Oliver Hobert

Summary

Affiliation: Columbia University
Country: USA

Publications

  1. ncbi request reprint Functions of LIM-homeobox genes
    O Hobert
    Columbia University, College of Physicians and Surgeons, Department of Biochemistry and Molecular Biophysics, 701 W 168th Street, New York, NY 10032, USA
    Trends Genet 16:75-83. 2000
  2. ncbi request reprint Common logic of transcription factor and microRNA action
    Oliver Hobert
    Columbia University Medical Center, Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, New York, NY 10032, USA
    Trends Biochem Sci 29:462-8. 2004
  3. pmc Regulatory logic of neuronal diversity: terminal selector genes and selector motifs
    Oliver Hobert
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY 10032, USA
    Proc Natl Acad Sci U S A 105:20067-71. 2008
  4. ncbi request reprint miRNAs play a tune
    Oliver Hobert
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    Cell 131:22-4. 2007
  5. doi request reprint Gene regulation by transcription factors and microRNAs
    Oliver Hobert
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY 10032, USA
    Science 319:1785-6. 2008
  6. pmc The impact of whole genome sequencing on model system genetics: get ready for the ride
    Oliver Hobert
    Columbia University Medical Center, Howard Hughes Medical Institute, New York, New York 10032, USA
    Genetics 184:317-9. 2010
  7. pmc The molecular and gene regulatory signature of a neuron
    Oliver Hobert
    Columbia University Medical Center, Howard Hughes Medical Institute, New York, NY, USA
    Trends Neurosci 33:435-45. 2010
  8. ncbi request reprint Development and maintenance of neuronal architecture at the ventral midline of C. elegans
    Oliver Hobert
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, NY 10032, USA
    Curr Opin Neurobiol 13:70-8. 2003
  9. doi request reprint Gene regulation: enhancers stepping out of the shadow
    Oliver Hobert
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    Curr Biol 20:R697-9. 2010
  10. ncbi request reprint MicroRNAs: all gone and then what?
    Oliver Hobert
    Department of Biochemistry and Molecular Physics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, New York 10032, USA
    Curr Biol 15:R387-9. 2005

Collaborators

Detail Information

Publications87

  1. ncbi request reprint Functions of LIM-homeobox genes
    O Hobert
    Columbia University, College of Physicians and Surgeons, Department of Biochemistry and Molecular Biophysics, 701 W 168th Street, New York, NY 10032, USA
    Trends Genet 16:75-83. 2000
    ..Here, we summarize the recent findings on LIM-homeobox gene function, compare the function of these genes from different organisms and describe specific co-factor requirements...
  2. ncbi request reprint Common logic of transcription factor and microRNA action
    Oliver Hobert
    Columbia University Medical Center, Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, New York, NY 10032, USA
    Trends Biochem Sci 29:462-8. 2004
    ..Just as the set of TFs in a given cell type has been proposed to constitute a 'code' that specifies cellular differentiation, so 'miRNA codes' are likely to have conceptually similar roles in the specification of cell types...
  3. pmc Regulatory logic of neuronal diversity: terminal selector genes and selector motifs
    Oliver Hobert
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY 10032, USA
    Proc Natl Acad Sci U S A 105:20067-71. 2008
    ..The simplicity of the cis-regulatory logic on which the terminal selector gene concept is based may contribute to the evolvability of neuronal diversity...
  4. ncbi request reprint miRNAs play a tune
    Oliver Hobert
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    Cell 131:22-4. 2007
    ..2007; Karres et al., 2007). Furthermore, these studies illustrate the involvement of miRNAs in tuning the expression of target genes to physiologically relevant levels...
  5. doi request reprint Gene regulation by transcription factors and microRNAs
    Oliver Hobert
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY 10032, USA
    Science 319:1785-6. 2008
    ..Here, I review common principles of transcription factor- and microRNA-mediated gene regulatory events and discuss conceptual differences in how these factors control gene expression...
  6. pmc The impact of whole genome sequencing on model system genetics: get ready for the ride
    Oliver Hobert
    Columbia University Medical Center, Howard Hughes Medical Institute, New York, New York 10032, USA
    Genetics 184:317-9. 2010
    ....
  7. pmc The molecular and gene regulatory signature of a neuron
    Oliver Hobert
    Columbia University Medical Center, Howard Hughes Medical Institute, New York, NY, USA
    Trends Neurosci 33:435-45. 2010
    ..The theoretical concepts discussed here provide testable hypotheses for future experimental analysis of the exact gene-regulatory mechanisms employed in the generation of neuronal diversity and identity...
  8. ncbi request reprint Development and maintenance of neuronal architecture at the ventral midline of C. elegans
    Oliver Hobert
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, NY 10032, USA
    Curr Opin Neurobiol 13:70-8. 2003
    ..Furthermore, a conceptually new mechanism that regulates the maintenance of axon positioning at the midline has been described in C. elegans...
  9. doi request reprint Gene regulation: enhancers stepping out of the shadow
    Oliver Hobert
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    Curr Biol 20:R697-9. 2010
    ..Such enhancer redundancy ensures robustness of gene expression under adverse environmental or genetic conditions...
  10. ncbi request reprint MicroRNAs: all gone and then what?
    Oliver Hobert
    Department of Biochemistry and Molecular Physics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, New York 10032, USA
    Curr Biol 15:R387-9. 2005
    ..A new study reports the genetic elimination of miRNA function on a full genomic scale and identifies a subfamily of miRNAs involved in brain morphogenesis...
  11. doi request reprint Maintaining a memory by transcriptional autoregulation
    Oliver Hobert
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    Curr Biol 21:R146-7. 2011
    ..Maintaining gene expression patterns in the nervous system is a particular challenge given the non-renewing nature and therefore extensive life span of many neuronal cell types...
  12. doi request reprint Regulation of terminal differentiation programs in the nervous system
    Oliver Hobert
    Howard Hughes Medical Institute, New York, NY 10032, USA
    Annu Rev Cell Dev Biol 27:681-96. 2011
    ....
  13. ncbi request reprint PCR fusion-based approach to create reporter gene constructs for expression analysis in transgenic C. elegans
    Oliver Hobert
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, NY 10032, USA
    Biotechniques 32:728-30. 2002
  14. ncbi request reprint Behavioral plasticity in C. elegans: paradigms, circuits, genes
    Oliver Hobert
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, New York 10032, USA
    J Neurobiol 54:203-23. 2003
    ..Lastly, the review outlines how reverse genetics and genomic approaches can guide the analysis of the role of genes in behavior and why and how they will complement the forward genetic analysis of behavior...
  15. pmc Genetic screens for Caenorhabditis elegans mutants defective in left/right asymmetric neuronal fate specification
    Sumeet Sarin
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, 701 W 168th Street, New York, NY 10032, USA
    Genetics 176:2109-30. 2007
    ..Taken together, our mutant screens identified a broad catalog of genes whose molecular characterization is expected to provide more insight into the complex genetic architecture of a left/right asymmetric neuronal cell fate decision...
  16. ncbi request reprint An unusual Zn-finger/FH2 domain protein controls a left/right asymmetric neuronal fate decision in C. elegans
    Robert J Johnston
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, 701 W 168th Street, New York, NY 10032, USA
    Development 133:3317-28. 2006
    ..These network motifs endow the system with properties that provide insights into how cells adopt their stable terminally differentiated states...
  17. pmc Neuron-type specific regulation of a 3'UTR through redundant and combinatorially acting cis-regulatory elements
    Dominic Didiano
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    RNA 16:349-63. 2010
    ..The features of 3'UTR regulation we describe here may apply to some of the vast number of genes in animal genomes whose expression is predicted to be regulated through their 3'UTR...
  18. pmc Cis-regulatory mechanisms of left/right asymmetric neuron-subtype specification in C. elegans
    John F Etchberger
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, 701 West 168th Street, New York, NY 10032, USA
    Development 136:147-60. 2009
    ..It also suggests that feed-forward loop motifs may be a prominent feature of neuronal diversification events...
  19. pmc Searching for neuronal left/right asymmetry: genomewide analysis of nematode receptor-type guanylyl cyclases
    Christopher O Ortiz
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, New York 10032, USA
    Genetics 173:131-49. 2006
    ..In sum, our results indicate the existence of a surprising multitude of putative chemoreceptors in the gustatory ASE neurons and suggest the existence of a substantial degree of laterality in gustatory signaling mechanisms in nematodes...
  20. pmc Cis-regulatory mutations in the Caenorhabditis elegans homeobox gene locus cog-1 affect neuronal development
    M Maggie O'Meara
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY 10032, USA
    Genetics 181:1679-86. 2009
    ..The multiplicity of cis-regulatory elements may ensure the robustness of gene expression...
  21. pmc Direct conversion of C. elegans germ cells into specific neuron types
    Baris Tursun
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY 10032, USA
    Science 331:304-8. 2011
    ..Our findings illustrate the ability of germ cells to be directly converted into individual, terminally differentiated neuron types and demonstrate that a specific chromatin factor provides a barrier for cellular reprogramming...
  22. ncbi request reprint Identification of spatial and temporal cues that regulate postembryonic expression of axon maintenance factors in the C. elegans ventral nerve cord
    Oscar Aurelio
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, NY 10032, USA
    Development 130:599-610. 2003
    ..Our findings illustrate the importance of spatial and temporal control of gene expression in the nervous system and, furthermore, implicate heterochronic genes in postmitotic neural patterning events...
  23. pmc The Groucho ortholog UNC-37 interacts with the short Groucho-like protein LSY-22 to control developmental decisions in C. elegans
    Eileen B Flowers
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, Columbia University, New York, NY 10032, USA
    Development 137:1799-805. 2010
    ..We propose that Groucho-mediated gene regulatory events involve heteromeric complexes of distinct Groucho-like proteins...
  24. pmc Removal of Polycomb repressive complex 2 makes C. elegans germ cells susceptible to direct conversion into specific somatic cell types
    Tulsi Patel
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    Cell Rep 2:1178-86. 2012
    ....
  25. pmc Gene regulatory logic of dopamine neuron differentiation
    Nuria Flames
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, New York 10032, USA
    Nature 458:885-9. 2009
    ..Our studies reveal a simple and apparently conserved regulatory logic of dopamine neuron terminal differentiation and may provide new entry points into the diagnosis or therapy of conditions in which dopamine neurons are defective...
  26. pmc The C. elegans Tailless/TLX transcription factor nhr-67 controls neuronal identity and left/right asymmetric fate diversification
    Sumeet Sarin
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, 701 W 168th Street, New York, NY 10032, USA
    Development 136:2933-44. 2009
    ....
  27. pmc The small, secreted immunoglobulin protein ZIG-3 maintains axon position in Caenorhabditis elegans
    Claire Bénard
    Department of Biochemistry, Howard Hughes Medical Institute, Columbia University Medical Center, New York, New York 10032, USA
    Genetics 183:917-27. 2009
    ..elegans ortholog of the human L1 protein. Our studies shed further light on the use of dedicated factors to maintain nervous system architecture and corroborate the complexity of the mechanisms involved...
  28. pmc A genetic screen for neurite outgrowth mutants in Caenorhabditis elegans reveals a new function for the F-box ubiquitin ligase component LIN-23
    Nehal Mehta
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, New York 10032, USA
    Genetics 166:1253-67. 2004
    ..We have thus defined separable activities of LIN-23 in two distinct processes, cell cycle control and axon patterning. We propose that LIN-23 targets distinct substrates for ubiquitination within each process...
  29. pmc Hypoxia activates a latent circuit for processing gustatory information in C. elegans
    Roger Pocock
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, New York, USA
    Nat Neurosci 13:610-4. 2010
    ..Thus, physiological detection of hypoxia results in the activation of an additional, previously unrecognized circuit for processing sensory information that is not required for sensory processing under normoxic conditions...
  30. ncbi request reprint Mapping functional domains of chloride intracellular channel (CLIC) proteins in vivo
    Katherine L Berry
    Department of Biochemistry and Molecular Biophysics Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    J Mol Biol 359:1316-33. 2006
    ..The PTM region thus provides both targeting information and CLIC functional specificity, possibly adapting GST-type proteins to function as ion channels...
  31. ncbi request reprint Genomic cis-regulatory architecture and trans-acting regulators of a single interneuron-specific gene battery in C. elegans
    Adam S Wenick
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University Medical Center, 701 West 168th Street, New York, NY 10032, USA
    Dev Cell 6:757-70. 2004
    ..The identity of these homeodomain targets provides novel insights into the biology of the AIY interneuron...
  32. doi request reprint Oxygen levels affect axon guidance and neuronal migration in Caenorhabditis elegans
    Roger Pocock
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, New York 10032, USA
    Nat Neurosci 11:894-900. 2008
    ..Similar genetic pathways may cause aberrant human brain development under hypoxic conditions...
  33. ncbi request reprint A C. elegans CLIC-like protein required for intracellular tube formation and maintenance
    Katherine L Berry
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, NY 10032, USA
    Science 302:2134-7. 2003
    ..A conserved 55-amino acid domain enables EXC-4 translocation from the cytosol to the lumenal membrane. The tubular architecture of this membrane requires EXC-4 for both its formation and maintenance...
  34. pmc A transcriptional regulatory cascade that controls left/right asymmetry in chemosensory neurons of C. elegans
    Sarah Chang
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, NY 10032, USA
    Genes Dev 17:2123-37. 2003
    ..Our studies have thus identified transcriptional mediators of a putative L/R-asymmetric signaling event and suggest that vertebrate homologs of these proteins may have similar functions in regulating vertebrate brain asymmetries...
  35. pmc Analysis of multiple ethyl methanesulfonate-mutagenized Caenorhabditis elegans strains by whole-genome sequencing
    Sumeet Sarin
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, New York 10032, USA
    Genetics 185:417-30. 2010
    ..elegans community to study gene function...
  36. pmc A left/right asymmetric neuronal differentiation program is controlled by the Caenorhabditis elegans lsy-27 zinc-finger transcription factor
    Feifan Zhang
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, New York 10032, USA
    Genetics 188:753-9. 2011
    ..lsy-27 is broadly and exclusively expressed in the embryo and acts during the initiation, but not during the maintenance phase of ASE asymmetry control to assist in the initiation of lim-6 expression...
  37. ncbi request reprint MicroRNAs act sequentially and asymmetrically to control chemosensory laterality in the nematode
    Sarah Chang
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University Medical Center, 701 W 168th Street, New York 10032, USA
    Nature 430:785-9. 2004
    ..Thus, an inverse distribution of two sequentially acting miRNAs in two bilaterally symmetric neurons controls laterality of the nematode chemosensory system...
  38. pmc A Genome-Wide RNAi Screen for Factors Involved in Neuronal Specification in Caenorhabditis elegans
    Richard J Poole
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, New York, USA
    PLoS Genet 7:e1002109. 2011
    ..The results of this analysis provide a starting point for future studies that will eventually lead to a more complete understanding of how individual neuronal cell types are generated from a single-cell embryo...
  39. ncbi request reprint A conserved postsynaptic transmembrane protein affecting neuromuscular signaling in Caenorhabditis elegans
    Paula M Loria
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, New York 10032, USA
    J Neurosci 24:2191-201. 2004
    ....
  40. pmc The molecular signature and cis-regulatory architecture of a C. elegans gustatory neuron
    John F Etchberger
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY 10032, USA
    Genes Dev 21:1653-74. 2007
    ..Taken together, our results provide a unique view of the molecular landscape of a single neuron type and reveal an important aspect of the regulatory logic for gustatory neuron specification in C. elegans...
  41. ncbi request reprint LIM homeobox gene-dependent expression of biogenic amine receptors in restricted regions of the C. elegans nervous system
    Ephraim L Tsalik
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, NY 10032, USA
    Dev Biol 263:81-102. 2003
    ..Lastly, we analyze a mutant allele of the ser-2 tyramine receptor, a target of the ttx-3 Lhx gene in the AIY interneuron class. ser-2 mutants display none of the defects previously shown to be associated with loss of AIY function...
  42. ncbi request reprint A novel C. elegans zinc finger transcription factor, lsy-2, required for the cell type-specific expression of the lsy-6 microRNA
    Robert J Johnston
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Howard Hughes Medical Institute, Columbia University Medical Center, 701 West 168th Street, New York, NY 10032, USA
    Development 132:5451-60. 2005
    ....
  43. pmc Coordinated regulation of cholinergic motor neuron traits through a conserved terminal selector gene
    Paschalis Kratsios
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, New York, USA
    Nat Neurosci 15:205-14. 2012
    ..Thus, UNC-3 is a terminal selector for cholinergic motor neuron differentiation whose function is conserved across phylogeny...
  44. pmc CloudMap: a cloud-based pipeline for analysis of mutant genome sequences
    Gregory Minevich
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    Genetics 192:1249-69. 2012
    ..CloudMap tools and documentation are continually updated at http://usegalaxy.org/cloudmap...
  45. pmc Embryonic priming of a miRNA locus predetermines postmitotic neuronal left/right asymmetry in C. elegans
    Luisa Cochella
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    Cell 151:1229-42. 2012
    ..This study shows how cells can become committed during early developmental stages to execute a specific fate much later in development and provides a conceptual framework for understanding the generation of neuronal diversity...
  46. ncbi request reprint Functional dissection of the C. elegans cell adhesion molecule SAX-7, a homologue of human L1
    Roger Pocock
    Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY 10032, USA
    Mol Cell Neurosci 37:56-68. 2008
    ..Lastly, we show that of the several protein binding motifs present in the intracellular region of SAX-7, only its ankyrin binding motif is required and also solely sufficient to confer the adhesive functions of SAX-7...
  47. pmc C. elegans mutant identification with a one-step whole-genome-sequencing and SNP mapping strategy
    Maria Doitsidou
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, New York, United States of America
    PLoS ONE 5:e15435. 2010
    ..We find that the molecular lesion resides in the Pax-6/Eyeless ortholog vab-3. The strategy described here will further reduce the time between mutant isolation and identification of the molecular lesion...
  48. pmc Heparan sulfate proteoglycan-dependent induction of axon branching and axon misrouting by the Kallmann syndrome gene kal-1
    Hannes E Bülow
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, NY 10032, USA
    Proc Natl Acad Sci U S A 99:6346-51. 2002
    ..We hypothesize that KAL-1 binds by means of a heparan sulfate proteoglycan to its cognate receptor or other extracellular cues to induce axonal branching and axon misrouting...
  49. ncbi request reprint A microRNA controlling left/right neuronal asymmetry in Caenorhabditis elegans
    Robert J Johnston
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, 701 W 168th Street, New York, New York 10032, USA
    Nature 426:845-9. 2003
    ..lsy-6 is the first microRNA to our knowledge with a role in neuronal patterning, providing new insights into left/right axis formation...
  50. pmc Molecular architecture of a miRNA-regulated 3' UTR
    Dominic Didiano
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, New York 10032, USA
    RNA 14:1297-317. 2008
    ..The large number of 3' UTRs that we analyzed in this study will also be useful to computational biologists in designing the next generation of miRNA/target prediction algorithms...
  51. pmc MicroRNAs acting in a double-negative feedback loop to control a neuronal cell fate decision
    Robert J Johnston
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    Proc Natl Acad Sci U S A 102:12449-54. 2005
    ..The interaction of miRNAs in double-negative feedback loops may not only be a means for miRNAs to regulate their own expression but may also represent a general paradigm for how terminal cell fates are selected and stabilized...
  52. ncbi request reprint Functional mapping of neurons that control locomotory behavior in Caenorhabditis elegans
    Ephraim L Tsalik
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, College of Physicians and Surgeons, Columbia University, New York, New York 10032, USA
    J Neurobiol 56:178-97. 2003
    ..AIY, AIZ, and RIB are the first interneurons directly implicated in chemosensory signaling. Our neuronal mapping studies provide the framework for further genetic and functional dissections of neuronal circuits in C. elegans...
  53. ncbi request reprint A novel Eph receptor-interacting IgSF protein provides C. elegans motoneurons with midline guidepost function
    Thomas Boulin
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, New York 10032, USA
    Curr Biol 16:1871-83. 2006
    ..Their function during development, if any, is not known...
  54. pmc Modular control of glutamatergic neuronal identity in C. elegans by distinct homeodomain proteins
    Esther Serrano-Saiz
    Department of Biochemistry and Molecular Biophysics, HHMI, Columbia University Medical Center, New York, NY 10032, USA Electronic address
    Cell 155:659-73. 2013
    ..Examination of mouse orthologs of these homeodomain proteins resulted in the identification of mouse LHX1 as a regulator of glutamatergic neurons in the brainstem...
  55. pmc A combinatorial regulatory signature controls terminal differentiation of the dopaminergic nervous system in C. elegans
    Maria Doitsidou
    Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY 10032, USA
    Genes Dev 27:1391-405. 2013
    ..Dopaminergic neurons in the mouse olfactory bulb express a similar combinatorial transcription factor collective of Ets/Dlx/Pbx factors, suggesting deep phylogenetic conservation of dopaminergic regulatory programs. ..
  56. pmc Lateralized gustatory behavior of C. elegans is controlled by specific receptor-type guanylyl cyclases
    Christopher O Ortiz
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY 10032, USA
    Curr Biol 19:996-1004. 2009
    ..The extent of functional lateralization of the ASE neurons and genes responsible for the left/right asymmetric activity of ASEL and ASER is unknown...
  57. ncbi request reprint Differential functions of the C. elegans FGF receptor in axon outgrowth and maintenance of axon position
    Hannes E Bülow
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, NY 10032, USA
    Neuron 42:367-74. 2004
    ..An engineered, secreted form of EGL-15(5A) containing only its ectodomain is sufficient for maintenance of axon position, thus providing novel insights into receptor tyrosine kinase function and the process of maintaining axon position...
  58. doi request reprint Looking beyond development: maintaining nervous system architecture
    Claire Bénard
    Department of Biochemistry, Howard Hughes Medical Institute, Columbia University Medical Center, New York, USA
    Curr Top Dev Biol 87:175-94. 2009
    ..Here, we discuss different molecules underlying these neuronal maintenance mechanisms, with a focus on lessons learned from the nematode Caenorhabditis elegans...
  59. pmc Lineage programming: navigating through transient regulatory states via binary decisions
    Vincent Bertrand
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    Curr Opin Genet Dev 20:362-8. 2010
    ..A similar cell fate specification system seems to play a role in generating cellular diversity in the nervous system of more complex organisms such as Drosophila and vertebrates...
  60. pmc The SWI/SNF chromatin remodeling complex selectively affects multiple aspects of serotonergic neuron differentiation
    Peter Weinberg
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, New York 10032, USA
    Genetics 194:189-98. 2013
    ....
  61. pmc Developmental control of lateralized neuron size in the nematode Caenorhabditis elegans
    Andrew D Goldsmith
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY 10032, USA
    Neural Dev 5:33. 2010
    ....
  62. pmc Linking asymmetric cell division to the terminal differentiation program of postmitotic neurons in C. elegans
    Vincent Bertrand
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    Dev Cell 16:563-75. 2009
    ..Our study establishes how transient lineage and asymmetric division inputs are integrated and suggests that the Wnt/beta-catenin pathway is widely used to control the identity of neuronal lineages...
  63. pmc A toolkit and robust pipeline for the generation of fosmid-based reporter genes in C. elegans
    Baris Tursun
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, New York, United States of America
    PLoS ONE 4:e4625. 2009
    ..We describe other applications of fosmid recombineering as well. The simplicity, speed and robustness of the recombineering pipeline described here should prompt the routine use of this strategy for expression studies in C. elegans...
  64. pmc Notch-dependent induction of left/right asymmetry in C. elegans interneurons and motoneurons
    Vincent Bertrand
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, NY 10032, USA
    Curr Biol 21:1225-31. 2011
    ....
  65. ncbi request reprint Differential sulfations and epimerization define heparan sulfate specificity in nervous system development
    Hannes E Bülow
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, NY 10032 USA
    Neuron 41:723-36. 2004
    ..Our results demonstrate that the molecular diversity in HS encodes information that is crucial for different aspects of neuronal development...
  66. pmc CisOrtho: a program pipeline for genome-wide identification of transcription factor target genes using phylogenetic footprinting
    Henry R Bigelow
    Department of Biochemistry and Molecular Biophysics, Columbia University, College of Physicians and Surgeons, 701 West 168th Street, New York, NY 10032, USA
    BMC Bioinformatics 5:27. 2004
    ..It is important to develop methods that will reveal how these transcription factors act on a genome wide level, that is, through what target genes they exert their function...
  67. ncbi request reprint Immunoglobulin-domain proteins required for maintenance of ventral nerve cord organization
    Oscar Aurelio
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, NY 10032, USA
    Science 295:686-90. 2002
    ..Dedicated axon maintenance mechanisms may be widely used to ensure the preservation of functional neuronal circuitries...
  68. ncbi request reprint DIG-1, a novel giant protein, non-autonomously mediates maintenance of nervous system architecture
    Claire Y Benard
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY 10032, USA
    Development 133:3329-40. 2006
    ..We propose that DIG-1 is a component of the basement membrane that mediates specific contacts between cellular surfaces and their environment through the interaction with a cell-type specific set of other maintenance factors...
  69. ncbi request reprint Uses of GFP in Caenorhabditis elegans
    Oliver Hobert
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, NY 10032, USA
    Methods Biochem Anal 47:203-26. 2006
  70. pmc Comparing platforms for C. elegans mutant identification using high-throughput whole-genome sequencing
    Yufeng Shen
    Department of Computer Science, Columbia University, New York, New York, United States of America
    PLoS ONE 3:e4012. 2008
    ..Whole-genome sequencing represents a promising approach to pinpoint chemically induced mutations in genetic model organisms, thereby short-cutting time-consuming genetic mapping efforts...
  71. pmc Caenorhabditis elegans mutant allele identification by whole-genome sequencing
    Sumeet Sarin
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, New York 10032, USA
    Nat Methods 5:865-7. 2008
    ..elegans genome and thus pinpointed a single-nucleotide mutation in the genome that affects a neuronal cell fate decision. This constitutes a proof-of-principle for using whole-genome sequencing to analyze C. elegans mutants...
  72. doi request reprint Transcriptional control of the terminal fate of monoaminergic neurons
    Nuria Flames
    Department of Biochemistry and Molecular Biophysics, Howard Hughes Medical Institute, Columbia University Medical Center, New York, New York 10032, USA
    Annu Rev Neurosci 34:153-84. 2011
    ....
  73. pmc Automated screening for mutants affecting dopaminergic-neuron specification in C. elegans
    Maria Doitsidou
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, New York 10032, USA
    Nat Methods 5:869-72. 2008
    ..This methodology is considerably more efficient than comparable manual screens and enabled us to isolate mutants in which dopamine neurons do not differentiate appropriately...
  74. ncbi request reprint Two neuronal, nuclear-localized RNA binding proteins involved in synaptic transmission
    Paula M Loria
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, 701 West 168th Street, New York, NY 10032, USA
    Curr Biol 13:1317-23. 2003
    ..elegans homolog of ELAV, is required for the fine tuning of synaptic transmission. These findings thus provide a novel molecular link between pre-mRNA splicing and presynaptic function...
  75. ncbi request reprint Left-right asymmetry in the nervous system: the Caenorhabditis elegans model
    Oliver Hobert
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, College of Physicians and Surgeons, New York, New York 10032, USA
    Nat Rev Neurosci 3:629-40. 2002
  76. ncbi request reprint Caenorhabditis elegans ABL-1 antagonizes p53-mediated germline apoptosis after ionizing irradiation
    Xinzhu Deng
    Laboratory of Signal Transduction, Memorial Sloan Kettering Cancer Center, New York, New York 10021, USA
    Nat Genet 36:906-12. 2004
    ..These studies indicate that ABL-1 distinguishes proapoptotic signals triggered by two different DNA-damaging agents and suggest that C. elegans might provide tissue models for development of anticancer drugs...
  77. ncbi request reprint Ezh2 controls B cell development through histone H3 methylation and Igh rearrangement
    I Hsin Su
    Laboratory of Lymphocyte Signaling, The Rockefeller University, New York, NY 10021, USA
    Nat Immunol 4:124-31. 2003
    ..Our data suggest Ezh2-dependent histone H3 methylation as a novel regulatory mechanism controlling Igh rearrangement during early murine B cell development...
  78. ncbi request reprint Early embryonic programming of neuronal left/right asymmetry in C. elegans
    Richard J Poole
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, New York 10032, USA
    Curr Biol 16:2279-92. 2006
    ..elegans as a paradigm. This bilaterally symmetric neuron pair is functionally lateralized in that it senses a distinct class of chemosensory cues and expresses a putative chemoreceptor family in a L/R asymmetric manner...
  79. ncbi request reprint Perfect seed pairing is not a generally reliable predictor for miRNA-target interactions
    Dominic Didiano
    Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, Howard Hughes Medical Institute, 701 W 168th Street, New York, New York 10032, USA
    Nat Struct Mol Biol 13:849-51. 2006
    ..Rather, lsy-6 can functionally interact with its target site only in specific 3' UTR contexts. Our findings illustrate the difficulty of establishing generalizable rules of miRNA-target interactions...
  80. doi request reprint Vector-free DNA constructs improve transgene expression in C. elegans
    John F Etchberger
    Nat Methods 5:3. 2008
  81. ncbi request reprint An interneuronal chemoreceptor required for olfactory imprinting in C. elegans
    Jean Jacques Remy
    Laboratoire NMDA CNRS UMR 6156, Institut de Biologie du Developpement IBDM, 13288 Marseille Cedex 9, France
    Science 309:787-90. 2005
    ..Our study provides insights into the cellular and molecular basis of olfactory imprinting and reveals a function for a chemosensory receptor family member in interneurons...
  82. pmc Characterization of Caenorhabditis elegans homologs of the Down syndrome candidate gene DYRK1A
    William B Raich
    Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University College of Physicians and Surgeons, New York, New York 10032, USA
    Genetics 163:571-80. 2003
    ..Our results suggest that increased gene dosage of human DYRK1A in trisomy 21 may disrupt the function of fully differentiated neurons and that this disruption is reversible...
  83. ncbi request reprint Developmental regulation of whole cell capacitance and membrane current in identified interneurons in C. elegans
    Serge Faumont
    Institute of Neuroscience, University of Oregon, Eugene, USA
    J Neurophysiol 95:3665-73. 2006
    ..We conclude that AIY interneurons contain distinct pathways for regulating capacitance and membrane current...
  84. ncbi request reprint Oliver Hobert
    Oliver Hobert
    Curr Biol 16:R233-4. 2006
  85. ncbi request reprint New insights into the diversity and function of neuronal immunoglobulin superfamily molecules
    Genevieve Rougon
    Laboratoire NMDA CNRS UMR 6156, Universite de la Mediterranee, Institut de Biologie du Developpement IBDM, Marseille Cedex 9, 13288 France
    Annu Rev Neurosci 26:207-38. 2003
    ..We illustrate that the complexity of IgSF protein function results from various different levels of regulation including regulation of gene expression, protein localization, and protein interactions...
  86. ncbi request reprint The immunoglobulin superfamily in Caenorhabditis elegans and Drosophila melanogaster
    Oliver Hobert
    Development 131:2237-8; author reply 2238-40. 2004
  87. ncbi request reprint Introduction: behavioral genetics--the third century
    Oliver Hobert
    J Neurobiol 54:1-3. 2003

Research Grants26

  1. Stem Cells and Cell Lineage Specification
    Oliver Hobert; Fiscal Year: 2007
    ....
  2. De-coding Cis-regulatory information on a Genome-Wide Level with Single Neuron Re
    Oliver Hobert; Fiscal Year: 2009
    ..We propose here to systematically decode cis-regulatory information on a genome-wide level and to determine the identity of a single neuron-specific gene expression program. ..
  3. De-coding Cis-regulatory information on a Genome-Wide Level with Single Neuron Re
    Oliver Hobert; Fiscal Year: 2009
    ..We propose here to systematically decode cis-regulatory information on a genome-wide level and to determine the identity of a single neuron-specific gene expression program. ..
  4. Diversity Along the Left/Right Axis in Nervous System
    Oliver Hobert; Fiscal Year: 2007
    ..Future genetic studies will determine how the asymmetric activity of these gene regulatory factors is triggered. Our studies may provide novel insights into the creation of cellular diversity in the nervous system. ..
  5. Genetic analysis of dopaminergic neuron specification in C.elegans
    Oliver Hobert; Fiscal Year: 2010
    ..We use genetic approaches in the simple model organism C.elegans to address how the expression of genes that are normally expressed in dopaminergic neurons is regulated. ..
  6. Function and development of a C. elegans GABAergic interneuron
    Oliver Hobert; Fiscal Year: 2010
    ..elegans (Aim #2). PUBLIC HEALTH RELEVANCE: We propose to study development and function of a single GABAergic interneuron in the nematode C. elegans using a combination of genetic, molecular and physiological approaches. ..
  7. Genome-wide expression profiling of miRNAs with single cell resolution
    Oliver Hobert; Fiscal Year: 2006
    ..Moreover, it will (4) validate the "sensor strategy" to determine miRNA expression profiles in C. elegans, and (5) build a toolkit of potentially useful gfp cell fate markers. ..
  8. LIM HOMEOBOX GENE LIM-6 IN MOTOR NEURON DIFFERENTIATION
    Oliver Hobert; Fiscal Year: 2004
    ..These studies may give important insights into the function of the vertebrate homologs of lim-6 as well and may reveal common themes of Lhx gene action. ..
  9. Left/right asymmetric neuronal cell fate specification
    Oliver Hobert; Fiscal Year: 2006
    ..These studies may reveal fundamental principles of neuronal development and may shed light onto the elusive mechanisms of generating L/R asymmetry in the nervous system...
  10. Genetic analysis of dopaminergic neuron specification in C.elegans
    Oliver Hobert; Fiscal Year: 2009
    ..We use genetic approaches in the simple model organism C.elegans to address how the expression of genes that are normally expressed in dopaminergic neurons is regulated. ..