Analysis of 16S-23S intergenic spacer regions of the rRNA operons in Edwardsiella ictaluri and Edwardsiella tarda isolates from fish

• Published in: Journal of applied microbiology 2005-01, Vol.99 (3), p.657-669
• Main Authors: Panangala, V.S, Van Santen, V.L, Shoemaker, C.A, Klesius, P.H
• Format: Article
• Language: English
• Subjects: animal pathogenic bacteria; Animals; bacteria; bacterial infections; Base Sequence; Biological and medical sciences; catfish; channel catfish; DNA, Bacterial - genetics; DNA, Ribosomal Spacer - genetics; Edwardsiella - genetics; Edwardsiella - isolation & purification; Edwardsiella ictaluri; Edwardsiella ictaluri - genetics; Edwardsiella ictaluri - isolation & purification; Edwardsiella tarda; Edwardsiella tarda - genetics; Edwardsiella tarda - isolation & purification; Enterobacteriaceae - genetics; fish culture; fish diseases; Fishes - microbiology; Fundamental and applied biological sciences. Psychology; Ictalurus punctatus; intergenic spacer region; intergenic spacer regions; Microbiology; molecular sequence data; nucleotide sequences; operon; Operon - genetics; Phylogeny; polymerase chain reaction; Polymorphism, Restriction Fragment Length; restriction fragment length polymorphism; ribosomal RNA; RNA, Bacterial - genetics; RNA, Ribosomal - genetics; RNA, Ribosomal, 16S - genetics; RNA, Ribosomal, 23S - genetics; sequence alignment; sequence analysis; Sequence Analysis, DNA - methods; Species Specificity
• ISSN: 1364-5072; 1365-2672
• DOI: 10.1111/j.1365-2672.2005.02626.x

Aims: To analyse interspecies and intraspecies differences based on the 16S-23S rRNA intergenic spacer region (ISR) sequences of the fish pathogens Edwardsiella ictaluri and Edwardsiella tarda. Methods and Results: The 16S-23S rRNA spacer regions of 19 Edw. ictaluri and four Edw. tarda isolates from four geographical regions were amplified by PCR with primers complementary to conserved sequences within the flanking 16S-23S rRNA coding sequences. Two products were generated from all isolates, without interspecies or intraspecific size polymorphisms. Sequence analysis of the amplified fragments revealed a smaller ISR of 350 bp, which contained a gene for tRNA(Glu), and a larger ISR of 441 bp, which contained genes for tRNA(Ile) and tRNA(Ala). The sequences of the smaller ISR of different Edw. ictaluri isolates were essentially identical to each other. Partial sequences of larger ISR from several Edw. ictaluri isolates also revealed no differences from the one complete Edw. ictaluri large ISR sequence obtained. The sequences of the smaller ISR of Edw. tarda were 97% identical to the Edw. ictaluri smaller ISR and the larger ISR were 96-98% identical to the Edw. ictaluri larger ISR sequence. The Edw. tarda isolates displayed limited ISR sequence heterogeneity, with greater than or equal to 97% sequence identity among isolates for both small and large ISR. Conclusions: There is a high degree of size and sequence similarity of 16S-23S ISR both among isolates within Edw. ictaluri and Edw. tarda species and between the two species. Significance and Impact of the Study: Our results confirm a close genetic relationship between Edw. ictaluri and Edw. tarda and the relative homogeneity of Edw. ictaluri isolates compared with Edw. tarda isolates. Because no differences were found in ISR sequences among Edw. ictaluri isolates, sequence analysis of the ISR will not be useful to distinguish isolates of Edw. ictaluri. However, we identified restriction sites that differ between ISR sequences of Edw. ictaluri and Edw. tarda, which will be useful in distinguishing the two species.