Searching for neuronal left/right asymmetry: Genomewide analysis of nematode receptor-type guanylyl cyclases

Genetics

Volumn 173, Issue 1, 2006, Pages 131-149

  Ortiz, Christopher O ^a   Etchberger, John F ^a   Posy, Shoshana L ^a,b   Frøkjær Jensen, Christian ^c   Lockery, Shawn ^c   Honig, Barry ^a,b   Hobert, Oliver ^a,d  

^a NewYork Presbyterian Hospital   (United States)

^b HOWARD HUGHES MEDICAL INSTITUTE   (United States)

^c UNIVERSITY OF OREGON   (United States)

^d Och Spine at New York Presbyterian Hospitals   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

GUANYLATE CYCLASE; MICRORNA; TRANSCRIPTION FACTOR;

ARTICLE; CAENORHABDITIS ELEGANS; GENE CONTROL; GENE EXPRESSION; GENE SEQUENCE; GENE STRUCTURE; GENETIC ANALYSIS; NEMATODE; NERVOUS SYSTEM FUNCTION; NONHUMAN; PRIORITY JOURNAL;

ALLELES; ANIMALS; BODY PATTERNING; CAENORHABDITIS ELEGANS; CHROMOSOMES; EVOLUTION, MOLECULAR; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENES, HELMINTH; GENES, REPORTER; GENOME, HELMINTH; GENOMICS; MUTATION; NEURONS; PHYLOGENY; RECEPTORS, GUANYLATE CYCLASE-COUPLED; SEQUENCE HOMOLOGY, NUCLEIC ACID; SPECIES SPECIFICITY; SYNTENY;

CAENORHABDITIS ELEGANS; NEMATODA;

EID: 33744483160     PISSN: 00166731     EISSN: 00166731     Source Type: Journal    
DOI: 10.1534/genetics.106.055749     Document Type: Article

References (51)

1. BARGMANN, C. I., 1998 Neurobiology of the Caenorhabditis elegans genome. Science 282: 2028-2033.
2. BARGMANN, C. I., and H. R. HORVITZ, 1991 Chemosensory neurons with overlapping functions direct chemotaxis to multiple chemicals in C. elegans. Neuron 7: 729-742.
3. BARGMANN, C. I., and I. MORI, 1997 Chemotaxis and thermotaxis, pp. 717-738 in C.elegans II, edited by D. L. RIDDLE, T. BLUMENTHAL, B. J. MEYER and J. R. PRIESS. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
4. BIGELOW, H. R., A. S. WENICK, A. WONG and O. HOBERT, 2004 CisOrtho: a program pipeline for genome-wide identification of transcription factor target genes using phylogenetic footprinting. BMC Bioinformatics 5: 27.
5. BIRNBY, D. A., E. M. LINK, J. J. VOWELS, H. TIAN, P. L. COLACURCIO et al., 2000 A transmembrane guanylyl cyclase (DAF-11) and Hsp90 (DAF-21) regulate a common set of chemosensory behaviors in Caenorhabditis elegans. Genetics 155: 85-104.
6. BULYK, M. L., 2003 Computational prediction of transcription-factor binding site locations. Genome Biol. 5: 201.
7. CARROLL, S. B., J. K. GRENIER and S. D. WEATHERBEE, 2001 From DNA to Diversity: Molecular Genetics and the Evolution of Animal Design. Blackwell Science, Malden, MA.
8. CHANG, S., R. J. JOHNSTON, JR. and O. HOBERT, 2003 A transcriptional regulatory cascade that controls left/right asymmetry in chemosensory neurons of C. elegans. Genes Dev. 17: 2123-2137.
9. CHANG, S., R. J. JOHNSTON, C. FROKJAER-JENSEN, S. LOCKERY and O. HOBERT, 2004 MicroRNAs act sequentially and asymmetrically to control chemosensory laterality in the nematode. Nature 430: 785-789.
10. CHEUNG, B. H., F. ARELLANO-CARBAJAL, I. RYBICKI and M. DE BONO, 2004 Soluble guanylate cyclases act in neurons exposed to the body fluid to promote C. elegans aggregation behavior. Curr. Biol. 14: 1105-1111.
11. CHEUNG, B. H., M. COHEN, C. ROGERS, O. ALBAYRAM and M. DE BONO, 2005 Experience-dependent modulation of C. elegans behavior by ambient oxygen. Curr. Biol. 15: 905-917.
12. EDDY, S. R., 1998 Profile hidden Markov models. Bioinformatics 14: 755-763.
13. FAUMONT, S., and S. R. LOCKERY, 2006 The awake behaving worm: simultaneous imaging of neuronal activity and behavior in intact animals at millimeter scale. J. Neurophysiol. 95: 1976-1981.
14. FAUMONT, S., A. C. MILLER and S. R. LOCKERY, 2005 Chemosensory behavior of semi-restrained Caenorhabditis elegans. J. Neurobiol. 65: 171-178.
15. GRAY, J. M., D. S. KAROW, H. LU, A. J. CHANG, J. S. CHANG et al., 2004 Oxygen sensation and social feeding mediated by a C. elegans guanylate cyclase homologue. Nature 430: 317-322.
16. HEDGECOCK, E. M., J. G. CULOTTI, J. N. THOMSON and L. A. PERKINS, 1985 Axonal guidance mutants of Caenorhabditis elegans identified by filling sensory neurons with fluorescein dyes. Dev. Biol. 111: 158-170.
17. HOBERT, O., 2002 PCR fusion-based approach to create reporter gene constructs for expression analysis in transgenic C. elegans. Biotechniques 32: 728-730.
18. HOBERT, O., K. TESSMAR and G. RUVKUN, 1999 The Caenorhabditis elegans lim-6 LIM homeobox gene regulates neurite outgrowth and function of particular GABAergic neurons. Development 126: 1547-1562.
19. HOBERT, O., R. J. JOHNSTON, JR. and S. CHANG, 2002 Left-right asymmetry in the nervous system: the Caenorhabditis elegans model. Nat. Rev. Neurosci. 3: 629-640.
20. HUGDAHL, K., and R. J. DAVIDSON (Editors), 2003 The Asymmetrical Brain. MIT Press, Cambridge, MA.
21. INADA, H., H. ITO, J. SATTERLEE, P. SENGUPTA, K. MATSUMOTO et al., 2006 Identification of guanylyl cyclases that function in thermosensory neurons of Caenorhabditis elegans. Genetics 172: 2239-2252.
22. JOHNSTON, R. J., and O. HOBERT, 2003 A microRNA controlling left/right neuronal asymmetry in Caenorhabditis elegans. Nature 426: 845-849.
23. JOHNSTON, R. J., JR., and O. HOBERT, 2005 A novel C. elegans zinc finger transcription factor, lsy-2, required for the cell type-specific expression of the lsy-6 microRNA. Development 132: 5451-5460.
24. JOHNSTON, R. J., JR., S. CHANG, J. F. ETCHBERGER, C. O. ORTIZ and O. HOBERT, 2005 MicroRNAs acting in a double-negative feedback loop to control a neuronal cell fate decision. Proc. Natl. Acad. Sci. USA 102: 12449-12454.
25. L'ETOILE, N. D., and C. I. BARGMANN, 2000 Olfaction and odor discrimination are mediated by the C. elegans guanylyl cyclase ODR-1. Neuron 25: 575-586.
26. LI, C., L. S. NELSON, K. KIM, A. NATHOO and A. C. HART, 1999 Neuropeptide gene families in the nematode Caenorhabditis elegans. Ann. NY Acad. Sci. 897: 239-252.
27. LORIA, P. M., J. HODGKIN and O. HOBERT, 2004 A conserved postsynaptic transmembrane protein affecting neuromuscular signaling in Caenorhabditis elegans. J. Neurosci. 24: 2191-2201.
28. LUCAS, K. A., G. M. PITARI, S. KAZEROUNIAN, I. RUIZ-STEWART, J. PARK et al., 2000 Guanylyl cyclases and signaling by cyclic GMP. Pharmacol. Rev. 52: 375-414.
29. MELLO, C. C., J. M. KRAMER, D. STINCHCOMB and V. AMBROS, 1991 Efficient gene transfer in C. elegans: extrachromosomal maintenance and integration of transforming sequences. EMBO J. 10: 3959-3970.
30. MILLER, A. C., T. R. THIELE, S. FAUMONT, M. L. MORAVEC and S. R. LOCKERY, 2005 Step-response analysis of chemotaxis in Caenorhabditis elegans. J. Neurosci. 25: 3369-3378.
31. MORTON, D. B., 2004 Invertebrates yield a plethora of atypical guanylyl cyclases. Mol. Neurobiol. 29: 97-116.
32. NOTREDAME, C., D. G. HIGGINS and J. HERINGA, 2000 T-coffee: a novel method for fast and accurate multiple sequence alignment. J. Mol. Biol. 302: 205-217.
33. PAGE, R. D., 1996 TreeView: an application to display phylogenetic trees on personal computers. Comput. Appl. Biosci. 12: 357-358.
34. PIERCE-SHIMOMURA, J. T., S. FAUMONT, M. R. GASTON, B. J. PEARSON and S. R. LOCKERY, 2001 The homeobox gene lim-6 is required for distinct chemosensory representations in C. elegans. Nature 410: 694-698.
35. RANKIN, C. H., 2005 Nematode memory: Now, where was I? Curr. Biol. 15: R374-R375.
36. SALAMOV, A. A., and V. V. SOLOVYEV, 2000 Ab initio gene finding in Drosophila genomic DNA. Genome Res. 10: 516-522.
37. SAMBONGI, Y., T. NAGAE, Y. LIU, T. YOSHIMIZU, K. TAKEDA et al., 1999 Sensing of cadmium and copper ions by externally exposed ADL, ASE, and ASH neurons elicits avoidance response in Caenorhabditis elegans. Neuroreport 10: 753-757.
38. STEIN, L. D., Z. BAO, D. BLASIAR, T. BLUMENTHAL, M. R. BRENT et al., 2003 The genome sequence of Caenorhabditis briggsae: a platform for comparative genomics. PLoS Biol. 1: E45.
39. SUN, T., C. PATOINE, A. ABU-KHALIL, J. VISVADER, E. SUM et al., 2005 Early asymmetry of gene transcription in embryonic human left and right cerebral cortex. Science 308: 1794-1798.
40. SWOFFORD, D. L., 2003 PAUP: Phylogenetic Analysis Using Parsimony and Other Methods. Sinauer Associates, Sunderland, MA.
41. TAYLOR, S. S., D. R. KNIGHTON, J. ZHENG, L. F. TEN EYCK and J. M. SOWADSKI, 1992 Structural framework for the protein kinase family. Annu. Rev. Cell Biol. 8: 429-462.
42. TROEMEL, E. R., A. SAGASTI and C. I. BARGMANN, 1999 Lateral signaling mediated by axon contact and calcium entry regulates asymmetric odorant receptor expression in C. elegans. Cell 99: 387-398.
43. VAN DEN AKKER, F., X. ZHANG, M. MIYAGI, X. HUO, K. S. MISONO et al., 2000 Structure of the dimerized hormone-binding domain of a guanylyl-cyclase-coupled receptor. Nature 406: 101-104.
44. WARD, S., 1973 Chemotaxis by the nematode Caenorhabditis elegans: identification of attractants and analysis of the response by use of mutants. Proc. Natl. Acad. Sci. USA 70: 817-821.
45. WEDEL, B., and D. GARBERS, 2001 The guanylyl cyclase family at Y2K. Annu. Rev. Physiol. 63: 215-233.
46. WENICK, A. S., and O. HOBERT, 2004 Genomic cis-regulatory architecture and trans-acting regulators of a single interneuronspecific gene battery in C. elegans. Dev. Cell 6: 757-770.
47. WES, P. D., and C. I. BARGMANN, 2001 C. elegans odour discrimination requires asymmetric diversity in olfactory neurons. Nature 410: 698-701.
48. WHITE, J. G., E. SOUTHGATE, J. N. THOMSON and S. BRENNER, 1986 The structure of the nervous system of the nematode Caenorhabditis elegans. Philos. Trans. R. Soc. Lond. B Biol. Sci. 314: 1-340.
49. WICKS, S. R., C. J. DE VRIES, H. G. VAN LUENEN and R. H. PLASTERK, 2000 CHE-3, a cytosolic dynein heavy chain, is required for sensory cilia structure and function in Caenorhabditis elegans. Dev. Biol. 221: 295-307.
50. YAN, S. Z., Z. H. HUANG, R. S. SHAW and W. J. TANG, 1997 The conserved asparagine and arginine are essential for catalysis of mammalian adenylyl cyclase. J. Biol. Chem. 272: 12342-12349.
51. YU, S., L. AVERY, E. BAUDE and D. L. GARBERS, 1997 Guanylyl cyclase expression in specific sensory neurons: a new family of chemosensory receptors. Proc. Natl. Acad. Sci. USA 94: 3384-3387.