title: CO(2)-cAMP-responsive cis-elements targeted by a transcription factor with CREB/ATF-like basic zipper domain in the marine diatom Phaeodactylum tricornutum.
abstract: Expression controls of the carbon acquisition system in marine diatoms in response to environmental factors are an essential issue to understand the changes in marine primary productivity. A pyrenoidal β-carbonic anhydrase, PtCA1, is one of the most important candidates to investigate the control mechanisms of the CO(2) acquisition system in the marine diatom Phaeodactylum tricornutum. A detailed functional assay was carried out on the putative core regulatory region of the ptca1 promoter using a β-glucuronidase reporter in P. tricornutum cells under changing CO(2) conditions. A set of loss-of-function assays led to the identification of three CO(2)-responsive elements, TGACGT, ACGTCA, and TGACGC, at a region -86 to -42 relative to the transcription start site. Treatment with a cyclic (c)AMP analog, dibutyryl cAMP, revealed these three elements to be under the control of cAMP; thus, we designated them, from 5' to 3', as CO(2)-cAMP-Responsive Element1 (CCRE1), CCRE2, and CCRE3. Because the sequence TGACGT is known to be a typical target of human Activating Transcription Factor6 (ATF6), we searched for genes containing a basic zipper (bZIP) region homologous to that of ATF6 in the genome of P. tricornutum. Gel-shift assays using CCRE pentamers as labeled probes showed that at least one candidate of bZIP proteins, PtbZIP11, bound specifically to CCREs. A series of gain-of-function assays with CCREs fused to a minimal promoter strongly suggested that the alternative combination of CCRE1/2 or CCRE2/3 at proper distances from the minimal promoter is required as a potential target of PtbZIP11 for an effective CO(2) response of the ptca1 gene.
authors.affiliation: Research Center for Environmental Bioscience, Department of Bioscience, Kwansei-Gakuin University, Sanda, Hyogo 669-1337, Japan.
authors.forename: Naoki
authors.initials: N
authors.lastname: Ohno
authors.forename: Takuya
authors.initials: T
authors.lastname: Inoue
authors.forename: Ryosuke
authors.initials: R
authors.lastname: Yamashiki
authors.forename: Kensuke
authors.initials: K
authors.lastname: Nakajima
authors.forename: Yuhei
authors.initials: Y
authors.lastname: Kitahara
authors.forename: Mikiko
authors.initials: M
authors.lastname: Ishibashi
authors.forename: Yusuke
authors.initials: Y
authors.lastname: Matsuda
mesh_terms: D000064:Acclimatization; D051702:Activating Transcription Factor 6 / Q000235:genetics; D059001:Aquatic Organisms; D050976:Basic-Leucine Zipper Transcription Factors / Q000235:genetics*; D002245:Carbon Dioxide / Q000378:metabolism*; D002256:Carbonic Anhydrases / Q000235:genetics*; D000242:Cyclic AMP / Q000378:metabolism; D017362:Cyclic AMP Response Element-Binding Protein / Q000378:metabolism; D017377:Diatoms / Q000235:genetics* / Q000378:metabolism; D005786:Gene Expression Regulation; D005966:Glucuronidase / Q000235:genetics / Q000378:metabolism; D008969:Molecular Sequence Data; D011401:Promoter Regions, Genetic; D017434:Protein Structure, Tertiary; D020218:Response Elements; D012689:Sequence Homology, Nucleic Acid; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism*; D024363:Transcription Initiation Site
chemical_list: C497111:ATF6 protein, human; D051702:Activating Transcription Factor 6; D050976:Basic-Leucine Zipper Transcription Factors; D017362:Cyclic AMP Response Element-Binding Protein; D014157:Transcription Factors; D002245:Carbon Dioxide; D000242:Cyclic AMP; D005966:Glucuronidase; D002256:Carbonic Anhydrases
references.citation: Proc Natl Acad Sci U S A. 1991 May 1;88(9):3720-4
references.pmid: 1827203
references.citation: Plant Physiol. 2005 May;138(1):207-17
references.pmid: 15849303
references.citation: J Biol Chem. 2004 Feb 13;279(7):5739-51
references.pmid: 14612435
references.citation: EMBO J. 1995 Apr 18;14(8):1798-811
references.pmid: 7737130
references.citation: Biochem J. 2006 Jun 1;396(2):215-8
references.pmid: 16573521
references.citation: Proc Natl Acad Sci U S A. 2001 Apr 24;98(9):5347-52
references.pmid: 11287669
references.citation: Plant Physiol. 2003 Oct;133(2):783-93
references.pmid: 14555782
references.citation: J Biol Chem. 1995 Apr 7;270(14):8225-32
references.pmid: 7713929
references.citation: Science. 1995 Apr 21;268(5209):375-9
references.pmid: 17746543
references.citation: Mol Cell Biol. 1989 Jan;9(1):321-4
references.pmid: 2538722
references.citation: Plant Physiol. 2006 Nov;142(3):1318-28
references.pmid: 17012409
references.citation: J Bacteriol. 2001 Mar;183(6):1891-8
references.pmid: 11222586
references.citation: Proc Natl Acad Sci U S A. 1997 Sep 16;94(19):10215-20
references.pmid: 9294190
references.citation: Plant Physiol. 1995 May;108(1):247-252
references.pmid: 12228470
references.citation: J Biol Chem. 2003 Sep 12;278(37):35033-8
references.pmid: 12829712
references.citation: Mol Microbiol. 2008 Apr;68(1):98-109
references.pmid: 18312274
references.citation: New Phytol. 2010 Oct;188(1):52-66
references.pmid: 20646219
references.citation: Plant Physiol. 2007 Sep;145(1):230-5
references.pmid: 17644625
references.citation: Funct Plant Biol. 2002 Apr;29(3):261-270
references.pmid: 32689473
references.citation: Gene. 2001 Jul 25;273(1):1-11
references.pmid: 11483355
references.citation: Plant Physiol. 2004 Aug;135(4):2106-11
references.pmid: 15286292
references.citation: Science. 2000 Jul 28;289(5479):625-8
references.pmid: 10915626
references.citation: Plant Cell. 2004 Jun;16(6):1466-77
references.pmid: 15155888
references.citation: Proc Natl Acad Sci U S A. 2001 Apr 24;98(9):5341-6
references.pmid: 11309511
references.citation: Can J Microbiol. 1962 Apr;8:229-39
references.pmid: 13902807
references.citation: J Exp Bot. 2008;59(7):1441-61
references.pmid: 17578868
references.citation: J Biol Chem. 1994 Dec 9;269(49):31124-8
references.pmid: 7983053
references.citation: Mol Cell Biol. 2002 Sep;22(18):6321-35
references.pmid: 12192032
references.citation: EMBO J. 2006 Mar 8;25(5):1058-69
references.pmid: 16511568
references.citation: J Biol Chem. 1991 Oct 5;266(28):18431-4
references.pmid: 1655749
references.citation: Science. 2000 Oct 13;290(5490):291-6
references.pmid: 11030643
references.citation: Physiol Plant. 2008 May;133(1):92-105
references.pmid: 18405335
references.citation: Biochem J. 2009 May 1;419(3):681-8
references.pmid: 19200059
references.citation: Mol Cell Biol. 1992 Jun;12(6):2826-36
references.pmid: 1534143
references.citation: Curr Biol. 2005 Nov 22;15(22):2021-6
references.pmid: 16303561
references.citation: Eukaryot Cell. 2007 Aug;6(8):1251-9
references.pmid: 17557885
references.citation: J Theor Biol. 2001 Feb;208(3):295-313
references.pmid: 11207092
references.citation: Plant Physiol. 2001 Aug;126(4):1459-70
references.pmid: 11500545
references.citation: Photosynth Res. 2011 Sep;109(1-3):205-21
references.pmid: 21365259
references.citation: J Biol Chem. 1993 Feb 25;268(6):4259-66
references.pmid: 8440710
references.citation: Plant Physiol. 2006 Jun;141(2):731-6
references.pmid: 16632589
references.citation: Nucleic Acids Res. 2002 Jun 1;30(11):2398-406
references.pmid: 12034827
references.citation: J Biol Chem. 2000 Sep 1;275(35):27013-20
references.pmid: 10856300
references.citation: J Exp Bot. 2008;59(7):1463-73
references.pmid: 17597098
references.citation: Mol Biol Cell. 1999 Nov;10(11):3787-99
references.pmid: 10564271
references.citation: Proc Natl Acad Sci U S A. 1993 Jun 15;90(12):5479-83
references.pmid: 8100067
references.citation: Plant Physiol. 2005 Oct;139(2):1041-50
references.pmid: 16169965
references.citation: J Biol Chem. 2000 Jul 21;275(29):22166-71
references.pmid: 10764775
references.citation: J Biol Chem. 1988 Dec 5;263(34):18466-72
references.pmid: 2848037
references.citation: Nucleic Acids Res. 1996 Jul 15;24(14):2640-7
references.pmid: 8758989
references.citation: Plant Physiol. 1998 Feb 1;116(2):637-41
references.pmid: 9490764
references.citation: Proc Natl Acad Sci U S A. 1986 Sep;83(18):6682-6
references.pmid: 2875459
references.citation: J Biol Chem. 2000 Nov 10;275(45):35242-7
references.pmid: 10952992
references.citation: Planta. 1980 Aug;149(3):219-26
references.pmid: 24306290
references.citation: Proc Natl Acad Sci U S A. 1990 Dec;87(24):9779-83
references.pmid: 2124702
references.citation: Photosynth Res. 2011 Sep;109(1-3):191-203
references.pmid: 21287273