Transcription and Maturation of mRNA in Dinoflagellates.
Dinoflagellates are of great importance to the marine ecosystem, yet scant details of how gene expression is regulated at the transcriptional level are available. Transcription is of interest in the context of the chromatin structure in the dinoflagellates as it shows many differences from more typical eukaryotic cells. Here we canvas recent transcriptome profiles to identify the molecular building blocks available for the construction of the transcriptional machinery and contrast these with those used by other systems. Dinoflagellates display a clear paucity of specific transcription factors, although surprisingly, the rest of the basic transcriptional machinery is not markedly different from what is found in the close relatives to the dinoflagellates.
Institut de Recherche en BiologieVégétale, Département de Sciences Biologiques, Université de Montréal, 4101 Sherbrooke east, Montréal, QC H1X 2B2, Canada. sougatairbv20@gmail.com.
Sougata
S
Roy
Institut de Recherche en BiologieVégétale, Département de Sciences Biologiques, Université de Montréal, 4101 Sherbrooke east, Montréal, QC H1X 2B2, Canada. david.morse@umontreal.ca.
David
D
Morse
gene expression; regulation; transcription factor
Nature. 1997 Sep 18;389(6648):251-60
9305837
Adv Enzyme Regul. 2009;49(1):157-66
19154754
Mar Environ Res. 2012 Oct;81:62-9
22985955
Proc Natl Acad Sci U S A. 1977 Aug;74(8):3171-5
269380
Mol Cell Biol. 1998 Sep;18(9):5272-83
9710612
J Biol Chem. 2001 Jun 8;276(23):19989-93
11264289
Curr Biol. 2012 Dec 18;22(24):2303-12
23159597
Mol Cell Biol. 2005 Apr;25(7):2632-43
15767669
PLoS One. 2013;8(2):e56777
23437234
J Biol Chem. 1990 May 5;265(13):7552-8
2332442
Genes Dev. 2010 Nov 15;24(22):2531-42
20966048
Cell. 1978 Jul;14(3):681-93
688388
Eukaryot Cell. 2003 Jun;2(3):646-50
12796310
Gene. 1993 Feb 28;124(2):165-71
8444340
RNA. 1998 Jul;4(7):801-15
9671053
Biol Cell. 2006 Dec;98(12):709-20
16875467
BMC Genomics. 2009 Apr 08;10:152
19356248
Biosystems. 1981;14(3-4):433-43
6175358
Proc Natl Acad Sci U S A. 2007 Mar 13;104(11):4618-23
17360573
Appl Environ Microbiol. 2013 Apr;79(7):2128-36
23335767
Eur J Cell Biol. 1983 Mar;30(1):33-41
6682763
Mol Biol Evol. 2010 Mar;27(3):684-93
19942614
Appl Environ Microbiol. 2010 Jul;76(13):4521-9
20435767
Science. 1999 Dec 10;286(5447):2119-25
10591637
J Protozool. 1979 May;26(2):290-4
573793
Curr Biol. 2007 Jan 23;17(2):R44-5
17240323
Plant Cell. 2006 Apr;18(4):792-803
16595397
PLoS One. 2011;6(10):e26687
22039532
Proc Natl Acad Sci U S A. 1962 Dec 15;48:2130-7
14030831
Nucleic Acids Res. 1992 Sep 25;20(18):4817-24
1408796
PLoS One. 2011;6(12):e28012
22164224
J Cell Physiol. 1976 Jan;87(1):123-34
1400
J Biol Chem. 1987 Jun 15;262(17):8293-7
3597375
Mol Biol Evol. 2011 Oct;28(10):2731-9
21546353
Nucleic Acids Res. 1983 Jan 25;11(2):541-52
6828377
J Cell Sci. 1994 Oct;107 ( Pt 10):2861-73
7876353
Annu Rev Physiol. 2001;63:757-94
11181975
EMBO J. 1986 Dec 1;5(12):3361-6
3028782
Biosystems. 1983-1984;16(3-4):203-10
6687043
Gene. 1982 Dec;20(2):281-9
7166234
Ecotoxicology. 2012 Jul;21(5):1448-57
22476698
Comp Biochem Physiol C Pharmacol Toxicol Endocrinol. 1998 Jan;119(1):67-73
9568375
Cold Spring Harb Perspect Biol. 2010 Nov;2(11):a000547
20826548
Mol Gen Genet. 1997 Aug;255(6):595-604
9323363
Curr Opin Struct Biol. 2004 Jun;14(3):283-91
15193307
BMC Genomics. 2011 Jul 05;12:346
21729317
Mol Biol Evol. 2012 Jun;29(6):1503-6
22319156
Am J Bot. 2004 Oct;91(10):1523-34
21652307
J Cell Sci. 2003 Jul 15;116(Pt 14):2867-74
12771189
Biochim Biophys Acta. 1990 Apr 6;1048(2-3):281-9
2322581
Sleep Med Clin. 2007 Sep 1;2(3):331-341
19623268
Plant Cell. 1996 Mar;8(3):539-53
8721755
Nucleic Acids Res. 1980 Oct 24;8(20):4709-25
6255430
Cold Spring Harb Symp Quant Biol. 1960;25:145-8
13774257
Genes Dev. 2001 Feb 1;15(3):294-303
11159910
Nucleic Acids Res. 2005 Jul 21;33(13):3994-4006
16040597
Proc Natl Acad Sci U S A. 1995 Aug 29;92(18):8224-8
7667272
J Eukaryot Microbiol. 2002 Jan-Feb;49(1):30-7
11908896
J Protozool. 1982 May;29(2):217-22
6178822
Proc Natl Acad Sci U S A. 2007 Aug 7;104(32):12955-61
17670940
Nucleic Acids Res. 1983 Apr 25;11(8):2447-64
6304653
Trends Genet. 2005 Apr;21(4):240-7
15797620
Wiley Interdiscip Rev RNA. 2011 May-Jun;2(3):417-34
21957027
BMC Genomics. 2011 Oct 20;12:519
22014029
Nat Struct Mol Biol. 2004 May;11(5):394-403
15114340
Mar Genomics. 2012 Mar;5:15-25
22325718
Proc Biol Sci. 2010 Jan 7;277(1678):87-95
19793745
J Biol Rhythms. 2008 Oct;23(5):400-8
18838606
Genes Dev. 2002 Jan 1;16(1):6-21
11782440
Proc Natl Acad Sci U S A. 2009 Aug 18;106(33):14168-73
19666549
Plant Mol Biol. 1994 Apr;25(1):23-31
8003695
J Eukaryot Microbiol. 1999 May-Jun;46(3):259-67
10377987
Protist. 2011 Jan;162(1):154-67
20650682
J Biol Chem. 1983 Nov 25;258(22):13965-9
6196358
Annu Rev Microbiol. 2011;65:369-87
21682644
Protist. 2001 Jul;152(2):127-38
11545436
Bioessays. 1999 Apr;21(4):319-25
10377894
J Phycol. 2011 Oct;47(5):1110-20
27020193
J Biol Rhythms. 1989 Summer;4(2):201-16
2519589
Genome Biol. 2007;8(9):227
17903313
J Biol Rhythms. 2006 Dec;21(6):419-31
17107933
Science. 2000 May 5;288(5467):867-70
10797011
Biochemistry. 2001 Dec 25;40(51):15862-8
11747464
J Eukaryot Microbiol. 2011 May-Jun;58(3):266-8
21435079
J Biol Chem. 1999 Nov 5;274(45):31947-54
10542223
PLoS One. 2013 Aug 19;8(8):e71232
23976999
Mol Biochem Parasitol. 1997 Jul;87(1):29-48
9233671
Science. 1972 May 19;176(4036):796-7
5031474
Biochemistry. 1978 Nov 14;17(23):4955-64
718868
BMC Evol Biol. 2007 Apr 04;7:54
17408475
Proc Natl Acad Sci U S A. 2010 Nov 16;107(46):20033-8
21041634
Res Microbiol. 2011 Jul-Aug;162(6):551-69
21514379
Cold Spring Harb Symp Quant Biol. 2007;72:141-4
18419271
Nat Genet. 2006 Jun;38(6):626-35
16645617
Eur J Cell Biol. 1984 Mar;33(2):300-11
6538843
Bioessays. 2000 Jan;22(1):10-5
10649285
Genes Dev. 2008 Apr 1;22(7):832-53
18381888
Biosystems. 1978 Apr;10(1-2):37-53
566131
FEMS Microbiol Lett. 1992 Dec 15;100(1-3):361-70
1478471
Proc Natl Acad Sci U S A. 2012 Sep 25;109(39):15793-8
23019363
Chromosoma. 1991 Sep;100(8):510-8
1764969
Biotechnol Adv. 2007 Mar-Apr;25(2):176-94
17208406
PLoS One. 2012;7(4):e35269
22529998
J Biol Chem. 1993 Apr 25;268(12):8842-50
8473328
Biochim Biophys Acta. 1987 Feb 27;908(2):188-99
3101738
Cell Stress Chaperones. 2011 Jan;16(1):69-80
20821176
Chronobiol Int. 2003 Nov;20(6):963-76
14680137
Cold Spring Harb Symp Quant Biol. 2007;72:293-9
18419286
Proc Natl Acad Sci U S A. 1990 Dec;87(23):9158-62
2251257
J Biol Chem. 1998 Oct 23;273(43):27786-93
9774387
Biol Bull. 2003 Apr;204(2):210-4
12700156
Tissue Cell. 1984;16(4):535-55
6484936
Genes Dev. 2007 Aug 1;21(15):1833-56
17671086
Curr Opin Plant Biol. 2003 Oct;6(5):446-52
12972045
Proc Natl Acad Sci U S A. 1989 Oct;86(19):7356-60
2552440
Plant Physiol. 1998 May;117(1):189-96
9576788
Genome Res. 2003 Aug;13(8):1863-72
12902380
Biol Cell. 2007 Sep;99(9):531-40
17451378
Mol Cell. 2002 Jan;9(1):8-9
11804581
Cell Res. 2003 Aug;13(4):215-7
12974611
Science. 1976 Dec 3;194(4269):1062-4
988637
Genes Dev. 2007 Mar 1;21(5):519-24
17344413
J Biol Chem. 2002 Oct 25;277(43):40881-6
12154093
Chromosoma. 1978 Aug 21;68(1):45-58
567570
Cell. 1977 Sep;12(1):1-8
902310
Science. 1998 Jul 10;281(5374):237-40
9657713
Bioessays. 2005 Jul;27(7):730-40
15954095
Gene. 2003 Dec 4;321:73-81
14636994
J Biol Chem. 1995 Dec 1;270(48):28839-47
7499409
J Mol Evol. 1996 Sep;43(3):253-62
8703091
Annu Rev Biochem. 2003;72:449-79
12651739
J Biol Chem. 1989 Feb 5;264(4):2357-62
2914911
Cell Mol Life Sci. 2003 Aug;60(8):1659-88
14504656
Biochem Biophys Res Commun. 1979 Jun 27;88(4):1329-36
573120
Genes Dev. 1996 Nov 1;10(21):2657-83
8946909
J Parasitol. 1989 Aug;75(4):627-35
2760774
Angew Chem Int Ed Engl. 2005 Dec 1;44(45):7342-72
16267872
Proc Natl Acad Sci U S A. 1984 Jan;81(2):318-21
6582490
FASEB J. 2001 Jan;15(1):34-42
11149891
Curr Biol. 2008 Jul 8;18(13):R550-2
18606121
BMC Genomics. 2010 Apr 19;11:248
20403159
Nature. 1995 Apr 27;374(6525):820-2
7723828
Dev Cell. 2003 Jun;4(6):775-89
12791264
PLoS One. 2012;7(4):e34340
22496791
Nat Rev Mol Cell Biol. 2007 Oct;8(10):761-73
17786152
DNA Cell Biol. 2009 Jun;28(6):277-84
19348590
FASEB J. 1996 Oct;10(12):1443-7
8903515
Mol Biochem Parasitol. 2006 Apr;146(2):135-41
16427709
Plant Mol Biol. 1998 Jan;36(2):275-84
9484439
Curr Opin Cell Biol. 2001 Jun;13(3):363-75
11343909
PLoS One. 2008 Aug 13;3(8):e2929
18698341
PLoS One. 2010 Nov 29;5(11):e15039
21124775
Proc Natl Acad Sci U S A. 1994 May 10;91(10):4579-83
8183951
Mol Cell Biol. 1999 Mar;19(3):2380-8
10022924
Cold Spring Harb Symp Quant Biol. 2007;72:279-85
18419284
Chemosphere. 2012 Oct;89(5):512-20
22726425
Cell. 1990 Jun 29;61(7):1157-60
2142018
J Gen Physiol. 1961 Sep;45:69-76
13712193
J Biol Chem. 2000 May 5;275(18):13895-900
10788514
J Bioinform Comput Biol. 2004 Jun;2(2):309-31
15297984
PLoS One. 2010 Mar 12;5(3):e9688
20300646