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Vol. 96, Issue 24, 14055-14060, November 23, 1999
* Center for Advanced Biotechnology, Department of Biomedical
Engineering, Boston University, 36 Cummington St., Boston, MA 02215;
Contributed by Charles R. Cantor, September 23, 1999
We have investigated mRNA 3'-end-processing signals in each of six
eukaryotic species (yeast, rice, arabidopsis, fruitfly, mouse, and
human) through the analysis of more than 20,000 3'-expressed sequence
tags. The use and conservation of the canonical AAUAAA element vary
widely among the six species and are especially weak in plants and
yeast. Even in the animal species, the AAUAAA signal does not appear to
be as universal as indicated by previous studies. The abundance of
single-base variants of AAUAAA correlates with their measured
processing efficiencies. As found previously, the plant polyadenylation
signals are more similar to those of yeast than to those of animals,
with both common content and arrangement of the signal elements. In all
species examined, the complete polyadenylation signal appears to
consist of an aggregate of multiple elements. In light of these and
previous results, we present a broadened concept of 3'-end-processing
signals in which no single exact sequence element is universally
required for processing. Rather, the total efficiency is a function of
all elements and, importantly, an inefficient word in one element can
be compensated for by strong words in other elements. These complex
patterns indicate that effective tools to identify 3'-end-processing
signals will require more than consensus sequence identification.
Copyright © 1999 by The National Academy of Sciences 0027-8424/99/9614055-6$2.00/0
Microbiology
In silico detection of control signals: mRNA
3'-end-processing sequences in diverse species
,
, and Department of Chemistry, Boston University, 590 Commonwealth Ave., Boston, MA 02215; and § BioMolecular
Engineering Research Center, Department of Biomedical Engineering,
Boston University, 36 Cummington Street, Boston, MA 02215
To whom reprint requests should be addressed. E-mail:
jhg{at}darwin.bu.edu.
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