Evidence map›Paper›PMID 41390780›Full record

ArticleNPJ biofilms and microbiomes2025

Azithromycin alters the microbiome composition, function and resistome in women with Chlamydia trachomatis infections.

Sankhya Bommana, Olusola Olagoke, Yi-Juan Hu, Ruohong Wang, Mike Kama, Morgan Dehdashti, Reshma Kodimerla, Timothy D Read, Deborah Dean

Abstract read
In one paragraph

Article in NPJ biofilms and microbiomes, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Review
  2. Putative azithromycin resistance mutations inAntimicrobial agents and chemotherapy · 2026
    Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

9 authors.

Sankhya Bommana *Department of Pediatrics, University of California San Francisco, Oakland, CA, USA.
Olusola Olagoke *Department of Pediatrics, University of California San Francisco, Oakland, CA, USA.
Yi-Juan HuDepartment of Biostatistics and Bioinformatics, Emory University, Atlanta, GA, USA.
Ruohong WangDepartment of Pediatrics, University of California San Francisco, Oakland, CA, USA.
Mike KamaMinistry of Health and Medical Services, Suva, Fiji.
Morgan DehdashtiDepartment of Pediatrics, University of California San Francisco, Oakland, CA, USA.
Reshma KodimerlaDepartment of Pediatrics, University of California San Francisco, Oakland, CA, USA.
Timothy D ReadDepartment of Medicine, Emory University School of Medicine, Atlanta, GA, USA.
Deborah DeanDepartment of Pediatrics, University of California San Francisco, Oakland, CA, USA. deborah.dean@ucsf.edu.

Funding

Natural History of C. trachomatis urogenital and rectal infectionsR01AI151075 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI DEAN, DEBORAH ANNE, READ, TIMOTHY D. · 2020 to 2024
$4.0M
NIAID NIH HHS R01 AI151075
6 · The paper itself

Abstract

Antibiotics disrupt mucosal microbial communities, yet the effects on microbiomes infected with Chlamydia trachomatis (Ct) remain poorly understood. Some data exist on vaginal microbiomes, but none exist for the endocervix or rectum that are primary sites of infection. We applied metagenomic shotgun sequencing to vaginal, endocervical and rectal samples collected longitudinally from women who cleared their infection post-treatment (n = 10), had persistent infection (n = 11), or remained uninfected (n = 18) to evaluate azithromycin-induced changes in microbial composition, function, and the resistome over time. Our results show shifts in composition and function post-treatment that support persistent Ct, nonsynonymous Ct L22 amino acid substitutions that may be linked to azithromycin resistance, and significant endocervical increases in azithromycin resistance genes in Lactobacillus iners and Gardnerella vaginalis strains with moderate/high biofilm formation potential. These findings highlight the unintended ecological consequences of azithromycin treatment, including likely resistance gene propagation, emphasizing the need for novel treatment and microbiome-preserving strategies.

Indexed as

Anti-Bacterial AgentsAzithromycinChlamydia InfectionsChlamydia trachomatisDrug Resistance, BacterialMicrobiotaAdultBiofilmsCervix UteriFemaleGardnerella vaginalisHumansLactobacillusMetagenomicsRectumVaginaAnti-Bacterial AgentsAzithromycin

Identifiers

PMID41390780
PMCPMC12738766

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.