Identification of changes in the composition of ileal bacterial microbiota of broiler chickens infected with Clostridium perfringens.

We previously reported that Clostridium perfringens in vivo proliferation and alpha-toxin gene expression were highly correlated, both progressing in a parabolic curve pattern during the development of necrotic enteritis (NE). The present study investigated the response of dominant ileal bacteria in abundance to C. perfringens infection using PCR-based denaturing gradient gel electrophoresis (DGGE) and quantitative PCR (QPCR) techniques. Chickens were fed antibiotic-medicated (bacitracin, 55 mg/kg) or non-medicated diets, and were challenged with C. perfringens through the diet at 18 days of age. Ileal digesta was collected daily before and after the challenge for 5 days. Bacterial profiles of PCR-DGGE from both bacitracin-treated and untreated chickens responding to clostridial infection were analyzed by the principal component analysis (PCA) and partial least squares discriminant analysis (PLS-DA). Treatment-related differences in PCR-DGGE bacterial profiles on day 2 post-infection (PI) were detected. Subsequent QPCR assays identified changes in the abundance of lactobacilli, L. aviarius in particular. Changes in both populations correlated negatively with the population of C. perfringens in bacitracin-untreated group of chickens that displayed a high incidence of NE lesions. The results indicated that L. aviarius was suppressed by C. perfringens infection. This observation warrants further studies on the mechanisms underlying the ecological change and to assist in further development of novel probiotics to control NE disease.