Evidence map›Paper›PMID 40316944›Full record

ArticleBMC genomics2025

Comprehensive analysis of the type VI secretion system in Neisseria: identification, distribution, and evolutionary insights.

Tingting Dong, Wenjing Yi, Meng Zhang, Ning Zhu, Jing Jie, Zhihan Peng, Lili Jiang, Chunyan Wang, Lei Song, Shucheng Hua and 1 more

Abstract read
In one paragraph

Article in BMC genomics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
–field-weighted citation impact
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

4 citing papers in PubMed.

  1. Review
  2. Article
  3. Review
  4. A novel commensalJournal of clinical microbiology · 2025
    Article
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

11 authors.

Tingting DongDepartment of Respiratory Medicine, Center for Infectious Diseases and Pathogen Biology, State Key Laboratory for Diagnosis and Treatment of Severe Zoonotic Infectious Diseases/Key Laboratory for Zoonosis Research of the Ministry of Education, The First Hospital of Jilin University, Changchun, China.
Wenjing YiBioinformatics Laboratory, The First Hospital of Jilin University, Changchun, China.
Meng ZhangDepartment of Respiratory Medicine, Center for Infectious Diseases and Pathogen Biology, State Key Laboratory for Diagnosis and Treatment of Severe Zoonotic Infectious Diseases/Key Laboratory for Zoonosis Research of the Ministry of Education, The First Hospital of Jilin University, Changchun, China.
Ning ZhuBioinformatics Laboratory, The First Hospital of Jilin University, Changchun, China.
Jing JieDepartment of Respiratory Medicine, Center for Infectious Diseases and Pathogen Biology, State Key Laboratory for Diagnosis and Treatment of Severe Zoonotic Infectious Diseases/Key Laboratory for Zoonosis Research of the Ministry of Education, The First Hospital of Jilin University, Changchun, China.
Zhihan PengBioinformatics Laboratory, The First Hospital of Jilin University, Changchun, China.
Lili JiangHealth Examination Center, The First Hospital of Jilin University, Changchun, China.
Chunyan WangDepartment of General Practice, The First Hospital of Jilin University, Changchun, 130021, China.
Lei SongDepartment of Respiratory Medicine, Center for Infectious Diseases and Pathogen Biology, State Key Laboratory for Diagnosis and Treatment of Severe Zoonotic Infectious Diseases/Key Laboratory for Zoonosis Research of the Ministry of Education, The First Hospital of Jilin University, Changchun, China. lsong@jlu.edu.cn.
Shucheng HuaDepartment of Respiratory Medicine, Center for Infectious Diseases and Pathogen Biology, State Key Laboratory for Diagnosis and Treatment of Severe Zoonotic Infectious Diseases/Key Laboratory for Zoonosis Research of the Ministry of Education, The First Hospital of Jilin University, Changchun, China. hsc@jlu.edu.cn.
Qingtian GuanBioinformatics Laboratory, The First Hospital of Jilin University, Changchun, China. qingtian_guan@jlu.edu.cn.

Funding

Jilin Provincial Department of Finance funds awarded to Prof. Chunyan Wang JLSWSRCZX2023-23Jilin Provincial Department of Science and Technology funds awarded to Prof. Shucheng Hua 20240305027YYTechnology Development Project of Changchun City funds awarded to Prof. Lei Song 23YQ10The research start-up funds of Prof. Qingtian Guan 04045970001
6 · The paper itself

Abstract

The genus Neisseria, a gram-negative diplococcus, includes commensal and pathogenic species that infect mucosal tissues, causing diseases such as gonorrhea and meningitis. The type VI secretion system (T6SS), a multifunctional molecular machine that facilitates the ability of gram-negative bacteria to deliver effectors for bacterial competition, virulence, and interaction with host cells, has been widely studied across various bacterial taxa. However, research on the T6SS in the genus Neisseria remains limited. In this study, we employed comparative genomics and pangenomics, among other bioinformatics approaches, to characterize the distribution of the T6SS and its related proteins, including effectors, immunity proteins and regulators, across different species within the genus. Through an analysis of 5,067 Neisseria genomes, we identified two complete T6SS loci. We found that more than half of the Neisseria species possess at least one complete T6SS locus. Further investigation revealed multiple T6SS-related loci. We also applied a statistics-based method for identifying T6SS-associated orthologous groups and revealed 64 new T6SS-associated proteins within the genus. Our research provides a comprehensive analysis of the T6SS in Neisseria, advancing the understanding of T6SS-related mechanisms.

Indexed as

Evolution, MolecularNeisseriaType VI Secretion SystemsBacterial ProteinsComputational BiologyGenome, BacterialGenomicsPhylogenyBacterial ProteinsType VI Secretion SystemsComparative genomicsEffectorsNeisseriaType VI secretion system

Identifiers

PMID40316944
PMCPMC12046857

What Socratic holds

Textmetadata
LicenceCC BY-NC-ND
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 Socratic graph.