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Nucleic Acids Research 2005 33(15):4673-4682; doi:10.1093/nar/gki774
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Published online 17 August 2005

© The Author 2005. Published by Oxford University Press. All rights reserved
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions{at}oupjournals.org

Article

Distant sequences determine 5' end formation of cox3 transcripts in Arabidopsis thaliana ecotype C24

Joachim Forner, Bärbel Weber, Caterina Wiethölter, Rhonda C. Meyer1 and Stefan Binder*

Molekulare Botanik, Universität Ulm Albert-Einstein-Allee 11, 89069 Ulm, Germany 1MPI für Molekulare Pflanzenphysiologie 14424 Potsdam, Germany

*To whom correspondence should be addressed. Tel: +49 (0) 731 502 2625; Fax: +49 (0) 731 502 2626; Email: stefan.binder{at}biologie.uni-ulm.de

Received July 1, 2005. Revised August 1, 2005. Accepted August 1, 2005.

The genomic environments and the transcripts of the mitochondrial cox3 gene are investigated in three Arabidopsis thaliana ecotypes. While the proximate 5' sequences up to nucleotide position –584, the coding regions and the 3' flanking regions are identical in Columbia (Col), C24 and Landsberg erecta (Ler), genomic variation is detected in regions further upstream. In the mitochondrial DNA of Col, a 1790 bp fragment flanked by a nonanucleotide direct repeat is present beyond position –584 with respect to the ATG. While in Ler only part of this insertion is conserved, this sequence is completely absent in C24, except for a single copy of the nonanucleotide direct repeat. Northern hybridization reveals identical major transcripts in the three ecotypes, but identifies an additional abundant 60 nt larger mRNA species in C24. The extremities of the most abundant mRNA species are identical in the three ecotypes. In C24, an extra major 5' end is abundant. This terminus and the other major 5' ends are located in identical sequence regions. Inspection of Atcox3 transcripts in C24/Col hybrids revealed a female inheritance of the mRNA species with the extra 5' terminus. Thus, a mitochondrially encoded factor determines the generation of an extra 5' mRNA end.


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