140
F. Marlétaz and Y. Le Parco
Maslakova SA, Martindale MQ, Norenburg JL (2004) Vestigial prototroch in a basal nemertean,
Carinoma tremaphoros (Nemertea; Palaeonemertea). Evol Dev 6:219–226
Matus DQ, Copley RR, Dunn CW, Hejnol A, Eccleston H, Halanych KM, Martindale MQ, Telford
MJ (2006) Broad taxon and gene sampling indicate that chaetognaths are protostomes. Curr
Biol 16:R
Muller GB (2007) Evo-devo: extending the evolutionary synthesis. Nat Rev Genet 8:943–949
Nielsen C (2001) Animal Evolution: interelationships of the living phyla. Oxford University Press,
New York.
Nielsen C (2008) Six major steps in animal evolution: are we derived sponge larvae?. Evol Dev
10:241–257
Papillon D, Perez Y, Caubit X, Le Parco Y (2004) Identification of chaetognaths as protostomes is supported by the analysis of their mitochondrial genome. Mol Biol Evol 21:
2122–2129
Papillon D, Perez Y, Caubit X, Le Parco Y (2006) Systematics of Chaetognatha under the light
of molecular data, using duplicated ribosomal 18S DNA sequences. Mol Phylogenet Evol 38:
621–634
Passamaneck Y, Halanych KM (2006) Lophotrochozoan phylogeny assessed with LSU and SSU
data: evidence of lophophorate polyphyly. Mol Phylogenet Evol 40:20–28
Peterson KJ, Eernisse DJ (2001) Animal phylogeny and the ancestry of bilaterians: inferences from
morphology and 18S rDNA gene sequences. Evol Dev 3:170–205
Philip GK, Creevey CJ, McInerney JO (2005) The Opisthokonta and the Ecdysozoa may not be
clades: stronger support for the grouping of plant and animal than for animal and fungi and
stronger support for the Coelomata than Ecdysozoa. Mol Biol Evol 22:1175–1184
Philippe H, Brinkmann H, Martinez P, Riutort M, Baguna J (2007) Acoel flatworms are not
platyhelminthes: evidence from phylogenomics. PLoS ONE 2:e717
Philippe H, Delsuc F, Brinkmann H, Lartillot N (2005a) Phylogenomics. Annu Rev Ecol Evol Syst
36:541–562
Philippe H, Lartillot N, Brinkmann H (2005b) Multigene analyses of bilaterian animals corroborate the monophyly of Ecdysozoa, Lophotrochozoa, and Protostomia. Mol Biol Evol 22:
1246–1253
Philippe H, Snell EA, Bapteste E, Lopez P, Holland PW, Casane D (2004) Phylogenomics of
eukaryotes: impact of missing data on large alignments. Mol Biol Evol 21:1740–1752
Philippe H, Telford MJ (2006) Large-scale sequencing and the new animal phylogeny. Trends Ecol
Evol 21:614–620
Putnam NH, Srivastava M, Hellsten U, Dirks B, Chapman J, Salamov A, Terry A, Shapiro H,
Lindquist E, Kapitonov VV, Jurka J, Genikhovich G, Grigoriev IV, Lucas SM, Steele RE,
Finnerty JR, Technau U, Martindale MQ, Rokhsar DS (2007) Sea anemone genome reveals
ancestral eumetazoan gene repertoire and genomic organization. Science 317:86–94
Raible F, Tessmar-Raible K, Osoegawa K, Wincker P, Jubin C, Balavoine G, Ferrier D, Benes V,
de Jong P, Weissenbach J, Bork P, Arendt D (2005) Vertebrate-type intron-rich genes in the
marine annelid Platynereis dumerilii. Science 310:1325–1326
Remane A (1963) The enterocelic origin of the coelom. In: Dougherty EC (ed) The lower metazoa.
University of California Press, Berkeley, CA, pp 78–90
Rogozin IB, Wolf YI, Carmel L, Koonin EV (2007) Ecdysozoan clade rejected by genome-wide
analysis of rare amino acid replacements. Mol Biol Evol 24:1080–1090
Rokas A, Carroll SB (2005) More genes or more taxa? The relative contribution of gene number
and taxon number to phylogenetic accuracy. Mol Biol Evol 22:1337–1344
Rokas A, Holland PW (2000a) Rare genomic changes as a tool for phylogenetics. Trends Ecol
Evol 15:454–459
Rokas A, Holland PW (2000b) Rare genomic changes as a tool for phylogenetics. Trends Ecol
Evol 15:454–459
Rokas A, Kruger D, Carroll SB (2005) Animal evolution and the molecular signature of radiations
compressed in time. Science 310:1933–1938
F. Marlétaz and Y. Le Parco
Maslakova SA, Martindale MQ, Norenburg JL (2004) Vestigial prototroch in a basal nemertean,
Carinoma tremaphoros (Nemertea; Palaeonemertea). Evol Dev 6:219–226
Matus DQ, Copley RR, Dunn CW, Hejnol A, Eccleston H, Halanych KM, Martindale MQ, Telford
MJ (2006) Broad taxon and gene sampling indicate that chaetognaths are protostomes. Curr
Biol 16:R
Muller GB (2007) Evo-devo: extending the evolutionary synthesis. Nat Rev Genet 8:943–949
Nielsen C (2001) Animal Evolution: interelationships of the living phyla. Oxford University Press,
New York.
Nielsen C (2008) Six major steps in animal evolution: are we derived sponge larvae?. Evol Dev
10:241–257
Papillon D, Perez Y, Caubit X, Le Parco Y (2004) Identification of chaetognaths as protostomes is supported by the analysis of their mitochondrial genome. Mol Biol Evol 21:
2122–2129
Papillon D, Perez Y, Caubit X, Le Parco Y (2006) Systematics of Chaetognatha under the light
of molecular data, using duplicated ribosomal 18S DNA sequences. Mol Phylogenet Evol 38:
621–634
Passamaneck Y, Halanych KM (2006) Lophotrochozoan phylogeny assessed with LSU and SSU
data: evidence of lophophorate polyphyly. Mol Phylogenet Evol 40:20–28
Peterson KJ, Eernisse DJ (2001) Animal phylogeny and the ancestry of bilaterians: inferences from
morphology and 18S rDNA gene sequences. Evol Dev 3:170–205
Philip GK, Creevey CJ, McInerney JO (2005) The Opisthokonta and the Ecdysozoa may not be
clades: stronger support for the grouping of plant and animal than for animal and fungi and
stronger support for the Coelomata than Ecdysozoa. Mol Biol Evol 22:1175–1184
Philippe H, Brinkmann H, Martinez P, Riutort M, Baguna J (2007) Acoel flatworms are not
platyhelminthes: evidence from phylogenomics. PLoS ONE 2:e717
Philippe H, Delsuc F, Brinkmann H, Lartillot N (2005a) Phylogenomics. Annu Rev Ecol Evol Syst
36:541–562
Philippe H, Lartillot N, Brinkmann H (2005b) Multigene analyses of bilaterian animals corroborate the monophyly of Ecdysozoa, Lophotrochozoa, and Protostomia. Mol Biol Evol 22:
1246–1253
Philippe H, Snell EA, Bapteste E, Lopez P, Holland PW, Casane D (2004) Phylogenomics of
eukaryotes: impact of missing data on large alignments. Mol Biol Evol 21:1740–1752
Philippe H, Telford MJ (2006) Large-scale sequencing and the new animal phylogeny. Trends Ecol
Evol 21:614–620
Putnam NH, Srivastava M, Hellsten U, Dirks B, Chapman J, Salamov A, Terry A, Shapiro H,
Lindquist E, Kapitonov VV, Jurka J, Genikhovich G, Grigoriev IV, Lucas SM, Steele RE,
Finnerty JR, Technau U, Martindale MQ, Rokhsar DS (2007) Sea anemone genome reveals
ancestral eumetazoan gene repertoire and genomic organization. Science 317:86–94
Raible F, Tessmar-Raible K, Osoegawa K, Wincker P, Jubin C, Balavoine G, Ferrier D, Benes V,
de Jong P, Weissenbach J, Bork P, Arendt D (2005) Vertebrate-type intron-rich genes in the
marine annelid Platynereis dumerilii. Science 310:1325–1326
Remane A (1963) The enterocelic origin of the coelom. In: Dougherty EC (ed) The lower metazoa.
University of California Press, Berkeley, CA, pp 78–90
Rogozin IB, Wolf YI, Carmel L, Koonin EV (2007) Ecdysozoan clade rejected by genome-wide
analysis of rare amino acid replacements. Mol Biol Evol 24:1080–1090
Rokas A, Carroll SB (2005) More genes or more taxa? The relative contribution of gene number
and taxon number to phylogenetic accuracy. Mol Biol Evol 22:1337–1344
Rokas A, Holland PW (2000a) Rare genomic changes as a tool for phylogenetics. Trends Ecol
Evol 15:454–459
Rokas A, Holland PW (2000b) Rare genomic changes as a tool for phylogenetics. Trends Ecol
Evol 15:454–459
Rokas A, Kruger D, Carroll SB (2005) Animal evolution and the molecular signature of radiations
compressed in time. Science 310:1933–1938