Open Access Research article

Distribution of events of positive selection and population differentiation in a metabolic pathway: the case of asparagine N-glycosylation

Giovanni Marco Dall’Olio1, Hafid Laayouni1*, Pierre Luisi1, Martin Sikora2, Ludovica Montanucci1 and Jaume Bertranpetit1

Author Affiliations

1 IBE, Institut de Biologia Evolutiva (UPF-CSIC), Parc de Recerca Biomèdica de Barcelona (PRBB), Dr. Aiguader, 88, 08003, Barcelona, Catalonia, Spain

2 Department of Genetics, Stanford University School of Medicine, Stanford, USA

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BMC Evolutionary Biology 2012, 12:98  doi:10.1186/1471-2148-12-98

Published: 25 June 2012

Additional files

Additional file 1:

Table S1. HGDP populations and the number of individuals used in the study. S2. List of genes analyzed. S3. Mean FST values per Gene, by Continental group. S4. Z scores and combined p-values for FST estimates of all SNPs within a gene region ± 100 kb for all genes of Asparagine N-Glycosylation pathway. S5. Mean iHS values per Gene, by Continental group. S6. Z scores and combined p values for iHS estimates of all SNPs within a gene region ± 100 kb for all genes of Asparagine N-Glycosylation pathway. S7. Mann–Whitney U Test comparing upstream and downstream parts of the pathway. S8. Comparison of the number of events of genetic differentiation (FST) and positive selection (iHS) between the upstream and downstream part of the pathway. S9. Hypergeometric test per population. S10. Node centralities by gene. (XLS 155 kb)

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Additional file 2:

Figure S1. FST values in the region including each gene of the Asparagine N-Glycosylation pathway. For each gene, the FST of all the SNPs within 400 kb upstream and 400 kb downstream are shown, on a row for each population. The values for genes within the gene are shown in darker gray. A smoothing line (calculated with the Loess function) is shown to help the visualization.

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Additional file 3:

Figure S2. iHS values in the region including each gene of the Asparagine N-Glycosylation pathway. For each gene, the iHS of all the SNPs within 400 kb upstream and 400 kb downstream are shown, on a row for each population. The values for SNPs within the gene are shown in darker grey. A smoothing line (calculated with the Loess function) is shown to help the visualization.

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Additional file 4:

Figure S3. Distribution of iHS mean values on the genes of the Asparagine N-Glycosylation pathway for European populations.

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