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Open Access Research article

ESTs and EST-linked polymorphisms for genetic mapping and phylogenetic reconstruction in the guppy, Poecilia reticulata

Christine Dreyer*, Margarete Hoffmann, Christa Lanz, Eva-Maria Willing, Markus Riester, Norman Warthmann, Andrea Sprecher, Namita Tripathi, Stefan R Henz and Detlef Weigel

Author Affiliations

Department of Molecular Biology, Max Planck Institute for Developmental Biology, Tübingen, D72076, Germany

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BMC Genomics 2007, 8:269  doi:10.1186/1471-2164-8-269

Published: 8 August 2007

Abstract

Background

The guppy, Poecilia reticulata, is a well-known model organism for studying inheritance and variation of male ornamental traits as well as adaptation to different river habitats. However, genomic resources for studying this important model were not previously widely available.

Results

With the aim of generating molecular markers for genetic mapping of the guppy, cDNA libraries were constructed from embryos and different adult organs to generate expressed sequence tags (ESTs). About 18,000 ESTs were annotated according to BLASTN and BLASTX results and the sequence information from the 3' UTRs was exploited to generate PCR primers for re-sequencing of genomic DNA from different wild type strains. By comparison of EST-linked genomic sequences from at least four different ecotypes, about 1,700 polymorphisms were identified, representing about 400 distinct genes. Two interconnected MySQL databases were built to organize the ESTs and markers, respectively. A robust phylogeny of the guppy was reconstructed, based on 10 different nuclear genes.

Conclusion

Our EST and marker databases provide useful tools for genetic mapping and phylogenetic studies of the guppy.