Intra-host genetic diversity analysis of DENV-1 populations from 17 sera of patients infected in FP between 2001 and 2006.

Each clone sequence was compared to other clone sequences for each serum sample.The percentage of variable nucleotide (nt) sites was the number of variable nt sites ��100 divided by the number of nt analysed (758 nt).The percentage of nucleotide (nt) mutations was the number of nt mutations ��100 divided by the number of nt sequenced for each serum sample.The average pairwise distance was calculated among the nucleotide (�� nt) and amino acid (�� aa) sequences in each serum.The mean ratio of non-synonymous (dN) and synonymous (dS) substitutions per site were estimated using the pairwise method of Nei and Gojobori.aDF = dengue fever, DHF = dengue haemorraghic fever, DSS = dengue shock syndrome.bStrains 47.2002 and 49.2002 corresponded to sequential samples from the same patient (day 1 and day 4 of the symptoms).Overall, the time of serum collection relative to infection that do not appear to be a critical parameter for the study of DENV intra-host genetic diversity [42],[43] ranged from one to six days in documented cases.cDifferences between DF and DHF sera were statistically significant (pMethods for details of statistical analysis).