Treponema pallidum Subspecies
            <i>Pallidum</i>
            Intrapatient Homogeneity at Various Body Locations in Men with Infectious Syphilis

Zondag, Helene C A; Nieuwenburg, S; Himschoot, M; Dam, Alje P. van; Loeff, Maarten F. Schim van der; Vries, Henry J. C. de; Bruisten, Sylvia M.

doi:10.1128/spectrum.02482-21

Cited by 4 publications

(4 citation statements)

References 28 publications

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“…Samples with types belonging to the Nichols lineage were found only in samples from MSW. Similar distributions were found in previous studies conducted in The Netherlands, mostly among MSM 4,5 and worldwide 1,6 …”

supporting

confidence: 90%

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Treponema pallidum Strains Among Women and Men Who Have Sex With Women in Amsterdam, the Netherlands and Antwerp, Belgium Between 2014 and 2020

et al. 2023

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supporting

confidence: 90%

“…This study shows an overall distribution of TPA strains among women and MSW in Amsterdam and Antwerp similar to the distribution found among MSM in Amsterdam 4 . The lineage distribution in this study was 83% SS14 and 17% Nichols.…”

supporting

confidence: 83%

Treponema pallidum Strains Among Women and Men Who Have Sex With Women in Amsterdam, the Netherlands and Antwerp, Belgium Between 2014 and 2020

et al. 2023

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“…Our data support the use of oropharyngeal or rectal swabs for TP genome recovery, based on the identical genomes recovered. This work extends recently reported TP-MLST data which found identical MLST types among pharyngeal, urogenital, and/or anal swab specimens contemporaneously collected from twelve individuals [31]. Prior work also demonstrated a lack of SNVs within the recoverable portion (54%) of the genome in TP subspecies pertenue in banked skin lesion swabs taken two years apart, consistent with the low intra-host diversity of TP genomes seen here [32].…”

Section: Discussionsupporting

confidence: 88%

Genomic epidemiology ofTreponema pallidumand circulation of strains with diminishedtprKantigen variation capability in Seattle, 2021-2022

Lieberman

Avendaño

Bakhash

et al. 2023

Preprint

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Background: Syphilis incidence continues to increase dramatically in the United States and yet little is known about Treponema pallidum (TP) genomic epidemiology within American metropolitan areas. Methods: We performed whole genome sequencing and tprK deep sequencing of 28 TP-containing specimens collected mostly from remnant Aptima swabs from 24 individuals from Seattle Sexual Health Clinic during 2021-2022. Results: All 12 individuals infected with Nichols lineage strains were MSM, while a specific SS14 cluster (average 0.33 SNPs) included 1 MSW and five women. All TP strains sequenced were azithromycin resistant via 23S rRNA A2058G mutation. Identical TP genomic sequences were found in pharyngeal and rectal swab specimens taken from the same individuals concurrently. tprK sequences were less variable between patient-matched specimens and between epidemiologically-linked clusters. We detected a 528 bp deletion in the tprK donor site locus, eliminating nine tprK donor sites, in TP genomes of three individuals with secondary syphilis, associated with diminution of overall tprK sequence diversity. Conclusions: We developed an end-to-end workflow for public health genomic surveillance of TP from remnant Aptima swab specimens. With its high rate of gene conversion, tprK sequencing may assist in linking cases beyond routine TP genome sequencing. TP strains with deletions in tprK donor sites currently circulate and are associated with diminished antigenic diversity of the TprK putative outer membrane protein.

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“…Our data support the use of oropharyngeal or rectal swab specimens for T. pallidum genome recovery, based on the identical genomes recovered. This work extends T. pallidum –multilocus sequence typing (MLST) data reported in 2022 that found identical MLST types among pharyngeal, urogenital, and/or anal swab specimens contemporaneously collected from 12 individuals [ 31 ]. Prior work also demonstrated a lack of SNVs within the recoverable portion (54%) of the genome in T. pallidum subspecies pertenue in banked skin lesion swab specimens obtained 2 years apart, consistent with the low intrahost diversity of T. pallidum genomes seen here [ 32 ].…”

Section: Discussionsupporting

confidence: 75%

Genomic Epidemiology of Treponema pallidum and Circulation of Strains With Diminished tprK Antigen Variation Capability in Seattle, 2021–2022

Lieberman,

Avendaño,

Bakhash

et al. 2023

The Journal of Infectious Diseases

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Background The incidence of syphilis continues to increase in the United States, yet little is known about Treponema pallidum genomic epidemiology within American metropolitan areas. Methods We performed whole-genome sequencing and tprK deep sequencing of 28 T. pallidum–containing specimens, collected mostly from remnant Aptima swab specimens from 24 individuals from Seattle Sexual Health Clinic during 2021–2022. Results All 12 individuals infected with Nichols-lineage strains were men who have sex with men, while a specific SS14 cluster (mean, 0.33 single-nucleotide variant) included 1 man who has sex with women and 5 women. All T. pallidum strains sequenced were azithromycin resistant via 23S ribosomal RNA A2058G mutation. Identical T. pallidum genomic sequences were found in pharyngeal and rectal swab specimens taken concurrently from the same individuals. The tprK sequences were less variable between patient-matched specimens and between epidemiologically linked clusters. We detected a 528–base pair deletion in the tprK donor site locus, eliminating 9 donor sites, in T. pallidum genomes of 3 individuals with secondary syphilis, associated with diminution of TprK diversity. Conclusions We developed an end-to-end workflow for public health genomic surveillance of T. pallidum from remnant Aptima swab specimens. tprK sequencing may assist in linking cases beyond routine T. pallidum genome sequencing. T. pallidum strains with deletions in tprK donor sites currently circulate and are associated with diminished TprK antigenic diversity.

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Treponema pallidum Subspecies Pallidum Intrapatient Homogeneity at Various Body Locations in Men with Infectious Syphilis

Abstract: Syphilis, caused by Treponema pallidum subspecies pallidum , is a complex multistage infectious disease. Systematic dissemination is known to occur within a few hours of transmission.

Cited by 4 publications

References 28 publications

Treponema pallidum Strains Among Women and Men Who Have Sex With Women in Amsterdam, the Netherlands and Antwerp, Belgium Between 2014 and 2020

Treponema pallidum Strains Among Women and Men Who Have Sex With Women in Amsterdam, the Netherlands and Antwerp, Belgium Between 2014 and 2020

Genomic epidemiology ofTreponema pallidumand circulation of strains with diminishedtprKantigen variation capability in Seattle, 2021-2022

Genomic Epidemiology of Treponema pallidum and Circulation of Strains With Diminished tprK Antigen Variation Capability in Seattle, 2021–2022

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