Identification of transcriptional regulatory elements for Ntng1 and Ntng2 genes in mice

Molecular Brain

Volumn 7, Issue 1, 2014, Pages

  Yaguchi, Kunio ^a,b   Nishimura Akiyoshi, Sachiko ^a   Kuroki, Satoshi ^a   Onodera, Takashi ^b   Itohara, Shigeyoshi ^a  

^a RIKEN BRAIN SCIENCE INSTITUTE   (Japan)

^b UNIVERSITY OF TOKYO   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL EXPERIMENT; ANIMAL TISSUE; ARTICLE; BACTERIAL ARTIFICIAL CHROMOSOME; BRAIN FUNCTION; CONTROLLED STUDY; ENHANCER REGION; FEEDBACK SYSTEM; GENE; GENE EXPRESSION; GENE IDENTIFICATION; GENE REGULATORY NETWORK; GENE TARGETING; IN VIVO STUDY; INTRON; MOUSE; NETRIN G1; NETRIN G2; NEWBORN; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN EXPRESSION; PROTEIN FUNCTION; TRANSCRIPTION REGULATION; TRANSGENICS; VERTEBRATE;

ANIMALS; BETA-GALACTOSIDASE; BRAIN; CONSERVED SEQUENCE; ENHANCER ELEMENTS, GENETIC; EVOLUTION, MOLECULAR; GENE EXPRESSION REGULATION; GENE KNOCK-IN TECHNIQUES; GENES, REPORTER; GENETIC LOCI; MICE; MICE, KNOCKOUT; NERVE TISSUE PROTEINS; REGULATORY ELEMENTS, TRANSCRIPTIONAL;

EID: 84899065796     PISSN: None     EISSN: 17566606     Source Type: Journal    
DOI: 10.1186/1756-6606-7-19     Document Type: Article

References (62)

1. Schizophrenia from a neural circuitry perspective: advancing toward rational pharmacological therapies. Lewis DA, Sweet RA, J Clin Invest 2009 119 706 716 10.1172/JCI37335 19339762
2. Autism and brain development. Walsh CA, Morrow EM, Rubenstein JL, Cell 2008 135 396 400 10.1016/j.cell.2008.10.015 18984148
3. A long-range Shh enhancer regulates expression in the developing limb and fin and is associated with preaxial polydactyly. Lettice LA, Heaney SJ, Purdie LA, Li L, de Beer P, Oostra BA, Goode D, Elgar G, Hill RE, de Graaff E, Hum Mol Genet 2003 12 1725 1735 10.1093/hmg/ddg180 12837695
4. Netrin-G1: a novel glycosyl phosphatidylinositol-linked mammalian netrin that is functionally divergent from classical netrins. Nakashiba T, Ikeda T, Nishimura S, Tashiro K, Honjo T, Culotti JG, Itohara S, J Neurosci 2000 20 6540 6550 10964959
5. Complementary expression and neurite outgrowth activity of netrin-G subfamily members. Nakashiba T, Nishimura S, Ikeda T, Itohara S, Mech Dev 2002 111 47 60 10.1016/S0925-4773(01)00600-1 11804778
6. Laminets: laminin- and netrin-related genes expressed in distinct neuronal subsets. Yin Y, Miner JH, Sanes JR, Mol Cell Neurosci 2002 19 344 358 10.1006/mcne.2001.1089 11906208
7. UNC-6, a laminin-related protein, guides cell and pioneer axon migrations in C. elegans. Ishii N, Wadsworth WG, Stern BD, Culotti JG, Hedgecock EM, Neuron 1992 9 873 881 10.1016/0896-6273(92)90240-E 1329863
8. Netrins and netrin receptors. Livesey FJ, Cell Mol Life Sci 1999 56 62 68 10.1007/s000180050006 11213262
9. The netrins define a family of axon outgrowth-promoting proteins homologous to C. elegans UNC-6. Serafini T, Kennedy TE, Galko MJ, Mirzayan C, Jessell TM, Tessier-Lavigne M, Cell 1994 78 409 424 10.1016/0092-8674(94)90420-0 8062384
10. The netrin-G1 ligand NGL-1 promotes the outgrowth of thalamocortical axons. Lin JC, Ho WH, Gurney A, Rosenthal A, Nat Neurosci 2003 6 1270 1276 10.1038/nn1148 14595443
11. NGL family PSD-95-interacting adhesion molecules regulate excitatory synapse formation. Kim S, Burette A, Chung HS, Kwon SK, Woo J, Lee HW, Kim K, Kim H, Weinberg RJ, Kim E, Nat Neurosci 2006 9 1294 1301 10.1038/nn1763 16980967
12. Axonal netrin-Gs transneuronally determine lamina-specific subdendritic segments. Nishimura-Akiyoshi S, Niimi K, Nakashiba T, Itohara S, Proc Natl Acad Sci USA 2007 104 14801 14806 10.1073/pnas.0706919104 17785411
13. Presynaptic netrin-G subtypes differentially control synaptic plasticity and behavior in mice. Matsukawa T, Goto H, Lujan R, Akiyoshi-Nishimura S, Zhang Q, Yaguchi K, Hashikawa T, Shigemoto R, Itohara S, Neuroscience New Orleans, Louisiana: Society for Neuroscience 2012
14. Strong expression of NETRIN-G2 in the monkey claustrum. Miyashita T, Nishimura-Akiyoshi S, Itohara S, Rockland KS, Neuroscience 2005 136 487 496 10.1016/j.neuroscience.2005.08.025 16203099
15. Human netrin-G1 isoforms show evidence of differential expression. Meerabux JM, Ohba H, Fukasawa M, Suto Y, Aoki-Suzuki M, Nakashiba T, Nishimura S, Itohara S, Yoshikawa T, Genomics 2005 86 112 116 10.1016/j.ygeno.2005.04.004 15901489
16. A family-based association study and gene expression analyses of netrin-G1 and -G2 genes in schizophrenia. Aoki-Suzuki M, Yamada K, Meerabux J, Iwayama-Shigeno Y, Ohba H, Iwamoto K, Takao H, Toyota T, Suto Y, Nakatani N, Dean B, Nishimura S, Seki K, Kato T, Itohara S, Nishikawa T, Yoshikawa T, Biol Psychiatry 2005 57 382 393 10.1016/j.biopsych.2004.11.022 15705354
17. Case-control association study of human netrin G1 gene in Japanese schizophrenia. Fukasawa M, Aoki M, Yamada K, Iwayama-Shigeno Y, Takao H, Meerabux J, Toyota T, Nishikawa T, Yoshikawa T, J Med Dent Sci 2004 51 121 128 15508520
18. Association of polymorphisms in the haplotype block spanning the alternatively spliced exons of the NTNG1 gene at 1p13.3 with schizophrenia in Japanese populations. Ohtsuki T, Horiuchi Y, Koga M, Ishiguro H, Inada T, Iwata N, Ozaki N, Ujike H, Watanabe Y, Someya T, Arinami T, Neurosci Lett 2008 435 194 197 10.1016/j.neulet.2008.02.053 18384956
19. Interstitial deletion of the short arm of chromosome 1 (1p13.1p21.1) in a girl with mental retardation, short stature and colobomata. Bisgaard AM, Rasmussen LN, Moller HU, Kirchhoff M, Bryndorf T, Clin Dysmorphol 2007 16 109 112 10.1097/01.mcd.0000228425.89660.bf 17351355
20. Disruption of Netrin G1 by a balanced chromosome translocation in a girl with Rett syndrome. Borg I, Freude K, Kubart S, Hoffmann K, Menzel C, Laccone F, Firth H, Ferguson-Smith MA, Tommerup N, Ropers HH, Sargan D, Kalscheuer VM, Eur J Hum Genet 2005 13 921 927 10.1038/sj.ejhg.5201429 15870826
21. Decreased mRNA expression of netrin-G1 and netrin-G2 in the temporal lobe in schizophrenia and bipolar disorder. Eastwood SL, Harrison PJ, Neuropsychopharmacology 2008 33 933 945 10.1038/sj.npp.1301457 17507910
22. Markers of glutamate synaptic transmission and plasticity are increased in the anterior cingulate cortex in bipolar disorder. Eastwood SL, Harrison PJ, Biol Psychiatry 2010 67 1010 1016 10.1016/j.biopsych.2009.12.004 20079890
23. A gene expression atlas of the central nervous system based on bacterial artificial chromosomes. Gong S, Zheng C, Doughty ML, Losos K, Didkovsky N, Schambra UB, Nowak NJ, Joyner A, Leblanc G, Hatten ME, Heintz N, Nature 2003 425 917 925 10.1038/nature02033 14586460
24. Production of green fluorescent protein transgenic embryonic stem cells using the GENSAT bacterial artificial chromosome library. Tomishima MJ, Hadjantonakis AK, Gong S, Studer L, Stem Cells 2007 25 39 45 10.1634/stemcells.2006-0173 16990587
25. Recombineering: a powerful new tool for mouse functional genomics. Copeland NG, Jenkins NA, Court DL, Nat Rev Genet 2001 2 769 779 11584293
26. Computational screening of conserved genomic DNA in search of functional noncoding elements. Bejerano G, Siepel AC, Kent WJ, Haussler D, Nat Methods 2005 2 535 545 10.1038/nmeth0705-535 16170870
27. Identification of conserved regulatory elements by comparative genome analysis. Lenhard B, Sandelin A, Mendoza L, Engstrom P, Jareborg N, Wasserman WW, J Biol 2003 2 13 10.1186/1475-4924-2-13 12760745
28. Comparative genomics: genome-wide analysis in metazoan eukaryotes. Ureta-Vidal A, Ettwiller L, Birney E, Nat Rev Genet 2003 4 251 262 12671656
29. One neuron-one receptor rule in the mouse olfactory system. Serizawa S, Miyamichi K, Sakano H, Trends Genet 2004 20 648 653 10.1016/j.tig.2004.09.006 15522461
30. A stepwise epigenetic process controls immunoglobulin allelic exclusion. Bergman Y, Cedar H, Nat Rev Immunol 2004 4 753 761 10.1038/nri1458 15459667
31. The lingering enigma of the allelic exclusion mechanism. Mostoslavsky R, Alt FW, Rajewsky K, Cell 2004 118 539 544 10.1016/j.cell.2004.08.023 15339659
32. A new logic for DNA engineering using recombination in Escherichia coli. Zhang Y, Buchholz F, Muyrers JP, Stewart AF, Nat Genet 1998 20 123 128 10.1038/2417 9771703
33. VISTA: computational tools for comparative genomics. Frazer KA, Pachter L, Poliakov A, Rubin EM, Dubchak I, Nucleic Acids Res 2004 32 273 279 10.1093/nar/gkh458 15215394
34. A synaptic model of memory: long-term potentiation in the hippocampus. Bliss TV, Collingridge GL, Nature 1993 361 31 39 10.1038/361031a0 8421494
35. On the role of the hippocampus in learning and memory in the rat. Jarrard LE, Behav Neural Biol 1993 60 9 26 10.1016/0163-1047(93)90664-4 8216164
36. Transgenic inhibition of synaptic transmission reveals role of CA3 output in hippocampal learning. Nakashiba T, Young JZ, McHugh TJ, Buhl DL, Tonegawa S, Science 2008 319 1260 1264 10.1126/science.1151120 18218862
37. Loss of recent memory after bilateral hippocampal lesions. Scoville WB, Milner B, J Neurol Neurosurg Psychiatry 1957 20 11 21 10.1136/jnnp.20.1.11 13406589
38. The medial temporal lobe. Squire LR, Stark CE, Clark RE, Annu Rev Neurosci 2004 27 279 306 10.1146/annurev.neuro.27.070203.144130 15217334
39. An area specialized for spatial working memory in human frontal cortex. Courtney SM, Petit L, Maisog JM, Ungerleider LG, Haxby JV, Science 1998 279 1347 1351 10.1126/science.279.5355.1347 9478894
40. Circuitry of Primate Prefrontal Cortex and Regulation of Behavior by Representational Memory. Goldman-Rakic PS, Handbook of Physiology, The Nervous System, Higher Functions of the Brain Bethesda: American Physiological Society 1987 37 417
41. The prefrontal cortex and working memory: physiology and brain imaging. Passingham D, Sakai K, Curr Opin Neurobiol 2004 14 163 168 10.1016/j.conb.2004. 03.003 15082320
42. What is the function of the claustrum? Crick FC, Koch C, Philos Trans R Soc Lond B Biol Sci 2005 360 1271 1279 10.1098/rstb.2005.1661 16147522
43. Function of the thalamic reticular complex: the searchlight hypothesis. Crick F, Proc Natl Acad Sci USA 1984 81 4586 4590 10.1073/pnas.81.14.4586 6589612
44. Genetic dissection of medial habenula-interpeduncular nucleus pathway function in mice. Kobayashi Y, Sano Y, Vannoni E, Goto H, Suzuki H, Oba A, Kawasaki H, Kanba S, Lipp HP, Murphy NP, Wolfer DP, Itohara S, Front Behav Neurosci 2013 7 17 23487260
45. A conductor hidden in the orchestra? Role of the habenular complex in monoamine transmission and cognition. Lecourtier L, Kelly PH, Neurosci Biobehav Rev 2007 31 658 672 10.1016/j.neubiorev.2007.01.004 17379307
46. Epithalamus calcifications in schizophrenia. Caputo A, Ghiringhelli L, Dieci M, Giobbio GM, Tenconi F, Ferrari L, Gimosti E, Prato K, Vita A, Eur Arch Psychiatry Clin Neurosci 1998 248 272 276 10.1007/s004060050049 9928904
47. DNase I-hypersensitive exons colocalize with promoters and distal regulatory elements. Mercer TR, Edwards SL, Clark MB, Neph SJ, Wang H, Stergachis AB, John S, Sandstrom R, Li G, Sandhu KS, Ruan Y, Nielsen LK, Mattick JS, Stamatoyannopoulos JA, Nat Genet 2013 45 852 859 10.1038/ng.2677 23793028
48. MatInspector and beyond: promoter analysis based on transcription factor binding sites. Cartharius K, Frech K, Grote K, Klocke B, Haltmeier M, Klingenhoff A, Frisch M, Bayerlein M, Werner T, Bioinformatics 2005 21 2933 2942 10.1093/bioinformatics/bti473 15860560
49. Genetic approaches to investigate the role of CREB in neuronal plasticity and memory. Barco A, Marie H, Mol Neurobiol 2011 44 330 349 10.1007/s12035-011-8209-x 21948060
50. The draft genome of Ciona intestinalis: insights into chordate and vertebrate origins. Dehal P, Satou Y, Campbell RK, Chapman J, Degnan B, De Tomaso A, Davidson B, Di Gregorio A, Gelpke M, Goodstein DM, Harafuji N, Hastings KE, Ho I, Hotta K, Huang W, Kawashima T, Lemaire P, Martinez D, Meinertzhagen IA, Necula S, Nonaka M, Putnam N, Rash S, Saiga H, Satake M, Terry A, Yamada L, Wang HG, Awazu S, Azumi K, et al. Science 2002 298 2157 2167 10.1126/science.1080049 12481130
51. The amphioxus genome and the evolution of the chordate karyotype. Putnam NH, Butts T, Ferrier DE, Furlong RF, Hellsten U, Kawashima T, Robinson-Rechavi M, Shoguchi E, Terry A, Yu JK, Benito-Gutierrez EL, Dubchak I, Garcia-Fernandez J, Gibson-Brown JJ, Grigoriev IV, Horton AC, de Jong PJ, Jurka J, Kapitonov VV, Kohara Y, Kuroki Y, Lindquist E, Lucas S, Osoegawa K, Pennacchio LA, Salamov AA, Satou Y, Sauka-Spengler T, Schmutz J, Shin IT, et al. Nature 2008 453 1064 1071 10.1038/nature06967 18563158
52. Sequencing of the sea lamprey (Petromyzon marinus) genome provides insights into vertebrate evolution. Smith JJ, Kuraku S, Holt C, Sauka-Spengler T, Jiang N, Campbell MS, Yandell MD, Manousaki T, Meyer A, Bloom OE, Morgan JR, Buxbaum JD, Sachidanandam R, Sims C, Garruss AS, Cook M, Krumlauf R, Wiedemann LM, Sower SA, Decatur WA, Hall JA, Amemiya CT, Saha NR, Buckley KM, Rast JP, Das S, Hirano M, McCurley N, Guo P, Rohner N, et al. Nat Genet 2013 45 415 421 421e411-412 10.1038/ng.2568 23435085
53. Preservation of duplicate genes by complementary, degenerative mutations. Force A, Lynch M, Pickett FB, Amores A, Yan YL, Postlethwait J, Genetics 1999 151 1531 1545 10101175
54. The evolution of gene duplications: classifying and distinguishing between models. Innan H, Kondrashov F, Nat Rev Genet 2010 11 97 108 20051986
55. Use of mutated FLP recognition target (FRT) sites for the exchange of expression cassettes at defined chromosomal loci. Schlake T, Bode J, Biochemistry 1994 33 12746 12751 10.1021/bi00209a003 7947678
56. DNA cassette exchange in ES cells mediated by Flp recombinase: an efficient strategy for repeated modification of tagged loci by marker-free constructs. Seibler J, Schubeler D, Fiering S, Groudine M, Bode J, Biochemistry 1998 37 6229 6234 10.1021/bi980288t 9572836
57. Postnatal expression of Cdkl2 in mouse brain revealed by LacZ inserted into the Cdkl2 locus. Sassa T, Gomi H, Itohara S, Cell Tissue Res 2004 315 147 156 10.1007/s00441-003-0828-8 14605869
58. Generation of transgenic mice from plasmids, BACs and YACs. Hammes A, Schedl A, Mouse genetics and transgenics aCMA. Leeds: Oxford University Press, Jackson IJ, 2000 217 245
59. Expression of a retinoic acid response element-hsplacZ transgene defines specific domains of transcriptional activity during mouse embryogenesis. Rossant J, Zirngibl R, Cado D, Shago M, Giguere V, Genes Dev 1991 5 1333 1344 10.1101/gad.5.8.1333 1907940
60. Enhancer analysis of the mouse HNF-3 beta gene: regulatory elements for node/notochord and floor plate are independent and consist of multiple sub-elements. Sasaki H, Hogan BL, Genes Cells 1996 1 59 72 10.1046/j.1365-2443. 1996.04004.x 9078367
61. LAGAN and Multi-LAGAN: efficient tools for large-scale multiple alignment of genomic DNA. Brudno M, Do CB, Cooper GM, Kim MF, Davydov E, Green ED, Sidow A, Batzoglou S, Genome Res 2003 13 721 731 10.1101/gr.926603 12654723
62. Genome-wide atlas of gene expression in the adult mouse brain. Lein ES, Hawrylycz MJ, Ao N, Ayres M, Bensinger A, Bernard A, Boe AF, Boguski MS, Brockway KS, Byrnes EJ, Chen L, Chen TM, Chin MC, Chong J, Crook BE, Czaplinska A, Dang CN, Datta S, Dee NR, Desaki AL, Desta T, Diep E, Dolbeare TA, Donelan MJ, Dong HW, Dougherty JG, Duncan BJ, Ebbert AJ, Eichele G, Estin LK, et al. Nature 2007 445 168 176 10.1038/nature05453 17151600