Table 1

Genomes used in our analyses

Organism

Reference

Protein Database

Apis mellifera (bee)

[85]

protein (8/7/2006), NCBI

Bombyx mori (silkworm)

[86]

GLEAN merged consensus, silkworm genome consortium

Branchiostoma floridae (lancelet)

[87]

annotated proteins v1

Capitella spI (capitella)

[JGI, unpublished data]

filtered models v1, JGI

Caenorhabditis elegans (roundworm)

[88]

WS180.49 peptides, wormbase

Ciona intestinalis (tunicate)

[89]

filtered models v1, JGI

Danio rerio (zebrafish)

NCBI

protein (6/11/2008)

Daphnia pulex (waterflea)

[JGI, unpublished data]

filtered models v1.1, JGI

Drosophila melanogaster (fruit fly)

NCBI

BDGP5.4.49 peptides

Gallus gallus (chick)

NCBI

protein (11/28/2006)

Helobdella robusta (leech)

[JGI, unpublished data]

filtered models v3, JGI

Lottia gigantea (snail)

[JGI, unpublished data]

filtered models v1, JGI

Monosiga brevicollis (monosiga)

[90]

filtered models v1, JGI

Mus musculus (mouse)

NCBI

annotated proteins v3,

Nematostella vectensis (anemone)

[91]

filtered models v1, JGI

Takifugu rubripes (pufferfish)

[JGI, unpublished data [92]]

filtered models v4, JGI

Tribolium castaneum (beetle)

NCBI

protein (6/5/2008)

Trichoplax adhaerens (trichoplax)

JGI

filtered models v1, JGI

Xenopus tropicalis (frog)

JGI

filtered models v4, JGI

Rivera et al. BMC Evolutionary Biology 2010 10:123   doi:10.1186/1471-2148-10-123