publication . Article . Other literature type . 2012

The rhizome of life: what about metazoa?

Ramulu, H. G.; Raoult, D.; Pontarotti Pierre;
Open Access English
  • Published: 01 Apr 2012
  • Publisher: HAL CCSD
Abstract
The increase in huge number of genomic sequences in recent years has contributed to various genetic events such as horizontal gene transfer (HGT), gene duplication and hybridization of species. Among them horizontal gene transfer has played an important role in the genome evolution and was believed to occur only in Bacterial and Archaeal genomes. As a result, genomes were found to be chimeric and the evolution of life was represented in different forms such as forests, networks and species evolution was described more like a rhizome, rather than a tree. However, in the last few years, HGT has also been evidenced in other group such as metazoa (for example in roo...
Subjects
free text keywords: Tree of life, Horizontal gene transfer, Retrotransposons, Hybridization, Metazoa, [SDV.OT]Life Sciences [q-bio]/Other [q-bio.OT], Microbiology, Review Article, QR1-502, Immunology, Microbiology (medical), Infectious Diseases, Genome evolution, Retrotransposon, Genetics, Rhizome, Genome, Gene duplication, Biology
Related Organizations
181 references, page 1 of 13

Abad P.Gouzy J.Aury J. M.Castagnone-Sereno P.Danchin E. G.Deleury E.Perfus-Barbeoch L.Anthouard V.Artiguenave F.Blok V. C.Caillaud M. C.Coutinho P. M.Dasilva C.De Luca F.Deau F.Esquibet M.Flutre T.Goldstone J. V.Hamamouch N.Hewezi T.Jaillon O.Jubin C.Leonetti P.Magliano M.Maier T. R.Markov G. V.McVeigh P.Pesole G.Poulain J.Robinson-Rechavi M.Sallet E.Ségurens B.Steinbach D.Tytgat T.Ugarte E.van Ghelder C.Veronico P.Baum T. J.Blaxter M.Bleve-Zacheo T.Davis E. L.Ewbank J. J.Favery B.Grenier E.Henrissat B.Jones J. T.Laudet V.Maule A. G.Quesneville H.Rosso M. N.Schiex T.Smant G.Weissenbach J.Wincker P. (2008). Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognita. Nat. Biotechnol. 26, 909–915 10.1038/nbt.1482 18660804 [OpenAIRE] [PubMed] [DOI]

Adoutte A.Balavoine G.Lartillot N.Lespinet O.Prud'homme B.de Rosa R. (2000). The new animal phylogeny: reliability and implicatio ns. Proc. Natl. Acad. Sci. U.S.A. 97, 4453–4456 10.1073/pnas.97.9.4453 10781043 [OpenAIRE] [PubMed] [DOI]

Aguinaldo A. M. A.Turbeville J. M.Lindford L. S.Rivera M. C.Garey J. R.Raff R. A.Lake J. A. (1997). Evidence for a clade of nematodes, arthropods and other moulting animals. Nature 387, 489–493 10.1038/387489a0 9168109 [OpenAIRE] [PubMed] [DOI]

Andersson J. O. (2005). Lateral gene transfer in eukaryotes. Cell. Mol. Life Sci. 62, 1182–1197 10.1007/s00018-005-4539-z 15761667 [OpenAIRE] [PubMed] [DOI]

Andersson J. O.Sjogren A. M.Davis L. A. M.Embley T. M.Roger A. J. (2003). Phylogenetic analysis of Diplomonad genes reveals frequent lateral gene transfer affecting eukaryotes. Curr. Biol. 13, 94–104 10.1016/S0960-9822(03)00003-4 12546782 [OpenAIRE] [PubMed] [DOI]

Anna T. (2008). The Arthopod Story. Berkeley:University of California http://evolution.berkeley.edu/evolibrary/article/arthropodstory

Arnold M. (2006). Evolution Through Genetic Exchange. Oxford: Oxford University Press

Arnold M. L.Ballerini E. S.Brothers A. N. (2012). Hybrid fitness, adaptation and evolutionary diversification: lessons learned from Louisiana Irises. Heredity (Edinb.) 108, 159–166 10.1038/hdy.2011.65 21792222 [OpenAIRE] [PubMed] [DOI]

Bapteste E.Boucher Y.Leigh J.Doolittle W. F. (2004). Phylogenetic reconstruction and lateral gene transfer. Trends Microbiol. 12, 406–411 10.1016/j.tim.2004.07.002 15337161 [OpenAIRE] [PubMed] [DOI]

Beagley C. T.Okada N. A.Wolstenholme D. R. (1996). Two mitochondrial group I introns in a metazoan, the sea anemone Metridium senile: one intron contains genes for subunits 1 and 3 of NADH dehydrogenase. Proc. Natl. Acad. Sci. U.S.A. 93, 5619–5623 8643626 [OpenAIRE] [PubMed]

Belyi V. A.Levine A. J.Skalka A. M. (2010). Unexpected inheritance: multiple integrations of ancient bornavirus and ebolavirus/marburgvirus sequences in vertebrate genomes. PLoS Pathog. 6:e1001030 10.1371/journal.ppat.1001030 20686665 [OpenAIRE] [PubMed] [DOI]

Bergstrom J. (1985). Metazoan evolution—a new model. Zool. Scr. 15, 189–200

Bilewitch J. P.Degnan S. M. (2011). A unique horizontal gene transfer event has provided the octocoral mitochondrial genome with an active mismatch repair gene that has potential for an unusual self-contained function. BMC Evol. Biol. 11, 228 10.1186/1471-2148-11-228 21801381 [OpenAIRE] [PubMed] [DOI]

Brouha B.Schustak J.Badge R. M.Lutz-Prigge S.Farley A. H.Moran J. V.Kazazian H. H. (2003). Hot L1s account for the bulk of retrotransposition in the human population. Proc. Natl. Acad. Sci. U.S.A. 100, 5280–5285 10.1073/pnas.0831042100 12682288 [OpenAIRE] [PubMed] [DOI]

Brunet F.Godin F.David J. R.Capy P. (1994). The mariner transposable element in the Drosophilidae family. Heredity (Edinb.) 73, 377–385 7989218 [PubMed]

181 references, page 1 of 13
Abstract
The increase in huge number of genomic sequences in recent years has contributed to various genetic events such as horizontal gene transfer (HGT), gene duplication and hybridization of species. Among them horizontal gene transfer has played an important role in the genome evolution and was believed to occur only in Bacterial and Archaeal genomes. As a result, genomes were found to be chimeric and the evolution of life was represented in different forms such as forests, networks and species evolution was described more like a rhizome, rather than a tree. However, in the last few years, HGT has also been evidenced in other group such as metazoa (for example in roo...
Subjects
free text keywords: Tree of life, Horizontal gene transfer, Retrotransposons, Hybridization, Metazoa, [SDV.OT]Life Sciences [q-bio]/Other [q-bio.OT], Microbiology, Review Article, QR1-502, Immunology, Microbiology (medical), Infectious Diseases, Genome evolution, Retrotransposon, Genetics, Rhizome, Genome, Gene duplication, Biology
Related Organizations
181 references, page 1 of 13

Abad P.Gouzy J.Aury J. M.Castagnone-Sereno P.Danchin E. G.Deleury E.Perfus-Barbeoch L.Anthouard V.Artiguenave F.Blok V. C.Caillaud M. C.Coutinho P. M.Dasilva C.De Luca F.Deau F.Esquibet M.Flutre T.Goldstone J. V.Hamamouch N.Hewezi T.Jaillon O.Jubin C.Leonetti P.Magliano M.Maier T. R.Markov G. V.McVeigh P.Pesole G.Poulain J.Robinson-Rechavi M.Sallet E.Ségurens B.Steinbach D.Tytgat T.Ugarte E.van Ghelder C.Veronico P.Baum T. J.Blaxter M.Bleve-Zacheo T.Davis E. L.Ewbank J. J.Favery B.Grenier E.Henrissat B.Jones J. T.Laudet V.Maule A. G.Quesneville H.Rosso M. N.Schiex T.Smant G.Weissenbach J.Wincker P. (2008). Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognita. Nat. Biotechnol. 26, 909–915 10.1038/nbt.1482 18660804 [OpenAIRE] [PubMed] [DOI]

Adoutte A.Balavoine G.Lartillot N.Lespinet O.Prud'homme B.de Rosa R. (2000). The new animal phylogeny: reliability and implicatio ns. Proc. Natl. Acad. Sci. U.S.A. 97, 4453–4456 10.1073/pnas.97.9.4453 10781043 [OpenAIRE] [PubMed] [DOI]

Aguinaldo A. M. A.Turbeville J. M.Lindford L. S.Rivera M. C.Garey J. R.Raff R. A.Lake J. A. (1997). Evidence for a clade of nematodes, arthropods and other moulting animals. Nature 387, 489–493 10.1038/387489a0 9168109 [OpenAIRE] [PubMed] [DOI]

Andersson J. O. (2005). Lateral gene transfer in eukaryotes. Cell. Mol. Life Sci. 62, 1182–1197 10.1007/s00018-005-4539-z 15761667 [OpenAIRE] [PubMed] [DOI]

Andersson J. O.Sjogren A. M.Davis L. A. M.Embley T. M.Roger A. J. (2003). Phylogenetic analysis of Diplomonad genes reveals frequent lateral gene transfer affecting eukaryotes. Curr. Biol. 13, 94–104 10.1016/S0960-9822(03)00003-4 12546782 [OpenAIRE] [PubMed] [DOI]

Anna T. (2008). The Arthopod Story. Berkeley:University of California http://evolution.berkeley.edu/evolibrary/article/arthropodstory

Arnold M. (2006). Evolution Through Genetic Exchange. Oxford: Oxford University Press

Arnold M. L.Ballerini E. S.Brothers A. N. (2012). Hybrid fitness, adaptation and evolutionary diversification: lessons learned from Louisiana Irises. Heredity (Edinb.) 108, 159–166 10.1038/hdy.2011.65 21792222 [OpenAIRE] [PubMed] [DOI]

Bapteste E.Boucher Y.Leigh J.Doolittle W. F. (2004). Phylogenetic reconstruction and lateral gene transfer. Trends Microbiol. 12, 406–411 10.1016/j.tim.2004.07.002 15337161 [OpenAIRE] [PubMed] [DOI]

Beagley C. T.Okada N. A.Wolstenholme D. R. (1996). Two mitochondrial group I introns in a metazoan, the sea anemone Metridium senile: one intron contains genes for subunits 1 and 3 of NADH dehydrogenase. Proc. Natl. Acad. Sci. U.S.A. 93, 5619–5623 8643626 [OpenAIRE] [PubMed]

Belyi V. A.Levine A. J.Skalka A. M. (2010). Unexpected inheritance: multiple integrations of ancient bornavirus and ebolavirus/marburgvirus sequences in vertebrate genomes. PLoS Pathog. 6:e1001030 10.1371/journal.ppat.1001030 20686665 [OpenAIRE] [PubMed] [DOI]

Bergstrom J. (1985). Metazoan evolution—a new model. Zool. Scr. 15, 189–200

Bilewitch J. P.Degnan S. M. (2011). A unique horizontal gene transfer event has provided the octocoral mitochondrial genome with an active mismatch repair gene that has potential for an unusual self-contained function. BMC Evol. Biol. 11, 228 10.1186/1471-2148-11-228 21801381 [OpenAIRE] [PubMed] [DOI]

Brouha B.Schustak J.Badge R. M.Lutz-Prigge S.Farley A. H.Moran J. V.Kazazian H. H. (2003). Hot L1s account for the bulk of retrotransposition in the human population. Proc. Natl. Acad. Sci. U.S.A. 100, 5280–5285 10.1073/pnas.0831042100 12682288 [OpenAIRE] [PubMed] [DOI]

Brunet F.Godin F.David J. R.Capy P. (1994). The mariner transposable element in the Drosophilidae family. Heredity (Edinb.) 73, 377–385 7989218 [PubMed]

181 references, page 1 of 13
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