We describe the Hox cluster in the radially symmetric sea urchin and c
ompare our findings to what is known from clusters in bilaterally symm
etric animals. Several Hox genes from the direct-developing sea urchin
Heliocidaris erythrogramma are described. CHEF gel analysis shows tha
t the Hox genes are clustered on a less than or equal to 300 kilobase
(kb) fragment of DNA, and only a single cluster is present, as in lowe
r chordates and other nonvertebrate metazoans. Phylogenetic analyses o
f sea urchin, amphioxus, Drosophila, and selected vertebrate Hox genes
confirm that the H. erythrogramma genes, and others previously cloned
from other sea urchins, belong to anterior, central, and posterior gr
oups. Despite their radial body plan and lack of cephalization, echino
derms retain at least one of the anterior group Hox genes, an ortholog
ue of Hox3. The structure of the echinoderm Hox cluster suggests that
the ancestral deuterostome had a Hox cluster more similar to the curre
nt chordate cluster than was expected. Sea urchins have at least three
Abd-B type genes, suggesting that Abd-B expansion began before the ra
diation of deuterostomes.