Publications - Published papers

Please find below publications of our group. Currently, we list 496 papers. Some of the publications are in collaboration with the group of Sonja Prohaska and are also listed in the publication list for her individual group. Access to published papers (access) is restricted to our local network and chosen collaborators. If you have problems accessing electronic information, please let us know:

©NOTICE: All papers are copyrighted by the authors; If you would like to use all or a portion of any paper, please contact the author.

The Amphioxus Hox Cluster: Characterization, Comparative Genomics, and Evolution

Chris T. Amemiya, Sonja J. Prohaska, Alicia Hill-Force, April Cooke, Jessica Wasserscheid, David E. K. Ferrier, Juan Pacual Anaya, Jordi Garcia-Fernàndez, Ken Dewar, Peter F. Stadler


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J.Exp.Zool.MDE 310B: 465-477 (2008)


The amphioxus <i>Hox</i> cluster is often viewed as ``archetypal&#039;&#039; for the chordate lineage. Here we present a descriptive account of the <i>448</i>kb region spanning the <i>Hox</i> cluster of the amphioxus <i>Branchiostoma floridae</i> from <i>Hox14</i> to <i>Hox1</i>. We provide complete coding sequences of all 14 previously described amphioxus sequences and describe a detailed analysis of the conserved non-coding regulatory sequence elements. We find that the posterior part of the <i>Hox</i> cluster is so highly derived that even the complete genomic sequence is insufficient to decide whether the posterior <i>Hox</i> genes arose by independent duplications or whether they are true orthologs of the corresponding gnathostome paralog groups. In contrast, the anterior region is much better conserved. The amphioxus \emph{Hox} cluster strongly excludes repetitive elements with the exception of two repeat islands in the posterior region. Repeat exclusion is also observed in gnathostomes, but not protostome \emph{Hox} clusters. We thus hypothesize that the much shorter vertebrate \emph{Hox} clusters are the result of extensive resolution of the redundancy of regulatory DNA following the genome duplications rather than the consequence of a selection pressure to remove non-functional sequence from the cluster.


Hox cluster, Branchiostoma floridae


DOI: 10.1002/jez.b.21213