Richard Vallee, PhD

Academic Appointments

  • Professor of Pathology & Cell Biology

Current Administrative Positions

  • Director, Division of Cell and Molecular Biology

Email: rv2025@cumc.columbia.edu

My lab is interested in a variety of biological mechanisms involving motor proteins, with a major emphasis on cytoplasmic dynein and several forms of kinesin. We identified cytoplasmic dynein as the motor for retrograde axonal transport. It also has important roles in mitosis, cell migration, growth cone motility, virus transport, and other aspects of neuronal and nonneuronal cell behavior, several of which are currently being investigated in my lab.

Molecular Mechanisms of Neuronal Migration in Developing Rodent Brain

 A major on-going project involves the role of cytoplasmic dynein and kinesins in brain development and developmental diseases.  These include lissencephaly (smooth brain), microcephaly (small brain), and other disease conditions. Type I lissencephaly arises from mutations in the dynein regulatory gene, LIS1. Using in utero electroporation of shRNAs, mutant cDNAs, and fluorescent marker proteins into embryonic rat brain, my lab has shown that LIS1 and cytoplasmic dynein are both required for nucleus and centrosome transport in  neuronal precursors, as well as their over-all migration

 Another focus of this work has been the earliest stages of neurogenesis in the cortex, involving the unusual oscillatory cell cycle-dependent behavior of the radial glial progenitor (RGP) cells,  known as INM . These  highly elongated cells span the distance between ventricular and pial surfaces of the brain, and serve as guides for the migrating neurons. The RGPs also serve as stem cells, which multiply and give rise to most neurons and glia, as well as adult neural stem cells. The RGP cells exhibit  a long-known, but functionally and mechanistically mysterious form of behavior, INM (Interkinetic Nuclear Migration).  This process  begins with mitotic division of the RGP cell at the surface of the ventricle. The In the case of symmetric division the nucleus in each of the progeny cells then ascends basally during G1, undergoes S-phase, and then returns during G2 to the ventricle - the exclusive site for entry into the subsequent mitotic division.  The physiological purpose and underlying mechanism for this highly conserved behavior remained largely unexplored until recently. Our lab found the kinesin Kif1a to be  responsible for basal nuclear migration, i. e.,  away from the ventricle in rat brain.  We found that, at the onset of G2-phase, cytoplasmic dynein is recruited to the nuclear envelope for “apical nuclear migration back to the ventricle. Cytoplasmic dynein is recruited to the apically transported nucleus via successive interactions involving two different  nucleoporins.  Mitosis cannot occur until nuclei contact the ventricular surface, but how and why remain one focus of our further studies.

Motor protein Regulators   

My lab has also investigated the molecular mechanisms by which LIS1 and other dynein regulators control dynein activity.  A number of factors regulate dynein targeting to subcellular sites as well as motor behavior.  We found LIS1, aided by NudE, binds to the dynein motor domain during its power stroke, and stabilizes the interaction of dynein with microtubules during this phase of the crossbridge cycle.  The result is a substantial increase in total force generated by groups of dynein molecules, e. g., those responsible for nuclear transport in migrating neurons and RGP cells in the developing brain.  LIS1 also enhances transport of large vesicular structures and chromosomes, which we also study.

 Novel Role of RILP and Dynein in Autophagosome formation and Transport 

We are also investigating an emerging class of “RDD,” or “adaptor” proteins which serve to diversify substantially the number of dynein-cargo interactions in cells.  Several of these proteins, such as BicD2, are involved both in neuronal migration and in a number of other aspects of neuronal and nonneuronal cell behavior.  One particular focus of our recent studies is  RILP, a known Rab-binding lysosomal protein with a well-established dynein-binding site. We have recently found RILP to be responsible for a surprising array of functions during neuronal and non-neuronal autophagy.  We have  identified three functional LC3-binding sites in RILP and a further one with Atg5, which is replaced by dynein during autophagosome maturation.    We found that inhibion of  mTOR upregulates RILP exprssion , which, in turn, e upregulates  autophagosome biogenesis and turnover.  These findings suggest that RILP controls a a novel, higher eukaryotic mechanism for controlling when and where macroautophagy occurs in the cell, a finding of potential significance for the causes and treatment of diverse pathological conditions.  RILP’sseqeuntial multivalent interactions suggest that the emerging class of related RDD adaptor proteins may share this unusual ability to coordinate  the motile  behavior of diverse cellular cargoes.

KAND: A Kinesin-Associated Progressive Neuropathy

In addition to its role in basal INM (see above), we and others have found the kinesin Kif1a to play additional roles in brain development. An important role is in BDNF transport and secretion, which, in turn, markedly affects neuronal migration.  In addition to these in vivo brain results we have now partnered with the labs of Dr. Wendy Chung at Columbia and Arne Gennerich at AECOM to systematically study human disease-causing Kif1a mutations  at the genotypic, phenotypic, and single-molecule level.

Departmental Appointments

  • Department of Pathology & Cell Biology

Languages Spoken

  • French
  • German

Education and Training

  • BA, Biology, Swarthmore College
  • PhD, Yale

Centers / Institutes / Programs

  • Herbert Irving Comprehensive Cancer Center

Lab Locations

  • 630 West 168th Street
    P&S 15-409
    New York, NY 10032
    Phone:
    (212) 342-0546
    Fax:
    (212) 305-5498
    Email:
    rv2025@cumc.columbia.edu

Contact Info

Research Interests

  • Motor Proteins in Neurogenesis and Neuronal Migration
  • Stem Cell Biology
  • Motor Proteins in Axonal Transport
  • Cellular/Molecular/Developmental Neuroscience
  • Axon Pathfinding and Synaptogenesis
  • Neural Degeneration and Repair
  • Cell Specification and Differentiation

NIH Grants

  • ROLE OF THE KINESIN KIF1A IN NEUROLOGICAL DISEASE (Federal Gov)

    Feb 15 2020 - Dec 31 2024

    ROLE OF RILP IN AUTOPHAGY (Federal Gov)

    Dec 1 2019 - Nov 30 2023

    DISSECTING THE MOLECULAR MECHANISMS OF NEURAL STEM CELL PROLIFERATION (Private)

    Jul 1 2018 - Jun 30 2020

    MICROTUBLE NETWORKS AND VIRUS TRAFFICKING (Federal Gov)

    Apr 1 2014 - Apr 30 2020

    MOTOR PROTEINS IN BRAIN DEVELOPMENT (Federal Gov)

    Dec 1 2011 - Dec 31 2017

    A ROLE FOR CENTROSOME POSITIONING IN CONTROLLING NEURAL PROGENITOR DIVISION (Private)

    Jul 1 2015 - Jun 30 2017

    MECHANISM OF ACTION OF DYNACTIN (Federal Gov)

    Jul 1 2012 - May 31 2016

    SINGLE-MOLECULE CHARACTERIZATION OF CYTOPLASMIC DYNEIN (Federal Gov)

    Jun 1 2011 - Mar 31 2015

    INTERPLAY BETWEEN CELL CYCLE AND INTERKINETIC NUCLEAR MIGRATION OF NUERAL STEM CELLS (Private)

    Jan 1 2013 - Dec 31 2014

    IDENTIFICATION OF GENES REQUIRED FOR LOCALIZATION OF CYTOPLA SMIC DYNEIN TO NUCLEAR ENVELOPE IN NEURAL PROGENITOR CELLS (Private)

    Jul 1 2010 - Jun 30 2012

    MOLECULAR GENETICS OF CYTOPLASMIC DYEIN (Federal Gov)

    Apr 1 1992 - Mar 31 2012

    TARGETING OF CYTOPLASMIC DYNEIN TO THE NUCLEAR ENVELOPE DURI NG BRAIN DEVELOPMENT (Federal Gov)

    Mar 1 2011 - Apr 30 2011

    ROLE OF NUDC GENE UN DYNEIN REGULATION AND BRAIN DEVELOPMENT DISEASE (Private)

    Jun 1 2006 - May 31 2010

    STRUCTURAL ORGANZATION AND MECHANISM OF ACTION DYNEIN (Private)

    Jul 1 2004 - Jun 30 2006

Publications

Paschal, B. M., and Vallee, R. B. (1987) Retrograde Transport by the Microtubule Associated Protein MAP 1C. Nature 330: 181-183..Paschal, B. M., King, S. A., Moss, A. G., Collins, C. A.

Vallee, R. B., and Witman, G. B. (1987) Isolated Flagellar Outer Arm Dynein Translocates Brain Microtubules In Vitro. Nature 330: 672-674.

Vallee, R. B., Wall, J. S. Paschal, B. M., and Shpetner, H. S. (1988) Microtubule Associated Protein 1C from Brain Is a Two-Headed Cytosolic Dynein. Nature 332: 561-563.

Holzbaur, E. L. F., Hammarback, J. A., Paschal, B. M., Kravit, N. G., Pfister, K. K., and Vallee, R. B. (1991) Homology of a 150 kD Cytoplasmic Dynein-associated Polypeptide with the Drosophila Gene Glued. Nature 351: 579-583.

Chen, M. S., Obar, R. A., Schroeder, C. C., Austin, T. W., Poodry, C. A., Wadsworth, S. C., and Vallee, R. B. (1991) Multiple Forms of Dynamin are Encoded by shibire, a Drosophila Gene Involved in Endocytosis. Nature 351: 583-586

Herskovits, J.S., Burgess, C. C., Obar, R. A., and Vallee, R. B. (1993) Effects of Mutant Rat Dynamin on Endocytosis. J. Cell Biol.122: 565-578.

Echeverri, C. J., Paschal, B. M., Vaughan, K. T., and Vallee, R. B. (1996) Molecular Characterization of the 50 kD Subunit of Dynactin Reveals Function for the Complex in Chromosome Alignment and Spindle Organization During Mitosis. J. Cell Biol.132: 617-634.

Gee, M.A., Heuser, J. E., and Vallee, R.B. (1997) An Extended Microtubule-binding Structure within the Dynein Motor Domain Nature 390: 636-639.

Faulkner, N. E., Dujardin, D. L., Tai, C.-Y., Vaughan, K. T., O’Connell, C. B., Wang, Y.-L., and Vallee, R. B. (2000) A Role for the Lissencephaly Gene LIS-1 in Mitosis and Cytoplasmic Dynein Function. Nature Cell Biol.2: 784-79

Tsai, J. W.; Chen, Y.; Kriegstein, A. R.; Vallee, R. B. (2005) LIS1 RNA interference blocks neural stem cell division, morphogenesis, and motility at multiple stages. J. Cell Biol. 170:935-45.

*McKenney, R. J., *Vershinin, M., Kunwar, A., +Vallee R. B., and +Gross, S. P. (2010) LIS1 and NudE induce a persistent dynein force-producing state (*Co-first and +co-senior authors.) Cell 141:304-314

*Tsai, J.-T., *Lian, W.-N., Kemal, S., Kriegstein, A., and Vallee, R. B. (2010) Kinesin 3 and Cytoplasmic Dynein Mediate Interkinetic Nuclear Migration in Neural Stem Cells. Nature Neurosci.13:1463-1471.

Hu, D. J., Baffet, A. D., Nayak, T., Akhmanova, A.,Doye, V., and Vallee, R. B. (2013) Dynein Recruitment to Nuclear Pores Activates Apical Nuclear Migration and Mitotic Entry in Brain Progenitor Cells. Cell 154:1300–1313.

Tripathy, S.*, Weil, S. J.*, Chen, C., Anand, P., Vallee, R. B.+, and Gross, S.+(2014) Autoregulatory Mechanism for Dynactin Control of Processive and Diffusive Dynein Transport. Nature Cell Biol, 16:1192-1201.

Carabalona, A., Hu, D. J., and Vallee, R. B. (2016) KIF1A Inhibition Immortalizes Brain Stem Cells but Blocks BDNF-mediated Neuronal Migration. Nature Neurosci. 19:261-271.

Wynne, C., and Vallee, R. B. (2018) Cdk1 phosphorylation of the dynein adapter Nde1 controls cargo binding from G2 to anaphase. J. Cell Biol.217:3019-29.3

Goncalves, J. C., Dantas,T., and Vallee, R. B. (2019) Distinct roles for dynein light intermediate chains in neurogenesis, migration, and terminal somal translocation..J. Cell Biol. 218:808-19.

Khobrekar, N. V., Quintremil, S., Dantas, T. J., Vallee, R. B. (2020). The Dynein Adaptor RILP Controls Neuronal Autophagosome Biogenesis, Transport and Clearance. Dev. Cell., in press.