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dictyNews Volume 23 Number 07
Dicty News
Electronic Edition
Volume 23, number 7
August 20, 2004
Please submit abstracts of your papers as soon as they have been
accepted for publication by sending them to dicty@northwestern.edu
or by using the form at
http://dictybase.org/db/cgi-bin/dictyBase/abstract_submit.
Back issues of Dicty-News, the Dicty Reference database and other
useful information is available at dictyBase - http://dictybase.org.
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Abstracts
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A database search for double-strand containing RNAs in Dictyostelium
discoideum
Stefan Grf1, Branimira E. Borisova2, Wolfgang Nellen3, Gerhard Steger1,
Christian Hammann2
Biological Chemistry, in press
1Institut fr Physikalische Biologie, Heinrich-Heine-Universitt, 40225
Dsseldorf, Germany
2Department of Genetics, AG Molecular Interactions, Universitt Kassel,
34132 Kassel, Germany
3Department of Genetics, Universitt Kassel
Corresponding author:
Christian Hammann, Department of Genetics, AG Molecular Interactions
In eukaryotic cells, double-stranded RNA is degraded to 21mers and triggers
RNA interference. Using a pattern description language, we have searched the
EMBL database for sequences with the potential to form double strands in cis
in Dictyostelium discoideum. No extended inverted repeats were found in
mRNAs. However, the antisense direction of some mRNAs encoding regulatory or
developmentally regulated proteins, showed the ability to form double
stranded regions. In EST archives, we find potential double strands derived
from a few genes but these transcripts are not continuously encoded in the
genome. Most likely, they represent hybrid molecules of sense and antisense
RNAs.
Submitted by: Wolfgang Nellen [nellen@uni-kassel.de]
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Novel non-coding RNAs in Dictyostelium discoideum and their expression during
development.
Anders Aspegren1,2,4, Andrea Hinas1,2, Pontus Larsson3, Anders Larsson3, and
Fredrik Sderbom1,*
1Department of Molecular Biology, Biomedical Center, Swedish University of
Agricultural Sciences, Box 590, S-75124 Uppsala, Sweden, 3Institute of Cell
and Molecular Biology, Biomedical Center, Uppsala University, Box 596,
S-75124 Uppsala, Sweden. 4Present address: AstraZeneca, R&D, Department of
Molecular Pharmacology, Pepparedsleden 1, S-431 83 Mlndal, Sweden
2 The authors wish it to be known that, in their opinion, the first two
authors should be regarded as joint First Authors.
Nucleic Acids Research, In Press
The last few yearsâ quest for non-coding RNAs (ncRNAs) has revealed a
surprisingly large number of small RNAs belonging to previously known as
well as entirely novel classes. Computational and experimental approaches
have uncovered new ncRNAs in all kingdoms of life. In this work we used a
shot-gun cloning approach to construct full-length cDNA libraries of small
RNAs from the eukaryotic model organism Dictyostelium discoideum.
Interestingly, two entirely novel classes of RNAs were identified of which
one is developmentally regulated. The RNAs within each class share conserved
5â and 3â termini that potentially can form stem-structures. RNAs of both
classes show predominantly cytoplasmic localization. In addition, based on
conserved structure and/or sequence motifs, several of the identified ncRNAs
could be divided into classes known from other organisms, e.g. 18 small
nucleolar RNA (snoRNA) candidates (17 box C/D, of which a few are
developmentally regulated, and one box H/ACA). Two ncRNAs showed high degree
of similarity to the small nuclear U2 RNA and SRP RNA, respectively.
Furthermore, the majority of the regions upstream of the sequences encoding
the isolated RNAs share conserved motifs that may constitute new promoter
elements.
Submitted by: Fredrik Sderbom <fredde@xray.bmc.uu.se]
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[End Dicty News, volume 23, number 7]
