Characterization of the regulatory region of the dopa decarboxylase gene in Medaka: An in vivo green fluorescent protein reporter assay combined with a simple ta-cloning method

Molecular Biotechnology

Volumn 41, Issue 3, 2009, Pages 224-235

  Fujimori, Kazuhiro E ^a  

^a NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY AIST   (Japan)

Author keywords

Cell type specific; Gene expression; In vivo; Medaka; Promoter; TA cloning

Indexed keywords

COMPLEX REGULATION; DECARBOXYLASES; DIFFERENTIATED CELLS; EXPRESSION VECTORS; GERM LINE; GREEN FLUORESCENT PROTEIN; IN VIVO; MEDAKA; MULTICELLULAR ORGANISMS; ORYZIAS LATIPES; PROMOTER; PROMOTER REGION; RAPID CONSTRUCTION; RAPID SCREENING; REGULATORY REGIONS; REPORTER ASSAY; REPORTER GENE; REPORTER-GENE EXPRESSION; SPATIOTEMPORAL CHARACTERISTICS; TA-CLONING; TRANSCRIPTIONAL MACHINERY; TRANSGENIC LINES;

BIOACTIVITY; BRAIN; CELL MEMBRANES; GENE EXPRESSION; LAWS AND LEGISLATION; MACHINERY;

CLONING;

AROMATIC LEVO AMINO ACID DECARBOXYLASE; DOPAMINE; GREEN FLUORESCENT PROTEIN; NEUROTRANSMITTER; SEROTONIN; ENHANCED GREEN FLUORESCENT PROTEIN; FISH PROTEIN;

ANIMAL TISSUE; ARTICLE; ASSAY; BRAIN; EPIPHYSIS; GANGLION; GENE EXPRESSION; GENOME; INTESTINE; KIDNEY; LIVER; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; ORYZIAS; PHYLOGENY; RETINA; AMINO ACID SEQUENCE; ANIMAL; ANIMAL EMBRYO; CHEMISTRY; CHICKEN; GENE EXPRESSION REGULATION; GENETIC DATABASE; GENETICS; GROWTH, DEVELOPMENT AND AGING; HUMAN; METABOLISM; MOLECULAR GENETICS; MOUSE; PRENATAL DEVELOPMENT; PROMOTER REGION; SEQUENCE ALIGNMENT; ZEBRA FISH;

ORYZIAS LATIPES; ORYZIINAE;

AMINO ACID SEQUENCE; ANIMALS; CHICKENS; CLONING, MOLECULAR; DATABASES, GENETIC; DOPA DECARBOXYLASE; EMBRYO, NONMAMMALIAN; FISH PROTEINS; GENE EXPRESSION REGULATION; GREEN FLUORESCENT PROTEINS; HUMANS; MICE; MOLECULAR SEQUENCE DATA; ORYZIAS; PHYLOGENY; PROMOTER REGIONS, GENETIC; SEQUENCE ALIGNMENT; ZEBRAFISH;

EID: 67949106626     PISSN: 10736085     EISSN: None     Source Type: Journal    
DOI: 10.1007/s12033-008-9120-1     Document Type: Article

References (40)

1. Y Wakamatsu S Pristyazhnyuk M Kinoshita M Tanaka K Ozato 2001 The see-through medaka: A fish model that is transparent throughout life Proceedings of the National Academy of Sciences of the United States of America 98 10046 10050 10.1073/pnas.181204298 10.1073/pnas.181204298 1:CAS:528: DC%2BD3MXmvFWitr8%3D (Pubitemid 32802971)
2. OA Elsalini KB Rohr 2003 Phenylthiourea disrupts thyroid function in developing zebrafish Development Genes and Evolution 212 593 598 1:CAS:528:DC%2BD3sXitlejsLg%3D
3. WD Wang Y Wang HJ Wen DR Buhler CH Hu 2004 Phenylthiourea as a weak activator of aryl hydrocarbon receptor inhibiting 2, 3, 7, 8-tetrachlorodibenzo- p-dioxin-induced CYP1A1 transcription in zebrafish embryo Biochemical Pharmacology 68 63 71 10.1016/j.bcp.2004.03.010 10.1016/j.bcp.2004.03.010 1:CAS:528:DC%2BD2cXkslWlu7s%3D (Pubitemid 38746542)
4. S Imai T Sasaki A Shimizu S Asakawa H Hori N Shimizu 2007 The genome size evolution of medaka (Oryzias latipes) and fugu (Takifugu rubripes) Genes & Genetic Systems 82 135 144 10.1266/ggs.82.135 10.1266/ggs.82.135 1:CAS:528:DC%2BD2sXoslGksbc%3D (Pubitemid 46743507)
5. B Ahsan D Kobayashi T Yamada M Kasahara S Sasaki TL Saito Y Nagayasu K Doi Y Nakatani W Qu T Jindo A Shimada K Naruse A Toyoda Y Kuroki A Fujiyama T Sasaki A Shimizu S Asakawa N Shimizu SI Hashimoto J Yang Y Lee K Matsushima S Sugano M Sakaizumi T Narita K Ohishi S Haga F Ohta H Nomoto K Nogata T Morishita T Endo IT Shin H Takeda Y Kohara S Morishita 2008 UTGB/medaka: Genomic resource database for medaka biology Nucleic Acids Research 36 D747 D752 10.1093/nar/gkm765 10.1093/nar/gkm765 1:CAS:528:DC%2BD1cXhtVWit7g%3D (Pubitemid 351149818)
6. M Kasahara K Naruse S Sasaki Y Nakatani W Qu B Ahsan T Yamada Y Nagayasu K Doi Y Kasai T Jindo D Kobayashi A Shimada A Toyoda Y Kuroki A Fujiyama T Sasaki A Shimizu S Asakawa N Shimizu S Hashimoto J Yang Y Lee K Matsushima S Sugano M Sakaizumi T Narita K Ohishi S Haga F Ohta H Nomoto K Nogata T Morishita T Endo IT Shin H Takeda S Morishita Y Kohara 2007 The medaka draft genome and insights into vertebrate genome evolution Nature 447 714 719 10.1038/nature05846 10.1038/nature05846 1:CAS:528:DC%2BD2sXmtFemu7c%3D (Pubitemid 46889726)
7. Fujimori, K. E., Kawasaki, T., Deguchi, T., & Yuba, S. (in press). Characterization of a nervous system-specific promoter for growth-associated protein 43 gene in Medaka (Oryzias latipes). Brain Research. doi: 10.1016/j.brainres.2008.09.071.
8. S Kumar K Tamura M Nei 2004 MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment Briefings in Bioinformatics 5 150 163 10.1093/bib/5.2.150 10.1093/bib/5.2.150 1:CAS:528:DC%2BD2cXntFGqu7s%3D
9. AY Borovkov MI Rivkin 1997 XcmI-containing vector for direct cloning of PCR products BioTechniques 22 812 814 1:CAS:528:DyaK2sXjtFWqt74%3D
10. N Goda T Tenno H Takasu H Hiroaki M Shirakawa 2004 The PRESAT-vector: asymmetric T-vector for high-throughput screening of soluble protein domains for structural proteomics Protein Science 13 652 658 10.1110/ps.03439004 10.1110/ps.03439004 1:CAS:528:DC%2BD2cXhvVCmtLs%3D (Pubitemid 38252562)
11. C Jo SA Jo 2001 A simple method to construct T-vectors using XcmI cassettes amplified by nonspecific PCR Plasmid 45 37 40 10.1006/plas.2000.1500 10.1006/plas.2000.1500 1:CAS:528:DC%2BD3MXhslKhtbc%3D (Pubitemid 32150782)
12. QJ Chen HM Zhou J Chen XC Wang 2006 Using a modified TA cloning method to create entry clones Analytical Biochemistry 358 120 125 10.1016/j.ab.2006.08. 015 10.1016/j.ab.2006.08.015 1:CAS:528:DC%2BD28XhtVyktrfI (Pubitemid 44511906)
13. JU Jeung SK Cho KS Shim SH Ok DS Lim JS Shin 2002 Construction of two pGEM-7Zf(+) phagemid T-tail vectors using AhdI-restriction endonuclease sites for direct cloning of PCR products Plasmid 48 160 163 10.1016/S0147-619X(02) 00122-1 10.1016/S0147-619X(02)00122-1 1:CAS:528:DC%2BD38XnsVeru7w%3D (Pubitemid 35300807)
14. N Arashi-Heese M Miwa H Shibata 1999 XcmI site-containing vector for direct cloning and in vitro transcription of PCR product Molecular Biotechnology 12 281 283 10.1385/MB:12:3:281 10.1385/MB:12:3:281 1:CAS:528: DC%2BD3cXivVChsw%3D%3D
15. C Jo B Kang SA Jo 2001 Development of new T-vectors containing the luciferase gene. Easy application for direct cloning of a promoter DNA Molecular Biotechnology 19 331 334 10.1385/MB:19:3:331 10.1385/MB:19:3:331 1:CAS:528:DC%2BD3MXos1aisbw%3D (Pubitemid 33063513)
16. LE Saenz-de-Miera FJ Ayala 2004 Complex evolution of orthologous and paralogous decarboxylase genes Journal of Evolutionary Biology 17 55 66 10.1046/j.1420-9101.2003.00652.x 10.1046/j.1420-9101.2003.00652.x 1:CAS:528:DC%2BD2cXhslGns78%3D (Pubitemid 38162180)
17. S Ishii H Mizuguchi J Nishino H Hayashi H Kagamiyama 1996 Functionally important residues of aromatic l-amino acid decarboxylase probed by sequence alignment and site-directed mutagenesis Journal of Biochemistry 120 369 376 1:CAS:528:DyaK28XmtVOru7w%3D
18. P Burkhard P Dominici C Borri-Voltattorni JN Jansonius VN Malashkevich 2001 Structural insight into Parkinson's disease treatment from drug-inhibited DOPA decarboxylase Nature Structural Biology 8 963 967 10.1038/nsb1101-963 10.1038/nsb1101-963 1:CAS:528:DC%2BD3MXotlShsrk%3D (Pubitemid 33032365)
19. M Bertoldi S Castellani C Bori Voltattorni 2001 Mutation of residues in the coenzyme binding pocket of Dopa decarboxylase. Effects on catalytic properties European Journal of Biochemistry 268 2975 2981 10.1046/j.1432-1327. 2001.02187.x 10.1046/j.1432-1327.2001.02187.x 1:CAS:528:DC%2BD3MXktVSktLg%3D (Pubitemid 32862982)
20. M Ando-Yamamoto H Hayashi T Sugiyama H Fukui T Watanabe H Wada 1987 Purification of L-dopa decarboxylase from rat liver and production of polyclonal and monoclonal antibodies against it Journal of Biochemistry 101 405 414 1:CAS:528:DyaL2sXhslWltLw%3D
21. K Shirota H Fujisawa 1988 Purification and characterization of aromatic l-amino acid decarboxylase from rat kidney and monoclonal antibody to the enzyme Journal of Neurochemistry 51 426 434 10.1111/j.1471-4159.1988.tb01056.x 10.1111/j.1471-4159.1988.tb01056.x 1:CAS:528:DyaL1cXltVKrurY%3D (Pubitemid 18186763)
22. JT Kadonaga 2004 Regulation of RNA polymerase II transcription by sequence-specific DNA binding factors Cell 116 247 257 10.1016/S0092-8674(03) 01078-X 10.1016/S0092-8674(03)01078-X 1:CAS:528:DC%2BD2cXhtVals78%3D (Pubitemid 38173000)
23. JE Butler JT Kadonaga 2002 The RNA polymerase II core promoter: A key component in the regulation of gene expression Genes & Development 16 2583 2592 10.1101/gad.1026202 10.1101/gad.1026202 1:CAS:528:DC%2BD38XotFelu74%3D
24. DA Kleinjan V van Heyningen 2005 Long-range control of gene expression: Emerging mechanisms and disruption in disease American Journal of Human Genetics 76 8 32 10.1086/426833 10.1086/426833 1:CAS:528:DC%2BD2MXhtVyntg%3D%3D (Pubitemid 40023762)
25. R Forghani L Garofalo DR Foran HF Farhadi P Lepage TJ Hudson I Tretjakoff P Valera A Peterson 2001 A distal upstream enhancer from the myelin basic protein gene regulates expression in myelin-forming schwann cells The Journal of Neuroscience 21 3780 3787 1:CAS:528:DC%2BD3MXjvFGlsro%3D
26. HF Farhadi P Lepage R Forghani HC Friedman W Orfali L Jasmin W Miller TJ Hudson AC Peterson 2003 A combinatorial network of evolutionarily conserved myelin basic protein regulatory sequences confers distinct glial-specific phenotypes The Journal of Neuroscience 23 10214 10223 1:CAS:528: DC%2BD3sXpt1yltbs%3D
27. C Taveggia A Pizzagalli E Fagiani A Messing ML Feltri L Wrabetz 2004 Characterization of a Schwann cell enhancer in the myelin basic protein gene Journal of Neurochemistry 91 813 824 10.1111/j.1471-4159.2004.02745.x 10.1111/j.1471-4159.2004.02745.x 1:CAS:528:DC%2BD2cXhtVWgsLfI (Pubitemid 39507358)
28. E Denarier R Forghani HF Farhadi S Dib N Dionne HC Friedman P Lepage TJ Hudson R Drouin A Peterson 2005 Functional organization of a Schwann cell enhancer The Journal of Neuroscience 25 11210 11217 10.1523/JNEUROSCI.2596-05. 2005 10.1523/JNEUROSCI.2596-05.2005 1:CAS:528:DC%2BD2MXhtlWlt7jI (Pubitemid 43089566)
29. K Devine-Beach S Haas K Khalili 1992 Analysis of the proximal transcriptional element of the myelin basic protein gene Nucleic Acids Research 20 545 550 10.1093/nar/20.3.545 10.1093/nar/20.3.545 1:CAS:528: DyaK38XhvV2jsLs%3D
30. M Hohl G Thiel 2005 Cell type-specific regulation of RE-1 silencing transcription factor (REST) target genes The European Journal of Neuroscience 22 2216 2230 10.1111/j.1460-9568.2005.04404.x 10.1111/j.1460-9568.2005.04404.x (Pubitemid 41653535)
31. JA Chong J Tapia-Ramirez S Kim JJ Toledo-Aral Y Zheng MC Boutros YM Altshuller MA Frohman SD Kraner G Mandel 1995 REST: A mammalian silencer protein that restricts sodium channel gene expression to neurons Cell 80 949 957 10.1016/0092-8674(95)90298-8 10.1016/0092-8674(95)90298-8 1:CAS:528: DyaK2MXkslOmur0%3D
32. CJ Schoenherr DJ Anderson 1995 The neuron-restrictive silencer factor (NRSF): A coordinate repressor of multiple neuron-specific genes Science 267 1360 1363 10.1126/science.7871435 10.1126/science.7871435 1:CAS:528: DyaK2MXktF2it7w%3D
33. VR Albert MR Lee AH Bolden RJ Wurzburger A Aguanno 1992 Distinct promoters direct neuronal and nonneuronal expression of rat aromatic l-amino acid decarboxylase Proceedings of the National Academy of Sciences of the United States of America 89 12053 12057 10.1073/pnas.89.24.12053 10.1073/pnas.89.24. 12053 1:CAS:528:DyaK3sXhtFOrurw%3D (Pubitemid 23004783)
34. S Chatelin R Wehrle P Mercier D Morello C Sotelo MJ Weber 2001 Neuronal promoter of human aromatic l-amino acid decarboxylase gene directs transgene expression to the adult floor plate and aminergic nuclei induced by the isthmus Brain Research Molecular Brain Research 97 149 160 10.1016/S0169-328X(01)00318-7 10.1016/S0169-328X(01)00318-7 1:CAS:528:DC%2BD3MXpt1amtb4%3D (Pubitemid 34025094)
35. JW Jahng TC Wessel TA Houpt JH Son TH Joh 1996 Alternate promoters in the rat aromatic l-amino acid decarboxylase gene for neuronal and nonneuronal expression: An in situ hybridization study Journal of Neurochemistry 66 14 19 1:CAS:528:DyaK2MXhtVSns7rM
36. A Aguanno MR Lee CM Marden M Rattray A Gault VR Albert 1995 Analysis of the neuronal promoter of the rat aromatic l-amino acid decarboxylase gene Journal of Neurochemistry 65 1944 1954 1:CAS:528:DyaK2MXovFGmtro%3D
37. C Sumi-Ichinose S Hasegawa H Ichinose H Sawada K Kobayashi M Sakai T Fujii H Nomura T Nomura I Nagatsu, et al. 1995 Analysis of the alternative promoters that regulate tissue-specific expression of human aromatic l-amino acid decarboxylase Journal of Neurochemistry 64 514 524 1:CAS:528: DyaK2MXjtFyms7o%3D
38. A Visel C Thaller G Eichele 2004 GenePaint org: An atlas of gene expression patterns in the mouse embryo Nucleic Acids Research 32 D552 D556 10.1093/nar/gkh029 10.1093/nar/gkh029 1:CAS:528:DC%2BD3sXhtVSrur%2FE
39. DT Odom RD Dowell ES Jacobsen W Gordon TW Danford KD MacIsaac PA Rolfe CM Conboy DK Gifford E Fraenkel 2007 Tissue-specific transcriptional regulation has diverged significantly between human and mouse Nature Genetics 39 730 732 10.1038/ng2047 10.1038/ng2047 1:CAS:528:DC%2BD2sXlvVSgtLw%3D (Pubitemid 46848594)
40. B Ason DK Darnell B Wittbrodt E Berezikov WP Kloosterman J Wittbrodt PB Antin RH Plasterk 2006 Differences in vertebrate microRNA expression Proceedings of the National Academy of Sciences of the United States of America 103 14385 14389 10.1073/pnas.0603529103 10.1073/pnas.0603529103 1:CAS:528: DC%2BD28XhtVOgsrzO (Pubitemid 44484759)