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LETTER: Unique genes in giant viruses: Regular substitution pattern and anomalously short size
- Hiroyuki Ogata and
- Jean-Michel Claverie
Genome Res. September 2007 17: 1353-1361; Published in Advance July 25, 2007, doi:10.1101/gr.6358607
...of large DNA viruses, it now becomes possible to scrutinize different aspects of the gene repertoires of large DNA viruses to understand their functions and origins. Large DNA viruses with a exceeding 100 kb have been identified in different families of eukaryotic viruses (herpesviruses, baculoviruses...
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Letter: The polyadenylation site of Mimivirus transcripts obeys a stringent ‘hairpin rule’
- Deborah Byrne,
- Renata Grzela,
- Audrey Lartigue,
- Stéphane Audic,
- Sabine Chenivesse,
- Stéphanie Encinas,
- Jean-Michel Claverie,
- and Chantal Abergel
Genome Res. July 2009 19: 1233-1242; Published in Advance April 29, 2009, doi:10.1101/gr.091561.109
...+dependent DNA ligase. Virology 353: 133–143. Benarroch D, Claverie J-M, Raoult D, Shuman S. 2006. Characterization of Mimivirus DNA topoisomerase IB suggests horizontal gene transfer between eukaryal viruses and bacteria. J Virol 80: 314–321. Benarroch D, Smith P, Shuman S. 2008. Characterization...
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ARTICLE: The Bacterial Replicative Helicase DnaB Evolved from a RecA Duplication
- Detlef D. Leipe,
- L. Aravind,
- Nick V. Grishin,
- and Eugene V. Koonin
Genome Res. January 1, 2000 10: 5-16; doi:10.1101/gr.10.1.5
...of conformational change; (4) eukaryotes encode diverged homologs of DnaB, some of which also contain a DnaG-type primase domain; these genes might have been introduced into the eukaryotic by a horizontal transfer event involving a bacteriophage. We hypothesize that the common ancestor of the RecA/DnaB superfamily...
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RESEARCH: Transposable Elements and Genome Organization: A Comprehensive Survey of Retrotransposons Revealed by the Complete Saccharomyces cerevisiae Genome Sequence
- Jin M. Kim,
- Swathi Vanguri,
- Jef D. Boeke,
- Abram Gabriel,
- and Daniel F. Voytas
Genome Res. May 1, 1998 8: 464-478; doi:10.1101/gr.8.5.464
...and for comparison to other, more complex s. The retrotransposons are ubiquitous components of eukaryotic s and have played an important role in shaping the genetic material. Like the retroviruses, retrotransposons replicate through reverse transcription of an mRNA intermediate ( Boeke and Sandmeyer 1991 ). The cDNA...
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Letter: The origins of apicomplexan sequence innovation
- James Wasmuth,
- Jennifer Daub,
- José Manuel Peregrín-Alvarez,
- Constance A.M. Finney,
- and John Parkinson
Genome Res. July 2009 19: 1202-1213; Published in Advance April 10, 2009, doi:10.1101/gr.083386.108
...reports support the legitimacy of these sequences, noting that findings from partial data sets are consistent with those from completed eukaryotic s (Brocchieri and Karlin 2005; Peregrin-Alvarez and Parkinson 2007). In comparing gene models derived from the recently published of P. vivax (Carlton et al...
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ARTICLE: Biosynthesis of Isoprenoids via Mevalonate in Archaea: The Lost Pathway
- Arian Smit and
- Arcady Mushegian
Genome Res. October 1, 2000 10: 1468-1484; doi:10.1101/gr.145600
...characterization. RESULTS AND DISCUSSION Defining the Orthologs: Only Higher Plants Have the Full Complement of Yeast Mevalonate Pathway Enzymes We searched DNA and protein sequence databases for candidate orthologs of yeast mevalonate pathway enzymes and Escherichia coli DXP pathway enzymes in completely...

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