Objectives
To evaluate the impact of HIV infection on colonization resistance in the proximal gut.
Design
It was a case-control study.
Methods
We contrasted microbiota composition between 8 HIV-1-infected patients and 8 HIV-negative controls to characterize community alteration and detect exogenous bacteria in the esophagus, stomach, and duodenum as well as the mouth using a universal 16S rRNA gene survey and correlated the findings with HIV serostatus and peripheral blood T-cell counts.
Results
HIV infection was associated with an enrichment of Proteobacteria (p=0.020) and depletion of Firmicutes (p=0.005) in the proximal gut. In particular, environmental species Burkholderia fungorum and Bradyrhizobium pachyrhizi colonized the duodenum of HIV patients who had abnormal blood CD4+ T-cell counts but were absent in HIV-negative controls or HIV patients whose CD4 counts were normal. The two species coexisted and exhibited a decreasing trend proximally towards the stomach and esophagus and were virtually absent in the mouth. B. fungorum always outnumbered B. pachyrhizi in a ratio of approximately 15 to 1 regardless of the body sites (p<0.0001, r2=0.965). Their abundance was inversely correlated with CD4 counts (p=0.004) but not viral load. Overgrowth of potential opportunistic pathogens e.g. Prevotella, Fusobacterium, and Ralstonia and depletion of beneficial bacteria, e.g. Lactobacillus were also observed in HIV patients.
Conclusions
The colonization of the duodenum by environmental bacteria reflects loss of colonization resistance in HIV infection. Their correlation with CD4 counts suggests that compromised immunity could be responsible for the observed invasion by exogenous microbes.