Figure - PMC

Skip to main content

An official website of the United States government

Here's how you know

Here's how you know

Official websites use .gov
A .gov website belongs to an official government organization in the United States.

Secure .gov websites use HTTPS
A lock ( ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.

View full-text article in PMC

. 2017 Sep 13;22(3):400–410.e5. doi: 10.1016/j.chom.2017.08.003

Search in PMC
Search in PubMed
View in NLM Catalog
Add to search

© 2017 Elsevier Inc.

Since January 2020 Elsevier has created a COVID-19 resource centre with free information in English and Mandarin on the novel coronavirus COVID-19. The COVID-19 resource centre is hosted on Elsevier Connect, the company's public news and information website. Elsevier hereby grants permission to make all its COVID-19-related research that is available on the COVID-19 resource centre - including this research content - immediately available in PubMed Central and other publicly funded repositories, such as the WHO COVID database with rights for unrestricted research re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for free by Elsevier for as long as the COVID-19 resource centre remains active.

PMC Copyright notice

DENV-3 Intrahost Diversity Is Shaped by Selection Pressures

(A) Percent unique loci per protein with amino acid diversity, calculated as the percent of amino acids in a protein that show ≥1% variation, in PBMC (left panel) and plasma (right panel) samples from 53 individuals with 1° and 46 individuals with 2° dengue. ^∗p ≤ 0.01, ^∗∗p ≤ 0.001 (Wilcoxon signed-rank test). Each line represents one protein.

(B) Comparisons of genome equivalents per milliliter (GE/mL) of extracted RNA in 53 1° and 46 2° cases from PBMC (left panel) and plasma (right panel) samples, median ± SD, boxes represent 25^th and 75^th percentiles and whiskers are 10^th and 90^th percentiles. n.s., non-significant (Wilcoxon test for unpaired samples).

(C) All loci with ≥1% variation at the amino acid level, superimposed on the exposed surface (left panel) or the membrane-associated surface (right panel) of the DENV-3 E protein homodimer (PDB: 1UZG). Amino acids are colored according to whether they exhibit diversity in PBMC samples only (PBMCs, red), in plasma samples only (Plasma, blue), or in both PBMCs and plasma (Both, green). Data are shown separately for 53 1° (top panel) and 46 2° (bottom panel) dengue cases. EDIa/b, EDIIa/b, EDIIIa/b represent E domains I, II, and III from monomer chains a and b, respectively.

(D) Percent amino acid variants for loci that exhibit diversity in PBMCs only (PBMCs), compared with loci that exhibit diversity in both PBMCs and plasma (Both), median ± SD, boxes represent 25^th and 75^th percentiles and whiskers are 10^th and 90^th percentiles. In the left panel, the y axis represents the percent abundance of non-synonymous variants in PBMCs. In the right panel, the y axis represents the percent abundance of synonymous variants in PBMCs. ^∗∗p ≤ 0.0001 (Wilcoxon test), n = 22 paired PBMC and plasma samples.

(E) Protein-specific comparisons of percent amino acid variants in 22 paired PBMC and plasma samples, colored by whether individual loci display ≥1% amino acid diversity in PBMC samples only (yellow), in plasma samples only (red), or in both PBMC and plasma samples (green). Data are shown for the two proteins (prM/M and NS3) that exhibit significant differences in % amino acid (AA) variants between PBMCs and plasma. All other proteins (including E, which is shown as an example) exhibit no significant differences in % AA variants between PBMCs and plasma. ^∗∗p ≤ 0.0001, n.s., non-significant (Wilcoxon signed-rank test).

(F) Comparisons of genome equivalents per milliliter (GE/mL) of extracted RNA in 12 paired PBMC and plasma samples. n.s., non-significant (Wilcoxon signed-rank test for paired samples).