Abstract

The ability to elucidate RNA structure has broad significance in the study of RNA. Comparative sequence analysis is one method, complementary to experimental procedures, that has yielded important RNA structural information. The sequencing revolution is helping to create larger comparative sequence databases, which in turn creates an opportunity to decipher more RNA structural information. Computationally intensive methods are required to find this information. The purpose of this project, is to develop and refine our correlation analysis, and apply these analysis tools to the question of RNA structure determination. Initial studies are very encouraging, suggesting that continued efforts will result in new structural findings. The results of this analysis have widespread applications, including but no limited to antisense research, overall structural considerations of ribosomal RNAs, and other important RNA molecules, and general RNA structur prediction.

  Funding Agency

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Research Project (R01)
Project #
5R01GM048207-04
Application #
2185696
Study Section
Molecular and Cellular Biophysics Study Section (BBCA)
Project Start
1992-08-01
Project End
1996-07-31
Budget Start
1995-08-01
Budget End
1996-07-31
Support Year
4
Fiscal Year
1995
Total Cost
Indirect Cost

  Institution

Name
University of Colorado at Boulder
Department
Biochemistry
Type
Schools of Arts and Sciences
DUNS #
City
Boulder
State
CO
Country
United States
Zip Code
80309

  Publications

Gutell, R R; Cannone, J J; Shang, Z et al. (2000) A story: unpaired adenosine bases in ribosomal RNAs. J Mol Biol 304:335-54
Trust, T J; Logan, S M; Gustafson, C E et al. (1994) Phylogenetic and molecular characterization of a 23S rRNA gene positions the genus Campylobacter in the epsilon subdivision of the Proteobacteria and shows that the presence of transcribed spacers is common in Campylobacter spp. J Bacteriol 176:4597-609
Cech, T R; Damberger, S H; Gutell, R R (1994) Representation of the secondary and tertiary structure of group I introns. Nat Struct Biol 1:273-80
Ragan, M A; Bird, C J; Rice, E L et al. (1994) A molecular phylogeny of the marine red algae (Rhodophyta) based on the nuclear small-subunit rRNA gene. Proc Natl Acad Sci U S A 91:7276-80
Laferriere, A; Gautheret, D; Cedergren, R (1994) An RNA pattern matching program with enhanced performance and portability. Comput Appl Biosci 10:211-2
Gutell, R R (1994) Collection of small subunit (16S- and 16S-like) ribosomal RNA structures: 1994. Nucleic Acids Res 22:3502-7
Gautheret, D; Konings, D; Gutell, R R (1994) A major family of motifs involving G.A mismatches in ribosomal RNA. J Mol Biol 242:1-8
Fan, M; Currie, B P; Gutell, R R et al. (1994) The 16S-like, 5.8S and 23S-like rRNAs of the two varieties of Cryptococcus neoformans: sequence, secondary structure, phylogenetic analysis and restriction fragment polymorphisms. J Med Vet Mycol 32:163-80
Srikantha, T; Gutell, R R; Morrow, B et al. (1994) Partial nucleotide sequence of a single ribosomal RNA coding region and secondary structure of the large subunit 25 s rRNA of Candida albicans. Curr Genet 26:321-8
Damberger, S H; Gutell, R R (1994) A comparative database of group I intron structures. Nucleic Acids Res 22:3508-10

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