Evidence map›Paper›PMID 27344187›Full record

ArticleOncotarget2016

Tracing the origin of Treponema pallidum in China using next-generation sequencing.

Jun Sun, Zhefeng Meng, Kaiqi Wu, Biao Liu, Sufang Zhang, Yudan Liu, Yuezhu Wang, Huajun Zheng, Jian Huang, Pingyu Zhou

Open access · diamondAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Oncotarget, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.

0numbers the graph read from it
0cells of the map it votes in
21citing papers in PubMed
2.5field-weighted citation impact, top 11% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

21 citing papers in PubMed, 41 citations in OpenAlex.

  1. Article
  2. In vitro isolation of contemporary Treponema pallidum strains directly from clinical samples of syphilis patients.Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases · 2025
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  9. Notes on syphilis vaccine development.Frontiers in immunology · 2022
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

10 authors at 5 institutions in 1 country.

Jun SunSTD Institute, Shanghai Skin Disease Hospital, Shanghai, China.
Zhefeng MengOncology Bioinformatics Center, Minhang Hospital, Fudan University, Shanghai, China.
Kaiqi WuSchool of Laboratory Medicine, Wenzhou Medical University, Wenzhou, Zhejiang, China.
Biao LiuSchool of Laboratory Medicine, Wenzhou Medical University, Wenzhou, Zhejiang, China.
Sufang ZhangShanghai Skin Disease Hospital, Clinical School of Anhui Medical University, Shanghai, China.
Yudan LiuShanghai Skin Disease Hospital, Clinical School of Anhui Medical University, Shanghai, China.
Yuezhu WangShanghai-MOST Key Laboratory for Disease and Health Genomics, Chinese National Human Genome Center and National Engineering Center for Biochip at Shanghai, Shanghai, China.
Huajun ZhengShanghai-MOST Key Laboratory for Disease and Health Genomics, Chinese National Human Genome Center and National Engineering Center for Biochip at Shanghai, Shanghai, China.
Jian HuangShanghai-MOST Key Laboratory for Disease and Health Genomics, Chinese National Human Genome Center and National Engineering Center for Biochip at Shanghai, Shanghai, China.
Pingyu ZhouSTD Institute, Shanghai Skin Disease Hospital, Shanghai, China.
Chinese National Human Genome Center · CNAnhui Medical University · CNShanghai Skin Disease Hospital · CNWenzhou Medical University · CNFudan University · CN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Syphilis is a systemic sexually transmitted disease caused by Treponema pallidum ssp. pallidum (TPA). The origin and genetic background of Chinese TPA strains remain unclear. We identified a total of 329 single-nucleotide variants (SNVs) in eight Chinese TPA strains using next-generation sequencing. All of the TPA strains were clustered into three lineages, and Chinese TPA strains were grouped in Lineage 2 based on phylogenetic analysis. The phylogeographical data showed that TPA strains originated earlier than did T. pallidum ssp. pertenue (TPE) and T. pallidum ssp. endemicum (TPN) strains and that Chinese TPA strains might be derived from recombination between Lineage 1 and Lineage 3. Moreover, we found through a homology modeling analysis that a nonsynonymous substitution (I415F) in the PBP3 protein might affect the structural flexibility of PBP3 and the binding constant for substrates based on its possible association with penicillin resistance in T. pallidum. Our findings provide new insight into the molecular foundation of the evolutionary origin of TPA and support the development of novel diagnostic/therapeutic technology for syphilis.

Indexed as

Evolution, MolecularPolymorphism, Single NucleotideAdultAgedAllelesBacterial ProteinsChinaFemaleHigh-Throughput Nucleotide SequencingHumansMaleMiddle AgedPhylogenySpecies SpecificitySyphilisTreponema pallidumBacterial ProteinsevolutionNGSPathology SectionSNVssyphilisTreponema pallidum

Identifiers

PMID27344187
PMCPMC5189996
OpenAlexW2425140923

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.