In order to isolate genes important in controlling embryonic developme
nt in Tunicates, a genomic library from the ascidian Ciona intestinali
s was screened with a degenerate oligodeoxyribonucleotide encoding the
third helix of Antennapedia-type homeoboxes. Fourteen C, intestinalis
homeobox genes, corresponding to several classes of homeodomains, hav
e been identified. Five of the isolated homeoboxes show their highest
homology to members of the Vertebrate HOX clusters. mRNAs for two of t
he isolated homeoboxes are present in unfertilized C. intestinalis egg
s.