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Gene and genome duplication in Acanthamoeba polyphaga Mimivirus.
J Virol. 2005 Nov; 79(22):14095-101.JV

Abstract

Gene duplication is key to molecular evolution in all three domains of life and may be the first step in the emergence of new gene function. It is a well-recognized feature in large DNA viruses but has not been studied extensively in the largest known virus to date, the recently discovered Acanthamoeba polyphaga Mimivirus. Here, I present a systematic analysis of gene and genome duplication events in the mimivirus genome. I found that one-third of the mimivirus genes are related to at least one other gene in the mimivirus genome, either through a large segmental genome duplication event that occurred in the more remote past or through more recent gene duplication events, which often occur in tandem. This shows that gene and genome duplication played a major role in shaping the mimivirus genome. Using multiple alignments, together with remote-homology detection methods based on Hidden Markov Model comparison, I assign putative functions to some of the paralogous gene families. I suggest that a large part of the duplicated mimivirus gene families are likely to interfere with important host cell processes, such as transcription control, protein degradation, and cell regulatory processes. My findings support the view that large DNA viruses are complex evolving organisms, possibly deeply rooted within the tree of life, and oppose the paradigm that viral evolution is dominated by lateral gene acquisition, at least in regard to large DNA viruses.

Authors+Show Affiliations

Information Génomique et Structurale, UPR CNRS 2589, 31 Chemin Joseph-Aiguier, 13402 Marseille Cedex 20, France. karsten.suhre@igs.cnrs-mrs.fr

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

16254344

Citation

Suhre, Karsten. "Gene and Genome Duplication in Acanthamoeba Polyphaga Mimivirus." Journal of Virology, vol. 79, no. 22, 2005, pp. 14095-101.
Suhre K. Gene and genome duplication in Acanthamoeba polyphaga Mimivirus. J Virol. 2005;79(22):14095-101.
Suhre, K. (2005). Gene and genome duplication in Acanthamoeba polyphaga Mimivirus. Journal of Virology, 79(22), 14095-101.
Suhre K. Gene and Genome Duplication in Acanthamoeba Polyphaga Mimivirus. J Virol. 2005;79(22):14095-101. PubMed PMID: 16254344.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Gene and genome duplication in Acanthamoeba polyphaga Mimivirus. A1 - Suhre,Karsten, PY - 2005/10/29/pubmed PY - 2006/1/28/medline PY - 2005/10/29/entrez SP - 14095 EP - 101 JF - Journal of virology JO - J Virol VL - 79 IS - 22 N2 - Gene duplication is key to molecular evolution in all three domains of life and may be the first step in the emergence of new gene function. It is a well-recognized feature in large DNA viruses but has not been studied extensively in the largest known virus to date, the recently discovered Acanthamoeba polyphaga Mimivirus. Here, I present a systematic analysis of gene and genome duplication events in the mimivirus genome. I found that one-third of the mimivirus genes are related to at least one other gene in the mimivirus genome, either through a large segmental genome duplication event that occurred in the more remote past or through more recent gene duplication events, which often occur in tandem. This shows that gene and genome duplication played a major role in shaping the mimivirus genome. Using multiple alignments, together with remote-homology detection methods based on Hidden Markov Model comparison, I assign putative functions to some of the paralogous gene families. I suggest that a large part of the duplicated mimivirus gene families are likely to interfere with important host cell processes, such as transcription control, protein degradation, and cell regulatory processes. My findings support the view that large DNA viruses are complex evolving organisms, possibly deeply rooted within the tree of life, and oppose the paradigm that viral evolution is dominated by lateral gene acquisition, at least in regard to large DNA viruses. SN - 0022-538X UR - https://www.unboundmedicine.com/medline/citation/16254344/Gene_and_genome_duplication_in_Acanthamoeba_polyphaga_Mimivirus_ L2 - http://jvi.asm.org/cgi/pmidlookup?view=long&pmid=16254344 DB - PRIME DP - Unbound Medicine ER -