defluvii, A. ellisii, A. venerupis and A. butzleri produced an identical and therefore uninformative amplicon [2, 5, 6].
The limitations of the current methods have arisen because of the limited testing of certain species, as well as the identification of novel species [2, 4–6]. Douidah et al.[15] suggested that the reliance of the currently-available 16S rRNA-RFLP method on polyacrylamide gel electrophoresis was a major disadvantage for its routine use. Furthermore, the recently described species A. thereius, isolated from aborted pig foetuses [16], and A. trophiarum, which selleck compound was recovered from porcine faecal matter [17], produce the same RFLP pattern as A. butzleri[2]. Additionally, the new species A. venerupis, from clams, produces a pattern that is very similar to A. marinus[6, 18]. The aim of the present study was to update the 16S rRNA-RFLP identification method to include all the currently characterised species of Arcobacter, and to provide protocols for both polyacrylamide and agarose gel electrophoresis so that the method can easily be adapted. Results MseI digestion can discriminate 10 of the 17 currently described Arcobacter species Following digestion with the endonuclease MseI, species-specific differential RFLP patterns were obtained for 47 of the 121 strains (38.8%), representing 12 of the 17 species that make up the Arcobacter genus (A. nitrofigilis, A. cryaerophilus, A. skirrowii, A. cibarius,
A. halophilus, A. mytili, A. marinus, A. molluscorum, A. ellisii, A. bivalviorum and A. venerupis), including the new described species A. cloacae (Figure 1 and Table 1). MK5108 However, A. venerupis produced a pattern very similar to that of A. marinus, with only a single 141 bp band distinguishing the two species (Figure 4 and Additional file 1: Table S1). In addition, the new species A. suis (F41) showed
the same banding pattern as A. defluvii, while the Sotrastaurin characteristic A. butzleri pattern (Figure 4 and Additional file 1: Table S1) was also observed following MseI digestion of A. thereius and A. trophiarum and 11 of the 19 (57.9%) A. cryaerophilus strains. Of these, nine strains (MICV1-1, MICV3-2, FE4, FE5, FE6, FE9, FE11, FE13 and FE14) were isolated from animal faeces in Valdivia, Chile, and two strains were isolated in Ireland (LMG 9863 and LMG 9871) from aborted ovine and bovine foetuses, respectively. The RFLP results (-)-p-Bromotetramisole Oxalate for these 11 strains were discordant with those of m-PCR and their identity was confirmed by sequencing the 16S rRNA and rpoB genes. Figure 1 16S rRNA-RFLP patterns (agarose gel 3.5%) obtained for Arcobacter spp. using the endonuclease Mse I. Lanes: L, 50 bp ladder, Fermentas. The obtained patterns agree with those expected from the computer simulation (Additional file 1: Table S1). Species that share an identical or similar pattern (Additional file 1: Table S1) were: A. butzleri, that produced a pattern identical to those of A. trophiarum, A. thereius and atypical strains (n=11) of A. cryaerophilus; A.
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