Modular sequence elements associated with origin regions in eukaryotic chromosomal DNA

We have postulated that chromosomal replication origin regions in eukaryotes have in common clusters of certain modular sequence elements (Benbow, Zhao, and Larson, BioEssays 14, 661–670, 1992). In this study, computer analyses of DNA sequences from six origin regions showed that each contained one...

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Bibliographic Details
Published in:Nucleic acids research 1994-07, Vol.22 (13), p.2479-2489
Main Authors: Dobbs, Drena L., Shaiu, Wen-Ling, Benbow, Robert M.
Format: Article
Language:English
Subjects:
Amino Acid Sequence
Animals
Biological and medical sciences
CHO Cells
Chorion - metabolism
Computer Simulation
Consensus Sequence
Cricetinae
Cricetulus
DNA
DNA Replication
Drosophila melanogaster
Fundamental and applied biological sciences. Psychology
Histones - genetics
Humans
Molecular and cellular biology
Molecular genetics
Molecular Sequence Data
Multigene Family
Proto-Oncogene Proteins c-myc - genetics
Regulatory Sequences, Nucleic Acid
Replication
Rhodopsin - genetics
RNA, Ribosomal - genetics
Tetrahydrofolate Dehydrogenase - genetics
Tetrahymena thermophila
Tetrahymena thermophila - genetics
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Summary:We have postulated that chromosomal replication origin regions in eukaryotes have in common clusters of certain modular sequence elements (Benbow, Zhao, and Larson, BioEssays 14, 661–670, 1992). In this study, computer analyses of DNA sequences from six origin regions showed that each contained one or more potential initiation regions consisting of a putative DUE (DNA unwinding element) aligned with clusters of SAR (scaffold associated region), and ARS (autonomously replicating sequence) consensus sequences, and pyrimidine tracts. The replication origins analyzed were from the following loci: Tetrahymena thermophila macronuclear rDNA gene, Chinese hamster ovary dihydrofolate reductase amplicon, human c-myc protooncogene, chicken histone H5 gene, Drosophila melanogaster chorion gene cluster on the third chromosome, and Chinese hamster ovary rhodopsin gene. The locations of putative initiation regions identified by the computer analyses were compared with published data obtained using diverse methods to map initiation sites. For at least four loci, the potential initiation regions identified by sequence analysis aligned with previously mapped initiation events. A consensus DNA sequence, WAWTTDDWWWDHWGWHMAWTT, was found within the potential initiation regions in every case. An additional 35 kb of combined flanking sequences from the six loci were also analyzed, but no additional copies of this consensus sequence were found.
ISSN:0305-1048
1362-4962
DOI:10.1093/nar/22.13.2479