Fig. 6.

Absence of an expanded virome in fecal samples from SIVcpz-infected chimpanzees. (a) Detection of chimpanzee adenovirus (ChAdV) and chimpanzee stool associated circular virus (Chi-SCV) viral reads in fecal samples by metagenomic sequencing, with the number of paired-end viral reads (color coded) indicated for each individual. Virus infection was independently confirmed by nested PCR amplification and sequencing of ChAdV and Chi-SCV sequences from fecal DNA. (b and c) Chi-SCV (b) and ChAdV (c) viral loads were determined for all fecal samples listed in Table II using a virus-specific real time PCR and expressed as copies per ml of fecal sample (normalized by total sample DNA). The percentage of positive samples in each group is indicated, with the limit of detection denoted by a broken line. For each group, the median and standard error of the mean (SEM) are shown. Fecal samples from four chimpanzees that exhibited a compositional shift in their fecal bacteriome (Figs. 4 and 5) are highlighted (Eriki, blue; Mambo, purple; Malaika, green; Yolanda, orange). Statistical analyses were performed using the Mann–Whitney U-test. NS, not significant.