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Open Access Research article

Nucleotide substitutions in dengue virus serotypes from Asian and American countries: insights into intracodon recombination and purifying selection

Susanta K Behura and David W Severson*

Author Affiliations

Eck Institute for Global Health, Department of Biological Sciences, University of Notre Dame, 46556, Notre Dame, IN, USA

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BMC Microbiology 2013, 13:37  doi:10.1186/1471-2180-13-37

Published: 14 February 2013

Additional files

Additional file 1: Table S1:

List of GenBank accession numbers of dengue virus samples investigated in the study. The country and year of collection of samples are also provided.

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Additional file 2: Table S2:

Relative rate of nucleotide substitutions (based on HKY85 model) within serotypes of dengue virus.

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Additional file 3: Table S3:

Distribution of synonymous (syn) and non-synonymous (non-syn) sites among different genes of dengue virus. The numbers in parenthesis are counts of substitutions that are fixed within serotypes. The p value shows statistical significance of association between synonymous or nonsynonymous sites with or without tendency of fixation in each gene.

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Additional file 4:

Codons that are used more often than expected in one sample (RSCU >2 *) but less than expected (RSCU < 0.5) in the other in the same serotype of dengue virus.

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Additional file 5: Figure S1:

Condon context patterns of DENV 1, 2, 3 and 4.

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Additional file 6:

List of positively and negatively selected sites in dengue virus genes.

Format: XLSX Size: 213KB Download file

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