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Structure of rrn operons in pathogenic non-cultivable treponemes: sequence but not genomic position of intergenic spacers correlates with classification of Treponema pallidum and Treponema paraluiscuniculi strains.

Cejková D, Zobaníková M, Pospísilová P, Strouhal M, Mikalová L, Weinstock GM, Smajs D - J. Med. Microbiol. (2012)

Bottom Line: Other than these deletions, only 17 heterogeneous sites were found within the entire region (excluding the 16S-23S intergenic spacer region encoding tRNA-Ile or tRNA-Ala).The pattern of nucleotide changes in the rrn operons corresponded to the classification of treponemal strains, whilst two different rrn spacer patterns (Ile/Ala and Ala/Ile) appeared to be distributed randomly across species/subspecies classification, time and geographical source of the treponemal strains.It is suggested that the random distribution of tRNA genes is caused by reciprocal translocation between repetitive sequences mediated by a recBCD-like system.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, Faculty of Medicine, Masaryk University, Kamenice 5, Building A6, 62500 Brno, Czech Republic.

ABSTRACT
This study examined the sequences of the two rRNA (rrn) operons of pathogenic non-cultivable treponemes, comprising 11 strains of T. pallidum ssp. pallidum (TPA), five strains of T. pallidum ssp. pertenue (TPE), two strains of T. pallidum ssp. endemicum (TEN), a simian Fribourg-Blanc strain and a rabbit T. paraluiscuniculi (TPc) strain. PCR was used to determine the type of 16S-23S ribosomal intergenic spacers in the rrn operons from 30 clinical samples belonging to five different genotypes. When compared with the TPA strains, TPc Cuniculi A strain had a 17 bp deletion, and the TPE, TEN and Fribourg-Blanc isolates had a deletion of 33 bp. Other than these deletions, only 17 heterogeneous sites were found within the entire region (excluding the 16S-23S intergenic spacer region encoding tRNA-Ile or tRNA-Ala). The pattern of nucleotide changes in the rrn operons corresponded to the classification of treponemal strains, whilst two different rrn spacer patterns (Ile/Ala and Ala/Ile) appeared to be distributed randomly across species/subspecies classification, time and geographical source of the treponemal strains. It is suggested that the random distribution of tRNA genes is caused by reciprocal translocation between repetitive sequences mediated by a recBCD-like system.

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Alignment of 16S–23S ISRs in TPA Nichols rrn operons. The gene encoding tRNA-Ile (TP_t12) is shown in red, whilst the gene encoding tRNA-Ala-3 (TP_t15) is in blue.
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f2: Alignment of 16S–23S ISRs in TPA Nichols rrn operons. The gene encoding tRNA-Ile (TP_t12) is shown in red, whilst the gene encoding tRNA-Ala-3 (TP_t15) is in blue.

Mentions: In the individual TPA genomes, the amplified rrn1 and rrn2 regions were identical for 5141 bp (Tables 2 and S2, Fig. 1) including the DNA regions 212 bp upstream of the 16S rRNA, the 16S rRNA (1537 bp), 23S rRNA (2951 bp), 5S rRNA (110 bp) and 23S–5S ISR (50 bp), and a region of 54 bp downstream of the 5S rRNA. Additional identical sequences were located within the 16S–23S ISR downstream of the 16S rRNA (120 bp) and upstream of the 23S rRNA (118 bp) genes (Fig. 2, Table 2). Alternative sequences within the 16S–23S ISR, encoding tRNA-Ile or tRNA-Ala, comprised an additional 64 or 74 bp, respectively (Fig. 2). To extend the comparative analysis over all available data, the TPA Chicago sequences of the rrn operons (GenBank accession no. CP001752; Giacani et al., 2010) were added to the sequences of the 20 strains used in this study.


Structure of rrn operons in pathogenic non-cultivable treponemes: sequence but not genomic position of intergenic spacers correlates with classification of Treponema pallidum and Treponema paraluiscuniculi strains.

Cejková D, Zobaníková M, Pospísilová P, Strouhal M, Mikalová L, Weinstock GM, Smajs D - J. Med. Microbiol. (2012)

Alignment of 16S–23S ISRs in TPA Nichols rrn operons. The gene encoding tRNA-Ile (TP_t12) is shown in red, whilst the gene encoding tRNA-Ala-3 (TP_t15) is in blue.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3755535&req=5

f2: Alignment of 16S–23S ISRs in TPA Nichols rrn operons. The gene encoding tRNA-Ile (TP_t12) is shown in red, whilst the gene encoding tRNA-Ala-3 (TP_t15) is in blue.
Mentions: In the individual TPA genomes, the amplified rrn1 and rrn2 regions were identical for 5141 bp (Tables 2 and S2, Fig. 1) including the DNA regions 212 bp upstream of the 16S rRNA, the 16S rRNA (1537 bp), 23S rRNA (2951 bp), 5S rRNA (110 bp) and 23S–5S ISR (50 bp), and a region of 54 bp downstream of the 5S rRNA. Additional identical sequences were located within the 16S–23S ISR downstream of the 16S rRNA (120 bp) and upstream of the 23S rRNA (118 bp) genes (Fig. 2, Table 2). Alternative sequences within the 16S–23S ISR, encoding tRNA-Ile or tRNA-Ala, comprised an additional 64 or 74 bp, respectively (Fig. 2). To extend the comparative analysis over all available data, the TPA Chicago sequences of the rrn operons (GenBank accession no. CP001752; Giacani et al., 2010) were added to the sequences of the 20 strains used in this study.

Bottom Line: Other than these deletions, only 17 heterogeneous sites were found within the entire region (excluding the 16S-23S intergenic spacer region encoding tRNA-Ile or tRNA-Ala).The pattern of nucleotide changes in the rrn operons corresponded to the classification of treponemal strains, whilst two different rrn spacer patterns (Ile/Ala and Ala/Ile) appeared to be distributed randomly across species/subspecies classification, time and geographical source of the treponemal strains.It is suggested that the random distribution of tRNA genes is caused by reciprocal translocation between repetitive sequences mediated by a recBCD-like system.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, Faculty of Medicine, Masaryk University, Kamenice 5, Building A6, 62500 Brno, Czech Republic.

ABSTRACT
This study examined the sequences of the two rRNA (rrn) operons of pathogenic non-cultivable treponemes, comprising 11 strains of T. pallidum ssp. pallidum (TPA), five strains of T. pallidum ssp. pertenue (TPE), two strains of T. pallidum ssp. endemicum (TEN), a simian Fribourg-Blanc strain and a rabbit T. paraluiscuniculi (TPc) strain. PCR was used to determine the type of 16S-23S ribosomal intergenic spacers in the rrn operons from 30 clinical samples belonging to five different genotypes. When compared with the TPA strains, TPc Cuniculi A strain had a 17 bp deletion, and the TPE, TEN and Fribourg-Blanc isolates had a deletion of 33 bp. Other than these deletions, only 17 heterogeneous sites were found within the entire region (excluding the 16S-23S intergenic spacer region encoding tRNA-Ile or tRNA-Ala). The pattern of nucleotide changes in the rrn operons corresponded to the classification of treponemal strains, whilst two different rrn spacer patterns (Ile/Ala and Ala/Ile) appeared to be distributed randomly across species/subspecies classification, time and geographical source of the treponemal strains. It is suggested that the random distribution of tRNA genes is caused by reciprocal translocation between repetitive sequences mediated by a recBCD-like system.

Show MeSH
Related in: MedlinePlus