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Molecular analysis of Arabidopsis endosperm and embryo promoter trap lines: Reporter-gene expression can result from T-DNA insertions in antisense orientation, in introns and in intergenic regions, in addition to sense insertion at the 5′ end of genes
Plant Molecular Biology Laboratory, Department of Plant and Environmental Sciences, University of Life Sciences, PO Box 5003, N-1432 Ås Norway, Norway / National Hospital, Section for Gene Therapy, N-0027 Oslo, Norway.
Plant Molecular Biology Laboratory, Department of Plant and Environmental Sciences, University of Life Sciences, PO Box 5003, N-1432 Ås Norway, Norway.
Department of Molecular Biosciences, University of Oslo, Oslo, PO Box 1041 Blindern, N-0316 Oslo, Norway.
Department of Molecular Biosciences, University of Oslo, Oslo, PO Box 1041 Blindern, N-0316 Oslo, Norway.
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2005 (English)In: Journal of Experimental Botany, ISSN 0022-0957, E-ISSN 1460-2431, Vol. 56, no 419, 2495-2505 p.Article in journal (Refereed) Published
Abstract [en]

Random insertions of promoterless reporter genes in genomes are a common tool for identifying marker lines with tissue-specific expression patterns. Such lines are assumed to reflect the activity of endogenous promoters and should facilitate the cloning of genes expressed in the corresponding tissues. To identify genes active in seed organs, plant DNA flanking T-DNA insertions (T-DNAs) have been cloned in 16 Arabidopsis thaliana GUS-reporter lines. T-DNAs were found in proximal promoter regions, 5' UTR or intron with GUS in the same (sense) orientation as the tagged gene, but contrary to expectations also in inverted orientation in the 5' end of genes or in intergenic regions. RT-PCR, northern analysis, and data on expression patterns of tagged genes, compared with the expression pattern of the reporter lines, suggest that the expression pattern of a reporter gene will reflect the pattern of a tagged gene when inserted in sense orientation in the 5' UTR or intron. When inserted in the promoter region, the reporter-gene expression patterns may be restricted compared with the endogenous gene. Among the trapped genes, the previously described nitrate transporter gene AtNRT1.1, the cyclophilin gene ROC3, and the histone deacetylase gene AtHD2C were found. Reporter-gene expression when positioned in antisense orientation, for example, in the SLEEPY1 gene, is indicative of antisense expression of the tagged gene. For T-DNAs found in intergenic regions, it is suggested that the reporter gene is transcribed from cryptic promoters or promoters of as yet unannotated genes.

Place, publisher, year, edition, pages
Oxford University Press, 2005. Vol. 56, no 419, 2495-2505 p.
National Category
Natural Sciences
Research subject
Natural sciences
Identifiers
URN: urn:nbn:se:his:diva-1672DOI: 10.1093/jxb/eri242ISI: 000231363000019PubMedID: 16014362Scopus ID: 2-s2.0-23944517568OAI: oai:DiVA.org:his-1672DiVA: diva2:31948
Available from: 2007-10-01 Created: 2007-10-01 Last updated: 2013-04-09Bibliographically approved

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