title: Sense and antisense OsDof12 transcripts in rice.
abstract: BACKGROUND
  Antisense transcription is a widespread phenomenon in plants and mammals. Our previous data on rice gene expression analysis by microarray indicated that the sense and antisense transcripts at the OsDof12 locus were co-expressed in leaves. In current study, we analyzed the expression patterns in detail and looked for the possible mechanism related to their expression patterns.
  
  
  RESULTS
  OsDof12, being a single copy gene located on rice chromosome 3, encodes a predicted Dof protein of 440 amino acids with one intron of 945 bp. The antisense transcript, OsDofl2os, overlaps with both the exonic and intronic regions of OsDof12 and encodes a functionally unknown protein of 104 amino acids with no intron. The sense-antisense OsDof12 transcripts were co-expressed within the same tissues, and their expressions were not tissue-specific in general. At different developmental stages in rice, the OsDof12 and OsDof12os transcripts exhibited reciprocal expression patterns. Interestingly, the expression of both genes was significantly induced under drought treatment, and inhibited by dark treatment. In the ProOsDof12-GUS and ProOsDof12os-GUS transgenic rice plants, the expression profiles of GUS were consistent with those of the OsDof12 and OsDof12os transcripts, respectively. In addition, the analysis of cis-regulatory elements indicated that either of the two promoters contained 74 classes of cis-regulatory elements predicted, of which the two promoter regions shared 53 classes.
  
  
  CONCLUSIONS
  Based on the expression profiles of OsDof12 and OsDof12os, the expression patterns of GUS in the ProOsDof12-GUS and ProOsDof12os-GUS transgenic rice plants and the predicted common cis-regulatory elements shared by the two promoters, we suggest that the co-expression patterns of OsDof12 and OsDof12os might be attributed to the basically common nature of the two promoters.
authors.affiliation: State Key Laboratory of Plant Genomics & National Plant Gene Research Center (Beijing), Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Chaoyang District, Beijing 100101, PR China. djli@genetics.ac.cn
authors.forename: Dejun
authors.initials: D
authors.lastname: Li
authors.forename: Chunhua
authors.initials: C
authors.lastname: Yang
authors.forename: Xiaobing
authors.initials: X
authors.lastname: Li
authors.forename: Guobiao
authors.initials: G
authors.lastname: Ji
authors.forename: Lihuang
authors.initials: L
authors.lastname: Zhu
mesh_terms: D004268:DNA-Binding Proteins / Q000235:genetics* / Q000378:metabolism; D003624:Darkness; D018506:Gene Expression Regulation, Plant; D005966:Glucuronidase / Q000235:genetics / Q000378:metabolism; D008027:Light; D012275:Oryza / Q000235:genetics* / Q000378:metabolism; D018515:Plant Leaves / Q000166:cytology / Q000235:genetics / Q000254:growth & development; D010940:Plant Proteins / Q000235:genetics* / Q000378:metabolism; D030821:Plants, Genetically Modified / Q000235:genetics / Q000378:metabolism; D011401:Promoter Regions, Genetic / Q000235:genetics; D034622:RNA Interference; D016372:RNA, Antisense / Q000235:genetics / Q000378:metabolism*; D014157:Transcription Factors / Q000235:genetics* / Q000378:metabolism; D014158:Transcription, Genetic
chemical_list: D004268:DNA-Binding Proteins; D010940:Plant Proteins; D016372:RNA, Antisense; D014157:Transcription Factors; D005966:Glucuronidase
references.citation: Genome Biol. 2002;3(12):RESEARCH0083
references.pmid: 12537572
references.citation: Science. 2005 Sep 2;309(5740):1564-6
references.pmid: 16141073
references.citation: Nucleic Acids Res. 2005 Oct 04;33(17):5533-43
references.pmid: 16204454
references.citation: Nucleic Acids Res. 2006 Jul 18;34(12):3465-75
references.pmid: 16849434
references.citation: BMC Mol Biol. 2008 Jan 14;9:6
references.pmid: 18194570
references.citation: Nature. 1981 Dec 17;294(5842):623-6
references.pmid: 6171736
references.citation: Trends Plant Sci. 2000 Sep;5(9):394-6
references.pmid: 10973095
references.citation: Nucleic Acids Res. 2004 Sep 08;32(16):4812-20
references.pmid: 15356298
references.citation: Cell Mol Life Sci. 2001 Jun;58(7):960-77
references.pmid: 11497242
references.citation: Nat Rev Genet. 2001 Dec;2(12):919-29
references.pmid: 11733745
references.citation: Nat Genet. 2006 Jan;38(1):124-9
references.pmid: 16369532
references.citation: Plant J. 2007 Dec;52(6):1131-9
references.pmid: 17944812
references.citation: Plant Physiol. 2007 Jul;144(3):1247-55
references.pmid: 17496106
references.citation: Genome Res. 2006 Oct;16(10):1276-88
references.pmid: 16954541
references.citation: Genome Biol. 2006;7(5):R38
references.pmid: 16684369
references.citation: Genome Res. 2004 Jan;14(1):62-6
references.pmid: 14707170
references.citation: Proc Natl Acad Sci U S A. 2006 Nov 21;103(47):18002-7
references.pmid: 17071740
references.citation: Cell. 2005 Dec 29;123(7):1279-91
references.pmid: 16377568
references.citation: Genome Res. 2005 Oct;15(10):1379-87
references.pmid: 16204191
references.citation: Genome Biol. 2005;6(4):R30
references.pmid: 15833117
references.citation: Science. 2003 Oct 31;302(5646):842-6
references.pmid: 14593172
references.citation: Nature. 2003 Feb 27;421(6926):948-52
references.pmid: 12607002
references.citation: Plant Cell Physiol. 2004 Apr;45(4):386-91
references.pmid: 15111712
references.citation: Nature. 2002 Dec 5;420(6915):563-73
references.pmid: 12466851
references.citation: Genome Biol. 2005;6(6):R51
references.pmid: 15960803
references.citation: Nat Biotechnol. 2003 Apr;21(4):371-2
references.pmid: 12665819
references.citation: Annu Rev Microbiol. 1994;48:713-42
references.pmid: 7826024
references.citation: Gene. 1988 Dec 10;72(1-2):35-44
references.pmid: 2468573
references.citation: Nat Biotechnol. 2003 Apr;21(4):379-86
references.pmid: 12640466
references.citation: Genome Res. 2005 Apr;15(4):463-74
references.pmid: 15781571
references.citation: BMC Evol Biol. 2003 Jul 23;3:17
references.pmid: 12877745
references.citation: Microbiol Mol Biol Rev. 1998 Dec;62(4):1415-34
references.pmid: 9841677
references.citation: Gene. 1998 Apr 28;211(1):1-9
references.pmid: 9573333
references.citation: Genome Biol. 2003;5(1):R5
references.pmid: 14709177
references.citation: Neurochem Int. 1997 Sep;31(3):379-92
references.pmid: 9246680
references.citation: J Appl Genet. 2003;44(1):1-19
references.pmid: 12590177
references.citation: Genes Dev. 2007 Dec 1;21(23):3123-34
references.pmid: 18003861