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Unusual Gene Order and Organization of the Sea Urchin Hox Cluster Paul M. Richardson Susan Lucas R. Andrew Cameron Lee Rowen Ryan Nesbitt Scott Bloom Jonathan P. Rast Kevin Berney Cesar Arenas-Mena Pedro Martinez Eric H. Davidson Kevin J. Peterson Leroy Hood
ABSTRACT: The highly consistent gene order and axial colinear expression patterns found in
vertebrate hox gene clusters are less well conserved across the rest of bilaterians. We report the
first deuterostome instance of an intact hox cluster with a unique gene order where the paralog
groups are not expressed in a sequential manner. The finished sequence from BAC clones from the
genome of the sea urchin, Strongylocentrotus purpuratus, reveals a gene order wherein the anterior
genes (Hox1, Hox2 and Hox3) lie nearest the posterior genes in the cluster such that the most 3'
gene is Hox5. (The gene order is : 5'-Hox1, 2, 3, 11/13c, 11/13b, '11/13a, 9/10, 8, 7, 6, 5 - 3)'.
The finished sequence result is corroborated by restriction mapping evidence and BAC-end scaffold
analyses. Comparisons with a putative ancestral deuterostome Hox gene cluster suggest that the
rearrangements leading to the sea urchin gene order were many and complex.
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