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Open Access Highly Accessed Research article

Genomic characterization of the European sea bass Dicentrarchus labrax reveals the presence of a novel uncoupling protein (UCP) gene family member in the teleost fish lineage

Mbaye Tine1*, Heiner Kuhl1, Martin Jastroch2 and Richard Reinhardt3

Author Affiliations

1 Max Planck Institute for Molecular Genetics, Ihnestresse 63-73, 14195, Berlin, Germany

2 Helmholtz Zentrum Munich, German Research Center for Environmental Health (GmbH) Ingolstädter, Landstr. 1, Munich, Germany

3 Genome Centre Cologne at MPI for Plant Breeding Research, Carl-von-Linné-Weg 10, 50829, Cologne, Germany

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BMC Evolutionary Biology 2012, 12:62  doi:10.1186/1471-2148-12-62

Published: 11 May 2012

Additional files

Additional file 1 :

Embl files of sea bass genomic UCP loci including flanking gene annotations. These files contain the sequences of four UCP genes characterized in sea bass and their flanking genes.

Format: ZIP Size: 58KB Download file

Open Data

Additional file 2 :

Pairwise comparisons of nonsynonymous and synonymous substitution rates of all teleost UCP genes. Substitution rates were estimated using the yn00 program in PAML.

Format: XLS Size: 15KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 3 :

QI(k) or QII(k) values for all combinations of pairwise comparisons of UCP clusters in teleost fishes. QI (k) or QII (k) values highlighted in blue indicate sites that might be responsible for functional divergence.

Format: XLS Size: 119KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 4 :

Multiple alignment of UCP protein sequences from six teleost species (A) and major vertebrate lineages including teleosts (B). The amino acid alignments were conducted using MAFFT version 6 and the poor aligned regions were removed with Gblocks. The alignments were illustrated with GeneDoc. The most conserved amino acids are highlighted in black. Tetraodon: Te; Sea bass: Sb; Zebrafish: Ze; Stickleback: St; Medaka: Me; Takifugu; Fu; Xtrop: Xenopus tropicalis; A.liz: Anolis lizard; Hum: Huam; Mou: Mouse; Ele: Elephant; Lamp: Lamprey; Chick: Chicken.

Format: DOC Size: 388KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data