Biomedical Research Education & Training
Faculty Member

Weil, P. Anthony, Ph.D.
Professor of Molecular Physiology and Biophysics

Lab Url: http://www.mc.vanderbilt.edu/vumcdept/mpb/weil/weil_lab.html

Phone Number: 615-322-7007

Email Address: tony.weil@vanderbilt.edu

Weil, P.'s picture
Academic history
B.S., Northern Illinois University, DeKalb, Illinois
, Northern Illinois University, DeKalb, Illinois
Ph.D., University of Texas Graduate School of Biomedical Sciences at Houston, Texas
Postdoctoral Fellow, Washington University School of Medicine, St. Louism Missouri

Office Address   Mailing Address

746A Robinson Research Building

746A Robinson Research Building 21st and Garland 37232-0615


Research Keywords
Eukaryotic Transcription, Gene Expression, Transcription Initiation, RNA Polymerase, TFIID, TFIIIB, Mot1p ,Biochemistry,Chromatin,Gene regulation,Genetics,Mass spectroscopy,Proteomics,Spectroscopy,Transcription,Transcription factor,Yeast

Research Specialty
Molecular mechanisms of transcriptional regulation

Research Description
The focus of research in our laboratory is to understand the molecular mechanisms of eukaryotic transcription initiation. For the last ten or so years we have been examining the eukaryotic transcription factors which mediate initiation complex formation and thus represent potential targets for trans-regulation. We have utilized the simple eukaryote, Saccharomyces cerevisiae or Baker's Yeast, for our work. This organism was chosen for our studies because both biochemical and genetic approaches can be taken with yeasts. In our experiments we study the factors required for transcription initiation by RNA polymerase II (RNAP II). RNAP II transcribes the genes which encode mRNAs. We have developed methods for the solubilization, characterization and purification of the complete complement of RNAP II-specific factors, and our current focus is on one of these factors the multisubunit factor termed TFIID. All of the proteins which comprise TFIID have very interesting biochemical properties. One of the factors, known as TBP, or TATA box Binding Protein, is a sequence specific DNA binding protein which interacts with the ubiquitous TATA box promoter element. while others are not. The other subunits of TFIID presumably interact with other promoter elements, RNAPII, positive-acting transcription factors or other general transcription factors such as TFIIA, TFIIB, TFIIE, TFIIF or TFIIF.


Our immediate efforts have been expended towards cloning the yeast genes which encode these genes encoding the TFIID subunits. We have been successful in cloning the genes which encode the multiple (15 distinct genes) subunits of yeast TFIID. Our interest in cloning these genes are several and are summarized here as are the types of studies which will be the focus of our research in the future--each could comprise a student rotation project: 1) The cloned genes give us the wherewithal to overexpress the corresponding gene products. Purified factors prepared from the cloned genes will be used for in vitro mechanistic studies. 2) Using the cloned genes we are examining the structure-function relationships of these important molecules. 3) We are dissecting the genetic control elements which regulate expression of the transcription factor genes themselves. These studies are being performed with an eye towards understanding global control of macromolecular biosynthesis. 4) Finally, we are using the cloned genes, in conditionally lethal forms, to identify via suppressor analyses genes whose products interact with these multi-functional general transcription initiation factors. Specific examples of the types of studies and the results which we have obtained are listed in "Selected Publications."


Publications
Arnett, DR, Jennings, JL, Tabb, DL, Link, AJ, Weil, PA. A proteomic analysis of yeast Mot1p protein-protein associations: insights into mechanism. Mol Cell Proteomics, 2008 PMCID:2577210

Bendjennat, M, Weil, PA. The transcriptional repressor activator protein Rap1p is a direct regulator of TATA-binding protein. J Biol Chem, 283(13), 8699-710, 2008 PMCID:2417159

Garbett, KA, Tripathi, MK, Cencki, B, Layer, JH, Weil, PA. Yeast TFIID serves as a coactivator for Rap1p by direct protein-protein interaction. Mol Cell Biol, 27(1), 297-311, 2007 PMCID:1800639

Leurent, Claire, Sanders, Steven L, Dem??ny, M? t?? A, Garbett, Krassimira A, Ruhlmann, Christine, Weil, P Anthony, Tora, L? szl??, Schultz, Patrick. Mapping key functional sites within yeast TFIID. EMBO J, 23(4), 719-27, 2004 PMCID:381015

Powell, David W, Weaver, Connie M, Jennings, Jennifer L, McAfee, K Jill, He, Yue, Weil, P Anthony, Link, Andrew J. Cluster analysis of mass spectrometry data reveals a novel component of SAGA. Mol Cell Biol, 24(16), 7249-59, 2004 PMCID:479721

Singh, Madhu V, Bland, Christin E, Weil, P Anthony. Molecular and genetic characterization of a Taf1p domain essential for yeast TFIID assembly. Mol Cell Biol, 24(11), 4929-42, 2004 PMCID:416396

Gumbs, Orlando H., Campbell, Allyson M., Weil, P.Anthony. High-affinity DNA binding by a Mot1p-TBP complex: implications for TAF-independent transcription. EMBO J, 22, 3131-3141, 2003 PMCID:162156

Klein, Joachim, Nolden, Mark, Sanders, Steven L, Kirchner, Jay, Weil, P Anthony, Melcher, Karsten, . Use of a genetically introduced cross-linker to identify interaction sites of acidic activators within native transcription factor IID and SAGA.. J Biol Chem, 278, 6779-86, 2003

Andrau, Jean-Christophe, Van Oevelen, Chris J C, Van Teeffelen, Hetty A A M, Weil, P Anthony, Holstege, Frank C P, Timmers, H Th Marc, . Mot1p is essential for TBP recruitment to selected promoters during in vivo gene activation.. EMBO J, 21, 5173-83, 2002 PMCID:129025

Kirschner, Doris B, vom Baur, Elmar, Thibault, Christelle, Sanders, Steven L, Gangloff, Yann-Ga? PMCID:133751

Leurent, Claire, Sanders, Steven, Ruhlmann, Christine, Mallouh, V??ronique, Weil, P Anthony, Kirschner, Doris B, Tora, Laszlo, Schultz, Patrick, . Mapping histone fold TAFs within yeast TFIID.. EMBO J, 21, 3424-33, 2002 PMCID:126091

Sanders, Steven L, Garbett, Krassimira A, Weil, P Anthony. Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol, 22, 6000-13, 2002 PMCID:133964

Sanders, Steven L, Jennings, Jennifer, Canutescu, Adrian, Link, Andrew J, Weil, P Anthony. Proteomics of the eukaryotic transcription machinery: identification of proteins associated with components of yeast TFIID by multidimensional mass spectrometry. Mol Cell Biol, 22, 4723-38, 2002 PMCID:133885

Singh, Madhu V, Weil, P Anthony. A method for plasmid purification directly from yeast. Anal Biochem, 307(1), 13-7, 2002

Thuault, Sylvie, Gangloff, Yann-Ga?

Banik, U, Beechem, J M, Klebanow, E, Schroeder, S, Weil, P A. Fluorescence-based analyses of the effects of full-length recombinant TAF130p on the interaction of TATA box-binding protein with TATA box DNA. J Biol Chem, 276, 49100-9, 2001

Gangloff, Y G, Sanders, S L, Romier, C, Kirschner, D, Weil, P A, Tora, L, Davidson, I. Histone folds mediate selective heterodimerization of yeast TAF(II)25 with TFIID components yTAF(II)47 and yTAF(II)65 and with SAGA component ySPT7. Mol Cell Biol, 21(5), 1841-53, 2001 PMCID:86751

Kirchner, J, Sanders, S L, Klebanow, E, Weil, P A. Molecular genetic dissection of TAF25, an essential yeast gene encoding a subunit shared by TFIID and SAGA multiprotein transcription factors. Mol Cell Biol, 21, 6668-80, 2001 PMCID:99812

Sanders, S L, Weil, P A. Identification of two novel TAF subunits of the yeast Saccharomyces cerevisiae TFIID complex. J Biol Chem, 275(18), 13895-900, 2000

Sanders, S., Klebanow, E. and P. A. Weil (1999) TAF25p, A Non-Histone-Like Subunit of TFIID and SAGA Complexes, is Essential for Total mRNA Gene Transcription In Vivo, J. Biol. Chem. 274:18847-18851.

Klebanow, E R, Weil, P A. A rapid technique for the determination of unknown plasmid library insert DNA sequence directly from intact yeast cells. Yeast, 15(6), 527-31, 1999

Muldrow, T A, Campbell, A M, Weil, P A, Auble, D T. MOT1 can activate basal transcription in vitro by regulating the distribution of TATA binding protein between promoter and nonpromoter sites. Mol Cell Biol, 19(4), 2835-45, 1999 PMCID:84076

Reuter, T.A., Campbell, A.M., Weil P.A. and Auble, D.T. Mot1p Can Activate Basal Transcription In Vitro by Regulating the Distribution of TBP Between Promoter and Nonpromoter Sites. Mol. and Cellular Biology, 19, 2835-2845, 1999

Sanders, S L, Klebanow, E R, Weil, P A. TAF25p, a non-histone-like subunit of TFIID and SAGA complexes, is essential for total mRNA gene transcription in vivo. J Biol Chem, 274(27), 18847-50, 1999

Schroeder, S. and Weil, P.A. (1998) Biochemical and Genetic Characterization of the Dominant Positive Element Driving Transcription of the Yeast TBP-encoding Gene, SPT15, Nucleic Acids Research 26:4185-4196.

Drysdale, C M, Jackson, B M, McVeigh, R, Klebanow, E R, Bai, Y, Kokubo, T, Swanson, M, Nakatani, Y, Weil, P A, Hinnebusch, A G. The Gcn4p activation domain interacts specifically in vitro with RNA polymerase II holoenzyme, TFIID, and the Adap-Gcn5p coactivator complex. Mol Cell Biol, 18(3), 1711-24, 1998 PMCID:108886

Komarnitsky, P B, Klebanow, E R, Weil, P A, Denis, C L. ADR1-mediated transcriptional activation requires the presence of an intact TFIID complex. Mol Cell Biol, 18(10), 5861-7, 1998 PMCID:109172

Patterson, G H, Schroeder, S C, Bai, Y, Weil, A, Piston, D W. Quantitative imaging of TATA-binding protein in living yeast cells. Yeast, 14(9), 813-25, 1998

Patterson, G.H., Schroeder, S.C., Bai, Y., P. A. Weil and David W. Piston . Quantitative Imaging of Green Fluorescent Protein-TBP fusion Proteins: Asymmetric Distribution of TBP between Yeast Mothers and Daughters. Yeast, 14, 813-825, 1998

Schroeder, S C, Weil, P A. Genetic tests of the role of Abf1p in driving transcription of the yeast TATA box bindng protein-encoding gene, SPT15. J Biol Chem, 273(31), 19884-91, 1998

Schroeder, S C, Weil, P A. Biochemical and genetic characterization of the dominant positive element driving transcription ofthe yeast TBP-encoding gene, SPT15. Nucleic Acids Res, 26(18), 4186-95, 1998 PMCID:147844

Schroeder, S. and Weil, P.A. Genetic Tests of the Role of Abf1p in Driving Transcription of the Yeast TBP- encoding Gene. J. Biol. Chem., 273, 19884-19891, 1998

Bai, Y, Perez, G M, Beechem, J M, Weil, P A. Structure-function analysis of TAF130: identification and characterization of a high-affinity TATA-binding protein interaction domain in the N terminus of yeast TAF(II)130. Mol Cell Biol, 17(6), 3081-93, 1997 PMCID:232161

Bai, Y. , Perez, G.M., Beechem, J.M. and Weil, P.A. Structure-Function Analysis of TAF130: Identification and Characterization of a High Affinity TBP Interaction Domain in the N-terminus of yTAFII130. Molecular and Cellular Biology, 17, 3081-3093, 1997

Klebanow, E R, Poon, D, Zhou, S, Weil, P A. Cloning and characterization of an essential Saccharomyces cerevisiae gene, TAF40, which encodes yTAFII40, an RNA polymerase II-specific TATA-binding protein-associated factor. J Biol Chem, 272(14), 9436-42, 1997

Yamamoto, T, Poon, D, Weil, P A, Horikoshi, M. Molecular genetic elucidation of the tripartite structure of the Schizosaccharomyces pombe 72 kDa TFIID subunit which contains a WD40 structural motif. Genes Cells, 2(4), 245-54, 1997

Klebanow, E R, Poon, D, Zhou, S, Weil, P A. Isolation and characterization of TAF25, an essential yeast gene that encodes an RNA polymerase II-specific TATA-binding protein-associated factor. J Biol Chem, 271(23), 13706-15, 1996

Moqtaderi, Z, Bai, Y, Poon, D, Weil, P A, Struhl, K. TBP-associated factors are not generally required for transcriptional activation in yeast. Nature, 383(6596), 188-91, 1996

Moqtaderi, Z., Bai, Y., Poon, D., Weil, P.A. and Struhl, K. TBP-associated factors are not generally required for transcriptional activation in yeast. Nature, 383, 188-191, 1996

Perez-Howard, G M, Weil, P A, Beechem, J M. Yeast TATA binding protein interaction with DNA: fluorescence determination of oligomeric state, equilibrium binding, on-rate, and dissociation kinetics. Biochemistry, 34(25), 8005-17, 1995

Poon, D, Bai, Y, Campbell, A M, Bjorklund, S, Kim, Y J, Zhou, S, Kornberg, R D, Weil, P A. Identification and characterization of a TFIID-like multiprotein complex from Saccharomyces cerevisiae. Proc Natl Acad Sci U S A, 92(18), 8224-8, 1995 PMCID:41129

Henry, N L, Campbell, A M, Feaver, W J, Poon, D, Weil, P A, Kornberg, R D. TFIIF-TAF-RNA polymerase II connection. Genes Dev, 8(23), 2868-78, 1994

Leibham, D, Wong, M W, Cheng, T C, Schroeder, S, Weil, P A, Olson, E N, Perry, M. Binding of TFIID and MEF2 to the TATA element activates transcription of the Xenopus MyoDa promoter. Mol Cell Biol, 14(1), 686-99, 1994 PMCID:358418

Poon, D, Campbell, A M, Bai, Y, Weil, P A. Yeast Taf170 is encoded by MOT1 and exists in a TATA box-binding protein (TBP)-TBP-associated factor complex distinct from transcription factor IID. J Biol Chem, 269(37), 23135-40, 1994

Robinson, G L, Cordle, S R, Henderson, E, Weil, P A, Teitelman, G, Stein, R. Isolation and characterization of a novel transcription factor that binds to and activates insulin control element-mediated expression. Mol Cell Biol, 14(10), 6704-14, 1994 PMCID:359201

Schroeder, S C, Wang, C K, Weil, P A. Identification of the cis-acting DNA sequence elements regulating the transcription of the Saccharomyces cerevisiae gene encoding TBP, the TATA box binding protein. J Biol Chem, 269(45), 28335-46, 1994

Poon, D, Knittle, R A, Sabelko, K A, Yamamoto, T, Horikoshi, M, Roeder, R G, Weil, P A. Genetic and biochemical analyses of yeast TATA-binding protein mutants. J Biol Chem, 268(7), 5005-13, 1993

Poon, D, Weil, P A. Immunopurification of yeast TATA-binding protein and associated factors. Presence of transcription factor IIIB transcriptional activity. J Biol Chem, 268(21), 15325-8, 1993

Parsons, M C, Weil, P A. Cloning of TFC1, the Saccharomyces cerevisiae gene encoding the 95-kDa subunit of transcription factor TFIIIC. J Biol Chem, 267(5), 2894-901, 1992

Yamamoto, T, Horikoshi, M, Wang, J, Hasegawa, S, Weil, P A, Roeder, R G. A bipartite DNA binding domain composed of direct repeats in the TATA box binding factor TFIID. Proc Natl Acad Sci U S A, 89(7), 2844-8, 1992 PMCID:48759

Cordle, S R, Henderson, E, Masuoka, H, Weil, P A, Stein, R. Pancreatic beta-cell-type-specific transcription of the insulin gene is mediated by basic helix-loop-helix DNA-binding proteins. Mol Cell Biol, 11(3), 1734-8, 1991 PMCID:369485

Cordle, S R, Whelan, J, Henderson, E, Masuoka, H, Weil, P A, Stein, R. Insulin gene expression in nonexpressing cells appears to be regulated by multiple distinct negative-acting control elements. Mol Cell Biol, 11(5), 2881-6, 1991 PMCID:360077

Poon, D, Schroeder, S, Wang, C K, Yamamoto, T, Horikoshi, M, Roeder, R G, Weil, P A. The conserved carboxy-terminal domain of Saccharomyces cerevisiae TFIID is sufficient to support normal cell growth. Mol Cell Biol, 11(10), 4809-21, 1991 PMCID:361446

Felts, S J, Weil, P A, Chalkley, R. Transcription factor requirements for in vitro formation of transcriptionally competent 5S rRNA gene chromatin. Mol Cell Biol, 10(5), 2390-401, 1990 PMCID:360587

Hoffmann, A, Horikoshi, M, Wang, C K, Schroeder, S, Weil, P A, Roeder, R G. Cloning of the Schizosaccharomyces pombe TFIID gene reveals a strong conservation of functional domains present in Saccharomyces cerevisiae TFIID. Genes Dev, 4(7), 1141-8, 1990

Horikoshi, M, Yamamoto, T, Ohkuma, Y, Weil, P A, Roeder, R G. Analysis of structure-function relationships of yeast TATA box binding factor TFIID. Cell, 61(7), 1171-8, 1990

Karnitz, L, Poon, D, Weil, P A, Chalkley, R. Identification and purification of a yeast transcriptional trans-activator. The yeast homolog of the Rous sarcoma virus internal enhancer binding factor. J Biol Chem, 265(11), 6131-8, 1990

Parsons, M C, Weil, P A. Purification and characterization of Saccharomyces cerevisiae transcription factor TFIIIC. Polypeptide composition defined with polyclonal antibodies. J Biol Chem, 265(9), 5095-103, 1990

Whelan, J, Cordle, S R, Henderson, E, Weil, P A, Stein, R. Identification of a pancreatic beta-cell insulin gene transcription factor that binds to and appears to activate cell-type-specific expression: its possible relationship to other cellular factors that bind to a common insulin gene sequence. Mol Cell Biol, 10(4), 1564-72, 1990 PMCID:362261

Horikoshi, M, Wang, C K, Fujii, H, Cromlish, J A, Weil, P A, Roeder, R G. Cloning and structure of a yeast gene encoding a general transcription initiation factor TFIID that binds to the TATA box. Nature, 341(6240), 299-303, 1989

Horikoshi, M, Wang, C K, Fujii, H, Cromlish, J A, Weil, P A, Roeder, R G. Purification of a yeast TATA box-binding protein that exhibits human transcription factor IID activity. Proc Natl Acad Sci U S A, 86(13), 4843-7, 1989 PMCID:297511

Karnitz, L, Poon, D, Weil, P A, Chalkley, R. Purification and properties of the Rous sarcoma virus internal enhancer binding factor. Mol Cell Biol, 9(5), 1929-39, 1989 PMCID:362984

Nichols, M, Bell, J, Klekamp, M S, Weil, P A, S??ll, D. Multiple mutations of the first gene of a dimeric tRNA gene abolish in vitro tRNA gene transcription. J Biol Chem, 264(29), 17084-90, 1989

Wang, C K, Weil, P A. Purification and characterization of Saccharomyces cerevisiae transcription factor IIIA. J Biol Chem, 264(2), 1092-9, 1989

Whelan, J, Poon, D, Weil, P A, Stein, R. Pancreatic beta-cell-type-specific expression of the rat insulin II gene is controlled by positive and negative cellular transcriptional elements. Mol Cell Biol, 9(8), 3253-9, 1989 PMCID:362369

Felts, S J, Weil, P A, Chalkley, R. Novobiocin inhibits interactions required for yeast TFIIIB sequestration during stable transcription complex formation in vitro. Nucleic Acids Res, 15(4), 1493-506, 1987 PMCID:340563

Klekamp, M S, Weil, P A. Properties of yeast class III gene transcription factor TFIIIB. Implications regarding mechanism of action. J Biol Chem, 262(16), 7878-83, 1987

Klekamp, M S, Weil, P A. Partial purification and characterization of the Saccharomyces cerevisiae transcription factor TFIIIB. J Biol Chem, 261(6), 2819-27, 1986

Klekamp, M S, Weil, P A. Yeast class III gene transcription factors and homologous RNA polymerase III form ternary transcription complexes stable to disruption by N-lauroyl-sarcosine (sarcosyl). Arch Biochem Biophys, 246(2), 783-800, 1986

Klekamp, M S, Weil, P A. Specific transcription of homologous class III genes in yeast-soluble cell-free extracts. J Biol Chem, 257(14), 8432-41, 1982

Matsui, T, Segall, J, Weil, P A, Roeder, R G. Multiple factors required for accurate initiation of transcription by purified RNA polymerase II. J Biol Chem, 255(24), 11992-6, 1980

Weil, P A, Luse, D S, Segall, J, Roeder, R G. Selective and accurate initiation of transcription at the Ad2 major late promotor in a soluble system dependent on purified RNA polymerase II and DNA. Cell, 18(2), 469-84, 1979

Weil, P A, Segall, J, Harris, B, Ng, S Y, Roeder, R G. Faithful transcription of eukaryotic genes by RNA polymerase III in systems reconstituted with purified DNA templates. J Biol Chem, 254(13), 6163-73, 1979

Weil, P A, Sidikaro, J, Stancel, G M, Blatti, S P. Hormonal control of transcription in the rat uterus. Stimulation of deoxyribonucleic acid-dependent RNA polymerase III by estradiol. J Biol Chem, 252(3), 1092-8, 1977

Weil, P A, Blatti, S P. HeLa cell deoxyribonucleic acid dependent RNA polymerases: function and properties of the class III enzymes. Biochemistry, 15(7), 1500-9, 1976

Weil, P A, Blatti, S P. Partial purification and properties of calf thymus deoxyribonucleic acid dependent RNA polymerase III. Biochemistry, 14(8), 1636-42, 1975

Weil, P A, Hampel, A. Preparative agarose gel electrophoresis of ribonucleic acid. Biochemistry, 12(22), 4361-7, 1973


Postdoctoral Position Available
Yes

Postdoctoral Position Details
POSTDOCTORAL POSITIONS
MOLECULAR MECHANISMS OF EUKARYOTIC TRANSCRIPTION
VANDERBILT UNIVERSITY MEDICAL CENTER


Two postdoctoral positions available to examine the role of TBP, the TATA box Binding Protein and its associated protein factors in RNA Polymerase II-mediated transcription initiation using the Bakers yeast Saccharomyces cerevisiae system. We currently utilize a combination of biochemical, genetic, biophysical and proteomics methods to study the regulation and interactions of these proteins with each other, DNA and other transcription factors; details can be obtained at: www.mc.vanderbilt.edu/vumcdept/mpb/weil/weil_lab.html.Interested parties should send a CV and names of references to: Dr. Tony Weil, Department of Molecular Physiology & Biophysics, Vanderbilt University, School of Medicine, Nashville, TN 37232-0615. Phone: 615-322-7007, FAX: 615-322-7236; Email: tony.weil@mcmail.vanderbilt.edu.


Updated Date
09/17/2010