Use of rep-PCR to define genetic relatedness among Bacteroides fragilis strains

Abstract

Bacteroides fragilis, a component of the normal flora and an important anaerobic pathogen in non-intestinal endogenous infections, has recently been associated with enteric diseases. In this study, 41 B. fragilis strains were analysed in relation to their genetic diversity. This collection included two reference strains (ATCC 23745 and 25285), 20 isolates from non-intestinal infections, six from intestinal infections, five from intestinal microflora and eight from an aquatic environment. The fingerprints were generated by using two repetitive sequences (REP and ERIC) as primers to PCR (rep-PCR). A dendrogram was obtained with the Taxotron1 Program. Three clusters (threshold genotypes I, II and III) were observed when the genetic distance was 0.30. These results confirm previous data found regarding the genotypical diversity of B. fragilis.

Clonality of Fusobacterium nucleatum in root canal infections

“…This is the first study to investigate the clonality of F. nucleatum strains isolated from infected root canals. We have already observed the presence of Repetitive Extragenic Palindromic (REP)‐ and ERIC‐like sequences in anaerobic bacteria (6), confirming and extending the suggestion made by other authors that these sequences are virtually ubiquitous and that ERIC‐PCR can be equally sensitive for investigating the genetic heterogeneity within a bacterial species (15). However, to our knowledge, this is the first time that a study has suggested the presence of ERIC‐like sequences in F. nucleatum strains.…”

“…The following oligonucleotide sequences were tested to select suitable candidate primers to determine the clonality of the F. nucleatum isolates: two specific sequences: ERIC1R and ERIC2 primers (6), and five random sequences: 910‐01, 910‐30 (5), 1254, 1290 and 1252 (9). Primers that generated few, distinct bands were used for all F. nucleatum isolates.…”

The comparative genomics of Bifidobacterium callitrichos reflects dietary carbohydrate utilization within the common marmoset gut

“…The genus Anaerobiospirillum consists of Gram-negative, anaerobic, spiral-shaped rods which are known to be the part of the normal gastrointestinal microbiota of dogs and cats [ 74, 75 ]. Bacteroides species are important members of the human and animal gut microbiota identified from feces (representing approximately 30 % of the cultured species) [ 76, 77 ]. Phascolarctobacterium are Gram-negative, non-spore-forming, saccharolytic Firmicutes , which could produce short-chain fatty acids and have been identified in human and koala feces [ 78 ].…”

Long-term ecological impacts of antibiotic administration on the human intestinal microbiota

“…that were previously isolated from faecal samples (Lö fmark et al, 2006) in both clindamycin exposed and control groups. Specific Bacteroides clones were typed by repetitive sequenced based PCR (rep-PCR) (Moraes et al, 2000). The rep-PCR method generates fingerprints of DNA fragments that are size separated and visualized by electrophoresis, enabling high-resolution typing of individual bacterial clones or strains (Versalovic et al, 1998).…”