Skip Navigation

This Article
Right arrow Full Text (Print PDF)
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Scapoli, C.
Right arrow Articles by Barrai, I.
Right arrow Search for Related Content
PubMed
Right arrow Articles by Scapoli, C.
Right arrow Articles by Barrai, I.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© Oxford University Press

Identification of a set of frequent decanucleotides in plants and in animals

C. Scapoli , A. Rodríguez-Larralde 1, S. Volinia , M. Beretta and I. Barrai 2

Department of Evolutionary Biology, University of Ferrara 44100 Ferrara, Italy

2To whom all correspondence should be addressed

We studied the frequency distribution of 1048576 oligo-nucleotides 10 bp long in a sample of 1.961 Mbase of genes from plants, made of 635 sequences extracted from GenBank 71.0, with the aim of detecting transcription control signals. Among all decamers, 3255, or 0.3%, had a frequency 10 times higher than the mean and were subjected to further statistical analysis. For each of the 3255 decamers (parents), we counted the individual frequencies of the 30 decamers (progeny) differing from the parent by one base mutation, and calculated two variance/mean chi-squares for the progeny, with and without the parent decamer. By studying the distribution of the ratio between the two chi-squares we observed that out of 3255 decamers >10 times frequent than average, 432 had a chi-square ratio >1.9. In this residual set, which corresponds to <0.04 per cent of all possible decamers, only 15 known eukaryotic transcription control elements were found; on the other hand, it included 29 decanucleotides that matched with decanucleotides of a set of Drosophila, 24 with a set from mammals, 13 with a set from yeast and four with a set of viruses—all sets identified with the statistical procedures here described. These decanucloetides are highly repetitive and seem to be present throughout all higher organisms, whereas they are uncommon in mammalian viruses.

Received on January 28, 1994; accepted on April 27, 1994

Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 Nucleic Acids ResHome page
D. Endoh, T. Mizutani, R. Kirisawa, Y. Maki, H. Saito, Y. Kon, S. Morikawa, and M. Hayashi
Species-independent detection of RNA virus by representational difference analysis using non-ribosomal hexanucleotides for reverse transcription
Nucleic Acids Res., April 7, 2005; 33(6): e65 - e65.
[Abstract] [Full Text] [PDF]


Disclaimer:
Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.