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Sequence bias in edited kinetoplastid RNAs

Published online by Cambridge University Press:  08 December 2000

MOFFETT L.K. BURGESS  and
KENNETH STUART
MOFFETT L.K. BURGESS
Affiliation:
Seattle Biomedical Research Institute, Seattle, Washington 98109, USA Department of Pathobiology, University of Washington, Seattle, Washington 98195, USA
KENNETH STUART
Affiliation:
Seattle Biomedical Research Institute, Seattle, Washington 98109, USA Department of Pathobiology, University of Washington, Seattle, Washington 98195, USA
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Abstract

Uridylate residues (Us) are inserted and deleted at precise positions in mitochondrial transcripts of Trypanosoma brucei. These sequence changes are determined by interactions with small guide RNAs (gRNAs) that are complementary to edited sequence. Adenylate (A) and guanylate (G) residues in gRNAs across from editing sites pair with inserted Us. We evaluate whether sequence bias exists in the bases surrounding insertion sites. Upon analyzing all reported insertion sites in T. brucei, we find that the predicted base pairs flanking insertion sites show a strong bias. Specifically, guiding As and Gs tend to be flanked by cytosine residues and Us. This bias is expected if precise base-pair interactions at the editing site determine the number of inserted Us.

Keywords

kinetoplastidsRNA editingsequence biasTrypanosomes
Type
REPORT
Information
RNA , Volume 6 , Issue 11 , November 2000 , pp. 1492 - 1497
Copyright
2000 RNA Society

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