrick Conlon; Andre Levchenko; Jeffrey Gerst (2012). Scp160-Dependent mRNA Trafficking Mediates Pheromone Gradient Sensing and Chemotropism in Yeast. Cell Reports. 1:(5)483-494.

Liora Haim-Vilmovsky; Noga Gadir; Rebecca H. Herbst; Jeffrey Gerst (2011). A genomic integration method for the simultaneous visualization of endogenous mRNAs and their translation products in living yeast. Rna-A Publication Of The Rna Society. 17:(12)2249-2255.

Rachel Kama; Vydehi Kanneganti; Christian Ungermann; Jeffrey Gerst (2011). The yeast Batten disease orthologue Btn1 controls endosome-Golgi retrograde transport via SNARE assembly. Journal of Cell Biology. 195:(2)203-215.

Noga Gadir; Liora Haim-Vilmovsky; Judith Kraut-Cohen; Jeffrey Gerst (2011). Localization of mRNAs coding for mitochondrial proteins in the yeast Saccharomyces cerevisiae. Rna-A Publication Of The Rna Society. 17:(8)1551-1565.

Vydehi Kanneganti; Rachel Kama; Jeffrey Gerst (2011). Btn3 is a negative regulator of Btn2-mediated endosomal protein trafficking and prion curing in yeast. Molecular Biology of the Cell. 22:(10)1648-1663.

Liora Haim-Vilmovsky; Jeffrey Gerst (2011). Visualizing Endogenous mRNAs in Living Yeast Using m-TAG, a PCR-Based RNA Aptamer Integration Method, and Fluorescence Microscopy. Rna Detection And Visualization: Methods And Protocols. 237-247.

Boris Slobodin; Jeffrey Gerst (2011). RaPID: An Aptamer-Based mRNA Affinity Purification Technique for the Identification of RNA and Protein Factors Present in Ribonucleoprotein Complexes. Rna Detection And Visualization: Methods And Protocols. 387-406.

Gadi Zipor; Cecile Brocard; Jeffrey Gerst (2011). Isolation of mRNAs Encoding Peroxisomal Proteins from Yeast Using a Combined Cell Fractionation and Affinity Purification Procedure. Rna Detection And Visualization: Methods And Protocols. 323-333.

Boris Slobodin; Jeffrey Gerst (2010). A novel mRNA affinity purification technique for the identification of interacting proteins and transcripts in ribonucleoprotein complexes. Rna-A Publication Of The Rna Society. 16:(11)2277-2290.

Judith Kraut-Cohen; Jeffrey Gerst (2010). Addressing mRNAs to the ER: cis sequences act up!. Trends in Biochemical Sciences. 35:(8)459-469.

Liat Yakir-Tamang; Jeffrey Gerst (2009). Phosphoinositides, exocytosis and polarity in yeast: all about actin?. Trends in Cell Biology. 19:(12)677-684.

Gadi Zipor; Liora Haim-Vilmovsky; Rita Gelin-Licht; Noga Gadir; Cecile Brocard; Jeffrey Gerst (2009).Localization of mRNAs coding for peroxisomal proteins in the yeast, Saccharomyces cerevisiae. Proceedings of the National Academy of Sciences of the United States of America. 106:(47)19848-19853.

Liat Yakir-Tamang; Jeffrey Gerst (2009). A Phosphatidylinositol-Transfer Protein and Phosphatidylinositol-4-phosphate 5-Kinase Control Cdc42 to Regulate the Actin Cytoskeleton and Secretory Pathway in Yeast. Molecular Biology of the Cell. 20:(15)3583-3597.

Liora Haim-Vilmovsky; Jeffrey Gerst (2009). m-TAG: a PCR-based genomic integration method to visualize the localization of specific endogenous mRNAs in vivo in yeast. Nature Protocols. 4:(9)1274-1284.

Galina Gabriely; Rachel Kama; Rita Gelin-Licht; Jeffrey Gerst (2008). Different domains of the UBL-UBA ubiquitin receptor, Ddi1/Vsm1, are involved in its multiple cellular roles. Molecular Biology of the Cell. 19:(9)3625-3637.

Jeffrey Gerst (2008). Message on the web: mRNA and ER co-trafficking. Trends in Cell Biology. 18:(2)68-76.

Stella Aronov; Rita Gelin-Licht; Gadi Zipor; Liora Haim; Einat Safran; Jeffrey Gerst (2007). mRNAs encoding polarity and exocytosis factors are cotransported with the cortical endoplasmic reticulum to the incipient bud in Saccharomyces cerevisiae. Molecular and Cellular Biology. 27:(9)3441-3455.

Liora Haim; Gadi Zipor; Stella Aronov; Jeffrey Gerst (2007). A genomic integration method to visualize localization of endogenous mRNAs in living yeast. Nature Methods. 4:(5)409-412.

Galina Gabriely; Rachel Kama; Jeffrey Gerst (2007). Involvement of specific COPI subunits in protein sorting from the late endosome to the vacuole in yeast. Molecular and Cellular Biology. 27:(2)526-540.

Rachel Kama; Micah Robinson; Jeffrey Gerst (2007). Btn2, a Hook1 ortholog and potential Batten disease-related protein, mediates late endosome-Golgi protein sorting in yeast. Molecular and Cellular Biology. 27:(2)605-621.

Roy Sirkis; Jeffrey Gerst; Deborah Fass (2006). Ddi1, a eukaryotic protein with the retroviral protease fold. Journal of Molecular Biology. 364:(3)376-387.

M Robinson; Pp Poon; C Schindler; Le Murray; Rachel Kama; G Gabriely; Ra Singer; A Spang; Gc Johnston; Jeffrey Gerst (2006). The Gcs1 Arf-GAP mediates Snc1,2 v-SNARE retrieval to the Golgi in yeast. Molecular Biology of the Cell. 17:(4)1845-1858.

A Castillo-Flores; Adina Weinberger; M Robinson; Jeffrey Gerst (2005). Mso1 is a novel component of the yeast exocytic SNARE complex. Journal of Biological Chemistry. 280:(40)34033-34041.

Adina Weinberger; F Kamena; Rachel Kama; A Spang; Jeffrey Gerst (2005). Control of Golgi morphology and function by Sed5 t-SNARE phosphorylation. Molecular Biology of the Cell. 16:(10)4918-4930.

S Aronov; Jeffrey Gerst (2004). Involvement of the late secretory pathway in actin regulation and mRNA transport in yeast. Journal of Biological Chemistry. 279:(35)36962-36971.

Jeffrey Gerst (2004). Regulation of SNARE assembly by protein phosphorylation. Topics in Current Genetics. 10:145-170.

M Marash; Jeffrey Gerst (2003). Phosphorylation of the autoinhibitory domain of the Sso t-SNAREs promotes binding of the Vsm1 SNARE regulator in yeast. Molecular Biology of the Cell. 14:(8)3114-3125.

Jeffrey Gerst (2003). SNARE regulators: matchmakers and matchbreakers. Biochimica Et Biophysica Acta-Molecular Cell Research. 1641:(3-Feb)99-110.

E Friedmann; Yehuda Salzberg; Adina Weinberger; S Shaltiel; Jeffrey Gerst (2002). YOS9, the putative yeast homolog of a gene amplified in osteosarcomas, is involved in the endoplasmic reticulum (ER)-Golgi transport of GPI-anchored proteins. Journal of Biological Chemistry. 277:(38)35274-35281.

S Gurunathan; M Marash; Adina Weinberger; Jeffrey Gerst (2002). t-SNARE phosphorylation regulates endocytosis in yeast. Molecular Biology of the Cell. 13:(5)1594-1607.

S Gurunathan; D David; Jeffrey Gerst (2002). Dynamin and clathrin are required for the biogenesis of a distinct class of secretory vesicles in yeast. EMBO Journal. 21:(4)602-614.

M Marash; Jeffrey Gerst (2001). t-SNARE dephosphorylation promotes SNARE assembly and exocytosis in yeast. EMBO Journal. 20:(3)411-421.

S Gurunathan; D Chapman-Shimshoni; S Trajkovic; Jeffrey Gerst (2000). Yeast exocytic v-SNAREs confer endocytosis. Molecular Biology of the Cell. 11:(10)3629-3643.

V Lustgarten; Jeffrey Gerst (1999). Yeast VSM1 encodes a v-SNARE binding protein that may act as a negative regulator of constitutive exocytosis. Molecular and Cellular Biology. 19:(6)4480-4494.

Jeffrey Gerst (1999). SNAREs and SNARE regulators in membrane fusion and exocytosis. Cellular and Molecular Life Sciences. 55:(5)707-734.

D David; S Sundarababu; Jeffrey Gerst (1998). Involvement of long chain fatty acid elongation in the trafficking of secretory vesicles in yeast. Journal of Cell Biology. 143:(5)1167-1182.

Jeffrey Gerst (1998). Vesicular trafficking on the late secretory pathway of the budding yeast, S. cerevisiae. Cellular and Molecular Mechanisms of Toxin Action: Secretory Systems. 81-108.

Jeffrey Gerst (1997). Conserved alpha-helical segments on yeast homologs of the synaptobrevin/VAMP family of V-SNAREs mediate exocytic function. Journal of Biological Chemistry. 272:(26)16591-16598.

M Waksman; Xq Tang; Y Eli; Jeffrey Gerst; M Liscovitch (1997). Identification of a novel Ca2+-dependent, phosphatidylethanolamine-hydrolyzing phospholipase D in yeast bearing a disruption in PLD1. Journal of Biological Chemistry. 272:(1)36-39.

A Zelicof; V Protopopov; D David; Xy Lin; V Lustgarten; Jeffrey Gerst (1996). Two separate functions are encoded by the carboxyl-terminal domains of the yeast cyclase-associated protein and its mammalian homologs - Dimerization and actin binding. Journal of Biological Chemistry. 271:(30)18243-18252.

M Waksman; Y Eli; M Liscovitch; Jeffrey Gerst (1996). Identification and characterization of a gene encoding phospholipase D activity in yeast. Journal of Biological Chemistry. 271:(5)2361-2364.

A Couve; V Protopopov; Jeffrey Gerst (1995). Yeast Synaptobrevin Homologs Are Modified Posttranslationally by the Addition of Palmitate. Proceedings of the National Academy of Sciences of the United States of America. 92:(13)5987-5991.

Jeffrey Gerst (1994). Yeast Snc proteins complex with Sec9: Functional interactions between putative SNARE proteins. The journal of Biological chemistry. 269:23391-23394.

Jeffrey Gerst (1994). SNC1 and SNC2. A Guidebook to the Secretory Pathway. 172-173.

Jeffrey Gerst (1993). Molecular Cloning and Characterization of a Rat Homolog of CAP, the Adenylyl Cyclase-associated Protein from Saccharomyces cereuisiae. The journal of Biological chemistry.268:(18)13448-13453.

Jeffrey Gerst (1993). Homologs of the synaptobrevin/VAMP family of synaptic vesicle proteins function on the late secretory pathway in S. cerevisiae. Cell. 74:(5)855-861.

Jeffrey Gerst (1992). Genetic and biochemical analysis of the adenylyl cyclase-associated protein, cap, in Schizosaccharomyces pombe. Molecular Biology of the Cell. 3:(2)167-180.

Jeffrey Gerst (1992). SNC1, a yeast homolog of the synaptic vesicle-associated membrane protein/synaptobrevin gene family: genetic interactions with the RAS and CAP genes. Proceedings of the National Academy of Sciences of the United States of America. 89:(10)4338-4342.

Jeffrey Gerst (1991). CAP is a bifunctional component of the Saccharomyces cerevisiae adenylyl cyclase complex. Molecular and cellular biology. 11:(3)1248-1257.

Jeffrey Gerst (1991). Evidence for a functional link between profilin and CAP in the yeast S. cerevisiae. Cell. 66:(3)497-505.

Jeffrey Gerst (1990). Cloning and characterization of CAP, the Saccharomyces cerevisiae gene encoding the 70 kDa adenylyl cyclase-associated protein. Cell. 61:319-327.

Jeffrey Gerst; M Benezra; A Schimmer; Yoram Salomon (1989). Phorbol Ester Impairs Melanotropin Receptor Function and Stimulates Growth of Cultured M2R Melanoma-Cells. European Journal Of Pharmacology-Molecular Pharmacology Section. 172:(1)29-39.

Jeffrey Gerst; J Sole; Eli Hazum; Yoram Salomon (1988). Identification and Characterization of Melanotropin Binding-Proteins from M2R Melanoma-Cells by Covalent Photoaffinity-Labeling. Endocrinology. 123:(4)1792-1797.

Jeffrey Gerst; Yoram Salomon (1988). A Synthetic Analog of the Calmodulin-Binding Domain of Myosin Light Chain Kinase Inhibits Melanotropin Receptor Function and Activation of Adenylate-Cyclase. Journal of Biological Chemistry. 263:(15)7073-7078.

Jeffrey Gerst (1988). Regulation of melanotropin receptor function by calcium in the M2R melanoma cell line: Possible involvement of a calcium-binding protein. Progress in Cancer Research and Therapy. 35:164-167.

Jeffrey Gerst; Yoram Salomon (1987). Inhibition by Melittin and Fluphenazine of Melanotropin Receptor Function and Adenylate-Cyclase in M2R Melanoma Cell-Membranes. Endocrinology. 121:(5)1766-1772.

Jeffrey Gerst; J Sole; Yoram Salomon (1987). Dual Regulation of Beta-Melanotropin Receptor Function and Adenylate-Cyclase by Calcium and Guanosine Nucleotides in the M2R Melanoma Cell-Line. Molecular Pharmacology. 31:(1)81-88.

Jeffrey Gerst (1987). Calcium and Guanosine Nucleotide Modulation of Melanotropin Receptor Function and Adenylate Cyclase in the M2R Melanoma Cell Line. Membrane Receptors, Dynamics, and Energetics. 133:117-126.

Jeffrey Gerst; J Sole; Jp Mather; Yoram Salomon (1986). Regulation of Adenylate-Cyclase by Beta-Melanotropin in the M2R Melanoma Cell-Line. Molecular and Cellular Endocrinology. 46:(2)137-147.

Jeffrey Gerst (1984). Biosynthesis of steroids by the ovarian component of Sparus aurata. European Mariculture Society: Research on Aquaculture. 139-149.