ArticleExtremophiles : life under extreme conditions2004
Identification of replication origins in the genome of the methanogenic archaeon, Methanocaldococcus jannaschii.
Article in Extremophiles : life under extreme conditions, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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10 citing papers in PubMed, 23 citations in OpenAlex.
- Diversity of DNA Replication in the Archaea.Genes · 2017Review
- Recent Advances in the Identification of Replication Origins Based on the Z-curve Method.Current genomics · 2014Article
- A Brief Review: The Z-curve Theory and its Application in Genome Analysis.Current genomics · 2014Article
- Global phylogenomic analysis disentangles the complex evolutionary history of DNA replication in archaea.Genome biology and evolution · 2014Article
- DoriC 5.0: an updated database of oriC regions in both bacterial and archaeal genomes.Nucleic acids research · 2013Article
- Evolutionary rates and gene dispensability associate with replication timing in the archaeon Sulfolobus islandicus.Genome biology and evolution · 2010Article
- Localized melting of duplex DNA by Cdc6/Orc1 at the DNA replication origin in the hyperthermophilic archaeon Pyrococcus furiosus.Extremophiles : life under extreme conditions · 2010Article
- An easier method for locating replication origins based on real-time polymerase chain reaction.Current microbiology · 2008Article
- Genomic context analysis in Archaea suggests previously unrecognized links between DNA replication and translation.Genome biology · 2008Article
- Identification of replication origins in archaeal genomes based on the Z-curve method.Archaea (Vancouver, B.C.) · 2005Review
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Authors and funding
2 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Methanocaldococcus jannaschii has been notorious as an archaeon in which the replication origins are difficult to identify. Although extensive efforts have been exerted on this issue, the locations of replication origins still remain elusive 7 years after the publication of its complete genome sequence in 1996. Ambiguous results were obtained in identifying the replication origins of M. jannaschii based on all theoretical and experimental approaches. In the genome of M. jannaschii, we found that an ORF (MJ0774), annotated as a hypothetical protein, is a homologue of the Cdc6 protein. The position of the gene is at a global minimum of the x component of the Z curve, i.e., RY disparity curve, which has been used to identify replication origins in other Archaea. In addition, an intergenic region (694,540-695,226 bp) that is between the cdc6 gene and an adjacent ORF shows almost all the characteristics of known replication origins, i.e., it is highly rich in AT composition (80%) and contains multiple copies of repeat elements and AT stretches. Therefore, these lines of evidence strongly suggest that the identified region is a replication origin, which is designated as oriC1. The analysis of the y component of the Z curve, i.e., MK disparity curve, suggests the presence of another replication origin corresponding to one of the peaks in the MK disparity curve at around 1,388 kb of the genome.
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