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Loss of genes implicated in gastric function during platypus evolution

Gonzalo R Ordoñez1, LaDeana W Hillier2, Wesley C Warren2, Frank Grützner3, Carlos López-Otín1 and Xose S Puente1*

Author Affiliations

1 Departamento de Bioquímica y Biología Molecular, Facultad de Medicina, Instituto Universitario de Oncología, Universidad de Oviedo, C/Fernando Bongera s/n, 33006 Oviedo, Spain

2 Genome Sequencing Center, Washington University School of Medicine, Campus Box 8501, 4444 Forest Park Avenue, St. Louis, Missouri 63108, USA

3 Discipline of Genetics, School of Molecular & Biomedical Science, The University of Adelaide, 5005 South Australia, Adelaide, Australia

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Genome Biology 2008, 9:R81  doi:10.1186/gb-2008-9-5-r81

Published: 15 May 2008

Additional files

Additional data file 1:

Presented is a figure. (A) Southern blot analysis of platypus fosmids KAAG-0287H03, KAAG-0109P06, and BAC KAAG-711F22, corresponding to the PGA, PGB, and PGC loci with a murine probe for pepsin (PGA5), which failed to hybridize with the indicated platypus clones, whereas specific probes for upstream and downstream genes showed strong hybridization signals. Molecular weight markers are indicated on the left. (B) Synteny map of the gastrin locus in the indicated species. (C) Synteny map of the neurogenin-3 locus in the indicated species showing the position of platypus BAC KAAG-414H19. Southern blot analysis of this BAC resulted in the hybridization with a specific probe for the proximal gene C1ORF35, but failed to hybridize with a human-derived probe for neurogenin-3, whereas this probe recognized specific bands in chicken and lizard (Podarcis hispanica) genomic DNA. (D) Synteny map of the ATP4A locus in different vertebrates and platypus fosmid KAAG-0404B19 corresponding to this region. Southern blot analysis with a specific probe for TMEM147 revealed the presence of this gene in fosmid KAAH-0404B19. Hybridization with a human probe for ATP4A corresponding to exons 13 to 16 failed to hybridize with platypus fosmid KAAH-0404B19.

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Open Data

Additional data file 2:

Presented is a figure showing the analysis of GIF expression in platypus and echidna tissues. Total RNA from platypus and echidna (T. aculeatus) tissues was subjected to RT-PCR using specific primers for GIF and GAPDH as control. The amplification products were separated in a 3% agarose gel, showing the highest expression of GIF in echidna pancreas, as well as in liver from platypus an echidna, whereas no expression could be detected in platypus brain or muscle. The identity of echidna GIF was confirmed by direct nucleotide sequencing of the amplified product.

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Open Data

Additional data file 3:

Presented is a table listing genes implicated in stomach size and development and their status in the platypus genome.

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Open Data

Additional data file 4:

Presented is a table listing the oligonucleotides used for amplification, sequencing and hybridization of the indicated platypus genes.

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Open Data