H D Madhani

Summary

Affiliation: University of California
Country: USA

Publications

  1. pmc A protein complex containing the conserved Swi2/Snf2-related ATPase Swr1p deposits histone variant H2A.Z into euchromatin
    Michael S Kobor
    Department of Molecular and Cell Biology, University of California, Berkeley, California, USA
    PLoS Biol 2:E131. 2004
  2. pmc Parallel beta-helix proteins required for accurate capsule polysaccharide synthesis and virulence in the yeast Cryptococcus neoformans
    Oliver W Liu
    Department of Biochemistry and Biophysics, University of California, San Francisco, CA 94158 2200, USA
    Eukaryot Cell 6:630-40. 2007
  3. pmc Effectors of a developmental mitogen-activated protein kinase cascade revealed by expression signatures of signaling mutants
    H D Madhani
    Whitehead Massachusetts Institute of Technology, Center for Genome Research, Department of Biology, Cambridge, MA 02142, USA
    Proc Natl Acad Sci U S A 96:12530-5. 1999
  4. ncbi request reprint MAP kinases with distinct inhibitory functions impart signaling specificity during yeast differentiation
    H D Madhani
    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA
    Cell 91:673-84. 1997
  5. ncbi request reprint Combinatorial control required for the specificity of yeast MAPK signaling
    H D Madhani
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA
    Science 275:1314-7. 1997
  6. pmc Histone variant H2A.Z marks the 5' ends of both active and inactive genes in euchromatin
    Ryan M Raisner
    Department of Biochemistry and Biophysics, University of California, 600 16th Street, San Francisco, California 94143, USA
    Cell 123:233-48. 2005
  7. ncbi request reprint Principles of MAP kinase signaling specificity in Saccharomyces cerevisiae
    Monica A Schwartz
    Department of Biochemistry and Biophysics, University of California, San Francisco, California 94143 2200, USA
    Annu Rev Genet 38:725-48. 2004
  8. ncbi request reprint Exploration of whole-genome responses of the human AIDS-associated yeast pathogen Cryptococcus neoformans var grubii: nitric oxide stress and body temperature
    Eric D Chow
    Department of Biochemistry and Biophysics, University of California San Francisco, 600 16th Street, San Francisco, CA 94158 2200, USA
    Curr Genet 52:137-48. 2007
  9. pmc Genomewide screen for negative regulators of sirtuin activity in Saccharomyces cerevisiae reveals 40 loci and links to metabolism
    Ryan M Raisner
    Department of Biochemistry and Biophysics, University of California, San Francisco, California 94158 2200, USA
    Genetics 179:1933-44. 2008
  10. pmc Systematic genetic analysis of virulence in the human fungal pathogen Cryptococcus neoformans
    Oliver W Liu
    Department of Biochemistry and Biophysics, University of California, San Francisco, 600 16th St, GH N372C, San Francisco, CA 94158, USA
    Cell 135:174-88. 2008

Research Grants

  1. Epigenetic Regulation by Histone Substitution
    Hiten Madhani; Fiscal Year: 2006

Collaborators

  • Monica A Schwartz
  • Kevan Shokat
  • JASPER D RINE
  • Oliver Rando
  • Charles Boone
  • Suzanne M Noble
  • S L Schreiber
  • Chih Long Liu
  • Oliver W Liu
  • Marie Z Bao
  • William W Hwang
  • Marc D Meneghini
  • Eric D Chow
  • Ryan M Raisner
  • Charles Kung
  • Shivkumar Venkatasubrahmanyam
  • Teresa R Shock
  • Paul D Hartley
  • Cheryl D Chun
  • Emma McCullagh
  • Mathieu Rougemaille
  • Sigurd Braun
  • David K Breslow
  • Rachel Tompa
  • John R Yates
  • Denise M Kenski
  • Michael S Kobor
  • Anupama Seshan
  • Hana El-Samad
  • James Thompson
  • Margot Rowley
  • Nevan J Krogan
  • Jonathan S Weissman
  • Changbin Chen
  • Jacob Stewart-Ornstein
  • Heather W Newman
  • Sean R Collins
  • Dale M Cameron
  • Smita Shankar
  • Maya Schuldiner
  • Amy Hin Yan Tong
  • Mark J S Kelly
  • Kristin Krukenberg
  • Russell W Howson
  • Scott H Dickerson
  • Lee F Kuyper
  • Jennifer W Gin
  • Greg T Cantin
  • Andrew J Link
  • Jennifer L Jennings
  • Alexandra G Ianculescu
  • Amy Tong
  • Michelle Wu

Detail Information

Publications29

  1. pmc A protein complex containing the conserved Swi2/Snf2-related ATPase Swr1p deposits histone variant H2A.Z into euchromatin
    Michael S Kobor
    Department of Molecular and Cell Biology, University of California, Berkeley, California, USA
    PLoS Biol 2:E131. 2004
    ..Metazoan orthologs of Swr1p (Drosophila Domino; human SRCAP and p400) may have analogous functions...
  2. pmc Parallel beta-helix proteins required for accurate capsule polysaccharide synthesis and virulence in the yeast Cryptococcus neoformans
    Oliver W Liu
    Department of Biochemistry and Biophysics, University of California, San Francisco, CA 94158 2200, USA
    Eukaryot Cell 6:630-40. 2007
    ..Unlike acapsular strains, these mutant strains induced delayed symptoms of cryptococcosis, though the infected animals eventually contained the infection and recovered...
  3. pmc Effectors of a developmental mitogen-activated protein kinase cascade revealed by expression signatures of signaling mutants
    H D Madhani
    Whitehead Massachusetts Institute of Technology, Center for Genome Research, Department of Biology, Cambridge, MA 02142, USA
    Proc Natl Acad Sci U S A 96:12530-5. 1999
    ..Thus, the Kss1 MAPK cascade programs development by coordinately modulating a cell adhesion factor, a secreted host-destroying activity, and a specialized subunit of the Cdc28 cyclin-dependent kinase...
  4. ncbi request reprint MAP kinases with distinct inhibitory functions impart signaling specificity during yeast differentiation
    H D Madhani
    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA
    Cell 91:673-84. 1997
    ..In the absence of Fus3, there is erroneous crosstalk in which mating pheromone now activates filamentation-specific gene expression using the Kss1 MAPK...
  5. ncbi request reprint Combinatorial control required for the specificity of yeast MAPK signaling
    H D Madhani
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA
    Science 275:1314-7. 1997
    ..An FRE in the TEC1 promoter functions in a positive feedback loop required for pseudohyphal development...
  6. pmc Histone variant H2A.Z marks the 5' ends of both active and inactive genes in euchromatin
    Ryan M Raisner
    Department of Biochemistry and Biophysics, University of California, 600 16th Street, San Francisco, California 94143, USA
    Cell 123:233-48. 2005
    ..Efficient deposition of H2A.Z is further promoted by a specific pattern of histone H3 and H4 tail acetylation and the bromodomain protein Bdf1, a component of the Swr1 remodeling complex that deposits H2A.Z...
  7. ncbi request reprint Principles of MAP kinase signaling specificity in Saccharomyces cerevisiae
    Monica A Schwartz
    Department of Biochemistry and Biophysics, University of California, San Francisco, California 94143 2200, USA
    Annu Rev Genet 38:725-48. 2004
    ..Although much remains to be learned, current data indicate that scaffolding and cross pathway inhibition play key roles in the maintenance of fidelity...
  8. ncbi request reprint Exploration of whole-genome responses of the human AIDS-associated yeast pathogen Cryptococcus neoformans var grubii: nitric oxide stress and body temperature
    Eric D Chow
    Department of Biochemistry and Biophysics, University of California San Francisco, 600 16th Street, San Francisco, CA 94158 2200, USA
    Curr Genet 52:137-48. 2007
    ..Resources described here should facilitate future investigations of this lethal human yeast pathogen...
  9. pmc Genomewide screen for negative regulators of sirtuin activity in Saccharomyces cerevisiae reveals 40 loci and links to metabolism
    Ryan M Raisner
    Department of Biochemistry and Biophysics, University of California, San Francisco, California 94158 2200, USA
    Genetics 179:1933-44. 2008
    ..We speculate that PAS kinase may integrate metabolic signals to control sirtuin activity...
  10. pmc Systematic genetic analysis of virulence in the human fungal pathogen Cryptococcus neoformans
    Oliver W Liu
    Department of Biochemistry and Biophysics, University of California, San Francisco, 600 16th St, GH N372C, San Francisco, CA 94158, USA
    Cell 135:174-88. 2008
    ..In particular, we describe a GATA family transcription factor that inhibits phagocytosis by murine macrophages independently of the capsule, indicating a previously unknown mechanism of innate immune modulation...
  11. pmc A link between virulence and homeostatic responses to hypoxia during infection by the human fungal pathogen Cryptococcus neoformans
    Cheryl D Chun
    Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, California, United States of America
    PLoS Pathog 3:e22. 2007
    ....
  12. pmc Hog1 mitogen-activated protein kinase (MAPK) interrupts signal transduction between the Kss1 MAPK and the Tec1 transcription factor to maintain pathway specificity
    Teresa R Shock
    Department of Biochemistry and Biophysics, University of California at San Francisco, San Francisco, CA 94158, USA
    Eukaryot Cell 8:606-16. 2009
    ..Our results demonstrate that HOG signaling interrupts the FG pathway signal transduction between the phosphorylation of Kss1 and the activation of DNA binding by Tec1...
  13. pmc Coordinate control of gene expression noise and interchromosomal interactions in a MAP kinase pathway
    Emma McCullagh
    Department of Biochemistry and Biophysics, University of California, San Francisco, 600 16th Street, San Francisco, California 94158, USA
    Nat Cell Biol 12:954-62. 2010
    ..Consequently, cells may have evolved mechanisms to suppress noise by controlling these interactions...
  14. ncbi request reprint Pheromone-dependent destruction of the Tec1 transcription factor is required for MAP kinase signaling specificity in yeast
    Marie Z Bao
    Department of Biochemistry and Biophysics, University of California, 600 16th Street, San Francisco, CA 94143, USA
    Cell 119:991-1000. 2004
    ..Signal-induced destruction of a transcription factor for a competing pathway provides a mechanism for signaling specificity...
  15. ncbi request reprint The control of filamentous differentiation and virulence in fungi
    H D Madhani
    Whitehead Institute for Biomedical Research, Nine Cambridge Center, MA 02142, USA
    Trends Cell Biol 8:348-53. 1998
    ..Strikingly, components used to signal sexual differentiation in the response to mating pheromones are often reutilized to regulate dimorphic development, suggesting an ancient link between these processes...
  16. ncbi request reprint The riddle of MAP kinase signaling specificity
    H D Madhani
    Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA
    Trends Genet 14:151-5. 1998
    ..How are the myriad of inputs transduced accurately so that each evokes a specific response? One mechanism would be to have a distinct MAPK cascade for each signal; however, the situation appears to be more complicated...
  17. pmc Mechanisms that specify promoter nucleosome location and identity
    Paul D Hartley
    Department of Biochemistry and Biophysics, University of California, San Francisco, 94158, USA
    Cell 137:445-58. 2009
    ..Z deposition using a steroid-inducible protein splicing strategy, we show that NFR establishment is necessary for H2A.Z deposition. These studies suggest an ordered pathway for the assembly of promoter chromatin architecture...
  18. pmc A comprehensive strategy enabling high-resolution functional analysis of the yeast genome
    David K Breslow
    Department of Cellular and Molecular Pharmacology, University of California, San Francisco, 1700 4th Street, San Francisco, California 94158, USA
    Nat Methods 5:711-8. 2008
    ..Finally, by measuring the fitness of strains in the yeast deletion library, we addressed an enigma regarding the apparent prevalence of gene dispensability and found that most genes do contribute to growth...
  19. pmc Genome-wide, as opposed to local, antisilencing is mediated redundantly by the euchromatic factors Set1 and H2A.Z
    Shivkumar Venkatasubrahmanyam
    Department of Biochemistry and Biophysics, University of California, 600 16th Street, MC 2200, San Francisco, CA 94158, USA
    Proc Natl Acad Sci U S A 104:16609-14. 2007
    ..Antisilencing mechanisms may therefore cooperate to play a considerably broader role in regulating genome-wide transcription than previously thought...
  20. ncbi request reprint Conserved histone variant H2A.Z protects euchromatin from the ectopic spread of silent heterochromatin
    Marc D Meneghini
    Department of Biochemistry and Biophysics, University of California, San Francisco, CA 94143, USA
    Cell 112:725-36. 2003
    ..Thus, euchromatin and heterochromatin each contains components that antagonize switching to the opposite chromatin state...
  21. ncbi request reprint Control of MAPK signaling specificity by a conserved residue in the MEK-binding domain of the yeast scaffold protein Ste5
    Monica A Schwartz
    Department of Biochemistry and Biophysics, University of California, San Francisco, 600 16th St, 94143 2200, USA
    Curr Genet 49:351-63. 2006
    ..These studies demonstrate a role for an endogenous scaffold in signaling specificity...
  22. pmc Nonredundant requirement for multiple histone modifications for the early anaphase release of the mitotic exit regulator Cdc14 from nucleolar chromatin
    William W Hwang
    Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, California, USA
    PLoS Genet 5:e1000588. 2009
    ..The nonredundant role for these modifications in this context contrasts with the notion of a highly combinatorial code by which histone marks act to control biological processes...
  23. pmc Multisite phosphorylation of the Saccharomyces cerevisiae filamentous growth regulator Tec1 is required for its recognition by the E3 ubiquitin ligase adaptor Cdc4 and its subsequent destruction in vivo
    Marie Z Bao
    Department of Biochemistry and Biophysics, University of California, 600 16th St, MC2200, San Francisco, CA 94158 2200, USA
    Eukaryot Cell 9:31-6. 2010
    ....
  24. pmc Selective kinase inhibition by exploiting differential pathway sensitivity
    Charles Kung
    Chemistry and Chemical Biology Graduate Program, University of California, San Francisco, San Francisco, California 94143, USA
    Chem Biol 13:399-407. 2006
    ..Identification of highly sensitive kinases may provide a means to achieve selective perturbation of kinase signaling pathways complementary to efforts to achieve maximal differences between in vitro IC50 values...
  25. ncbi request reprint A conserved RING finger protein required for histone H2B monoubiquitination and cell size control
    William W Hwang
    Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA 94143, USA
    Mol Cell 11:261-6. 2003
    ..Notably, analysis of mutants demonstrates a function for Bre1/Lge1-dependent H2B monoubiquitination in the control of cell size...
  26. ncbi request reprint Functional analysis of protein kinase networks in living cells: beyond "knock-outs" and "knock-downs"
    Hiten D Madhani
    Department of Biochemistry and Biophysics, University of California, 600 16th St, San Fransico, CA 94143 2200, USA
    Methods 40:251-4. 2006
    ..The goal of this article is to provide a brief introductory primer into these issues using examples from yeast MAPK cascades and to motivate future systematic genetic analysis focusing on individual residues of protein kinases...
  27. pmc Histone H3 lysine 36 methylation antagonizes silencing in Saccharomyces cerevisiae independently of the Rpd3S histone deacetylase complex
    Rachel Tompa
    Department of Biochemistry and Biophysics, University of California, San Francisco, California 94143 2200, USA
    Genetics 175:585-93. 2007
    ..Thus, antagonism of silencing is independent of the only known effector of this conserved histone modification...
  28. pmc Ers1, a rapidly diverging protein essential for RNA interference-dependent heterochromatic silencing in Schizosaccharomyces pombe
    Mathieu Rougemaille
    Department of Biochemistry and Biophysics, University of California, San Francisco, California 94143, USA
    J Biol Chem 283:25770-3. 2008
    ..Surprisingly, Ers1 lacks obvious orthologs outside of the genus Schizosaccharomyces. Within this group, it is diverging rapidly, raising the possibility that it is coevolving with target RNA elements...
  29. pmc Chemical genomic profiling to identify intracellular targets of a multiplex kinase inhibitor
    Charles Kung
    Computational, Analytical, and Structural Sciences, GlaxoSmithKline, 5 Moore Drive, Research Triangle Park, NC 27709, USA
    Proc Natl Acad Sci U S A 102:3587-92. 2005
    ..Our results suggest that the cellular responses induced by multiplex protein kinase inhibitors may be an emergent property that cannot be understood fully by considering only the sum of individual inhibitor-kinase interactions...

Research Grants1

  1. Epigenetic Regulation by Histone Substitution
    Hiten Madhani; Fiscal Year: 2006
    ..Indeed, chemical inhibitors of histone deacetylases, which are required for epigenetic gene silencing in all systems characterized from yeast to humans, are in clinical trials as anticancer drugs. ..