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Nucleic Acids Research Advance Access first published online on September 18, 2007
This version published online on October 4, 2007
Nucleic Acids Research, doi:10.1093/nar/gkm684
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© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Database Issue

SmedGD: the Schmidtea mediterranea genome database

Sofia M.C. Robb, Eric Ross and Alejandro Sánchez Alvarado*

Department of Neurobiology and Anatomy, Howard Hughes Medical Institute, University of Utah School of Medicine, Salt Lake City, UT 84132, USA

*To whom correspondence should be addressed. Tel: +1 801 581 3548; Fax: +1 801 585 5171; Email: sanchez{at}neuro.utah.edu

Received July 24, 2007. Accepted August 20, 2007.

The planarian Schmidtea mediterranea is rapidly emerging as a model organism for the study of regeneration, tissue homeostasis and stem cell biology. The recent sequencing, assembly and annotation of its genome are expected to further buoy the biomedical importance of this organism. In order to make the extensive data associated with the genome sequence accessible to the biomedical and planarian communities, we have created the Schmidtea mediterranea Genome Database (SmedGD). SmedGD integrates in a single web-accessible portal all available data associated with the planarian genome, including predicted and annotated genes, ESTs, protein homologies, gene expression patterns and RNAi phenotypes. Moreover, SmedGD was designed using tools provided by the Generic Model Organism Database (GMOD) project, thus making its data structure compatible with other model organism databases. Because of the unique phylogenetic position of planarians, SmedGD (http://smedgd.neuro.utah.edu) will prove useful not only to the planarian research community, but also to those engaged in developmental and evolutionary biology, comparative genomics, stem cell research and regeneration.


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B. L. Cantarel, I. Korf, S. M.C. Robb, G. Parra, E. Ross, B. Moore, C. Holt, A. Sanchez Alvarado, and M. Yandell
MAKER: An easy-to-use annotation pipeline designed for emerging model organism genomes
Genome Res., January 1, 2008; 18(1): 188 - 196.
[Abstract] [Full Text] [PDF]


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