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Predicting phenotype and emerging strains among Chlamydia trachomatis infections.

Dean D, Bruno WJ, Wan R, Gomes JP, Devignot S, Mehari T, de Vries HJ, Morré SA, Myers G, Read TD, Spratt BG - Emerging Infect. Dis. (2009)

Bottom Line: Twenty-nine of 52 alleles had nonuniform distributions of frequencies across regions (p<0.001).Recombinant strains were observed among STI clusters.Single nucleotide polymorphisms (SNPs) were predictive of disease specificity.

View Article: PubMed Central - PubMed

Affiliation: Children's Global Health Initiativ, Children's Hospital Oakland Research Institute, Oakland, California 94609, USA. ddean@chori.org

ABSTRACT
Chlamydia trachomatis is a global cause of blinding trachoma and sexually transmitted infections (STIs). We used comparative genomics of the family Chlamydiaceae to select conserved housekeeping genes for C. trachomatis multilocus sequencing, characterizing 19 reference and 68 clinical isolates from 6 continental/subcontinental regions. There were 44 sequence types (ST). Identical STs for STI isolates were recovered from different regions, whereas STs for trachoma isolates were restricted by continent. Twenty-nine of 52 alleles had nonuniform distributions of frequencies across regions (p<0.001). Phylogenetic analysis showed 3 disease clusters: invasive lymphogranuloma venereum strains, globally prevalent noninvasive STI strains (ompA genotypes D/Da, E, and F), and nonprevalent STI strains with a trachoma subcluster. Recombinant strains were observed among STI clusters. Single nucleotide polymorphisms (SNPs) were predictive of disease specificity. Multilocus and SNP typing can now be used to detect diverse and emerging C. trachomatis strains for epidemiologic and evolutionary studies of trachoma and STI populations worldwide.

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Related in: MedlinePlus

Minimum evolution tree. The tree was constructed using the matrix of pairwise differences between the 87 concatenated sequences for the 7 loci using maximum composite likelihood method for estimating genetic distances. Numbers are bootstrap values (1,000 replicates) >70%. Lavender, invasive lymphogranuloma venereum (LGV); gold, noninvasive, nonprevalent sexually transmitted infection (STI) strains; red, trachoma strains; blue, noninvasive, highly prevalent STI strains; green, putative recombinant stains. Scale bar indicates number of substitutions per site.
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Figure 3: Minimum evolution tree. The tree was constructed using the matrix of pairwise differences between the 87 concatenated sequences for the 7 loci using maximum composite likelihood method for estimating genetic distances. Numbers are bootstrap values (1,000 replicates) >70%. Lavender, invasive lymphogranuloma venereum (LGV); gold, noninvasive, nonprevalent sexually transmitted infection (STI) strains; red, trachoma strains; blue, noninvasive, highly prevalent STI strains; green, putative recombinant stains. Scale bar indicates number of substitutions per site.

Mentions: Relationships between the isolates was further explored by constructing a minimum-evolution tree using MEGA4 (27). These data showed 3 disease clusters (Figure 3). Cluster I comprised noninvasive STIs (eBURST CC-B) and a trachoma subcluster (eBURST CC-A). Cluster II comprised only invasive LGV strains. Cluster III included noninvasive prevalent D/Da, E and F STIs (eBURST CC-C). E58t strain (ST39; cluster III) was isolated from the conjunctiva of a trachoma patient, most likely representing autoinoculation from the urogenital tract, because all other isolates of this ST were from STIs.


Predicting phenotype and emerging strains among Chlamydia trachomatis infections.

Dean D, Bruno WJ, Wan R, Gomes JP, Devignot S, Mehari T, de Vries HJ, Morré SA, Myers G, Read TD, Spratt BG - Emerging Infect. Dis. (2009)

Minimum evolution tree. The tree was constructed using the matrix of pairwise differences between the 87 concatenated sequences for the 7 loci using maximum composite likelihood method for estimating genetic distances. Numbers are bootstrap values (1,000 replicates) >70%. Lavender, invasive lymphogranuloma venereum (LGV); gold, noninvasive, nonprevalent sexually transmitted infection (STI) strains; red, trachoma strains; blue, noninvasive, highly prevalent STI strains; green, putative recombinant stains. Scale bar indicates number of substitutions per site.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC2819883&req=5

Figure 3: Minimum evolution tree. The tree was constructed using the matrix of pairwise differences between the 87 concatenated sequences for the 7 loci using maximum composite likelihood method for estimating genetic distances. Numbers are bootstrap values (1,000 replicates) >70%. Lavender, invasive lymphogranuloma venereum (LGV); gold, noninvasive, nonprevalent sexually transmitted infection (STI) strains; red, trachoma strains; blue, noninvasive, highly prevalent STI strains; green, putative recombinant stains. Scale bar indicates number of substitutions per site.
Mentions: Relationships between the isolates was further explored by constructing a minimum-evolution tree using MEGA4 (27). These data showed 3 disease clusters (Figure 3). Cluster I comprised noninvasive STIs (eBURST CC-B) and a trachoma subcluster (eBURST CC-A). Cluster II comprised only invasive LGV strains. Cluster III included noninvasive prevalent D/Da, E and F STIs (eBURST CC-C). E58t strain (ST39; cluster III) was isolated from the conjunctiva of a trachoma patient, most likely representing autoinoculation from the urogenital tract, because all other isolates of this ST were from STIs.

Bottom Line: Twenty-nine of 52 alleles had nonuniform distributions of frequencies across regions (p<0.001).Recombinant strains were observed among STI clusters.Single nucleotide polymorphisms (SNPs) were predictive of disease specificity.

View Article: PubMed Central - PubMed

Affiliation: Children's Global Health Initiativ, Children's Hospital Oakland Research Institute, Oakland, California 94609, USA. ddean@chori.org

ABSTRACT
Chlamydia trachomatis is a global cause of blinding trachoma and sexually transmitted infections (STIs). We used comparative genomics of the family Chlamydiaceae to select conserved housekeeping genes for C. trachomatis multilocus sequencing, characterizing 19 reference and 68 clinical isolates from 6 continental/subcontinental regions. There were 44 sequence types (ST). Identical STs for STI isolates were recovered from different regions, whereas STs for trachoma isolates were restricted by continent. Twenty-nine of 52 alleles had nonuniform distributions of frequencies across regions (p<0.001). Phylogenetic analysis showed 3 disease clusters: invasive lymphogranuloma venereum strains, globally prevalent noninvasive STI strains (ompA genotypes D/Da, E, and F), and nonprevalent STI strains with a trachoma subcluster. Recombinant strains were observed among STI clusters. Single nucleotide polymorphisms (SNPs) were predictive of disease specificity. Multilocus and SNP typing can now be used to detect diverse and emerging C. trachomatis strains for epidemiologic and evolutionary studies of trachoma and STI populations worldwide.

Show MeSH
Related in: MedlinePlus