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Open Access Highly Accessed Research article

An ancient history of gene duplications, fusions and losses in the evolution of APOBEC3 mutators in mammals

Carsten Münk1, Anouk Willemsen2 and Ignacio G Bravo234*

Author Affiliations

1 Clinic for Gastroenterology, Hepatology and Infectiology, Medical Faculty, Heinrich-Heine-University, Düsseldorf, Germany

2 Genomics and Health, Centre for Public Health Research (CSISP), Valencia, Spain

3 Infections and Cancer, Catalan Institute of Oncology (ICO) | Bellvitge Institute of Biomedical Research (IDIBELL), Barcelona, Spain

4 Infections and Cancer, Catalan Institute of Oncology (ICO), Avda. Gran Via, 199-203, L’Hospitalet de Llobregat, Barcelona, 08908, Spain

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BMC Evolutionary Biology 2012, 12:71  doi:10.1186/1471-2148-12-71

Published: 28 May 2012

Additional files

Additional file 1:

Table S1.Taxonomy and sequence accession numbers of the sequences used in this study.

Format: XLS Size: 47KB Download file

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Additional file 2:

Figure S1.Best‒known maximum likelihood tree for the A3 genes analysed, AICDA and for the outgroup A1. Colour code describes mammalian taxa, as in Figure  1. Values in the nodes depict bootstrap support.

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Additional file 3:

Figure S2.mRNAs deposited in the databases originating from the human A3 locus, after the USCS Genome Browser ( http://genome.ucsc.edu/cgi‒bin/hgTracks webcite), showing human chromosome 22, positions 39,250,000 to 39,550,000, accessed on December 13th 2011.

Format: PNG Size: 1.3MB Download file

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Additional file 4:

Figure S3.Bayesian dated tree for the A3 genes analysed, AICDA and for the outgroup A1. Bars around the nodes describe the 95% HPD for the inference of the node age.

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Additional file 5:

Table S2.Values for calibration used in this study.

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Additional file 6:

Figure S4.Copy number variation in the human A3 locus, after the Database of Genomic Variants ( http://projects.tcag.ca/cgi‒bin/variation/gbrowse/hg19/ webcite), showing human chromosome 22, positions 39,250,000 to 39,550,000, accessed on December 13th 2011.

Format: PNG Size: 123KB Download file

Open Data

Additional file 7:

Final sequence matrix, codon-aligned.

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