Evidence map›Paper›PMID 41057789›Full record

ArticleBMC infectious diseases2025

Whole genome sequencing for tuberculosis disease species identification, lineage determination, and drug resistance detection in Kashgar prefecture, China.

Dongxin Liu, Gulina Badeerhan, Mawlanjan Emam, Mengnan Jiang, Geng Hong, Mengjiao Xie, Yang Liu, Ling Ma, Lin Xu, Xijiang Wang and 1 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC infectious diseases, 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

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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. Article
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4 · The record

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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.

Dongxin Liu *Chinese Center for Disease Control and Prevention, National Pathogen Resource Center, Beijing, China.
Gulina Badeerhan *Xinjiang Uighur Autonomous Region Center for Disease Control and Prevention, Urumchi, China.
Mawlanjan Emam *Kashgar District Center for Disease Control and Prevention, Kashgar, China.
Mengnan JiangChinese Center for Disease Control and Prevention, National Pathogen Resource Center, Beijing, China.
Geng HongChinese Center for Disease Control and Prevention, National Pathogen Resource Center, Beijing, China.
Mengjiao XieChinese Center for Disease Control and Prevention, National Pathogen Resource Center, Beijing, China.
Yang LiuChinese Center for Disease Control and Prevention, National Pathogen Resource Center, Beijing, China.
Ling MaGansu Provincial Center for Disease Control and Prevention, Lanzhou, China.
Lin Xu *Yunnan Provincial Center for Disease Control and Prevention, Kunming, China.
Xijiang Wang *Xinjiang Uighur Autonomous Region Center for Disease Control and Prevention, Urumchi, China.
Qiang Wei *Chinese Center for Disease Control and Prevention, National Pathogen Resource Center, Beijing, China. weiqiang@chinacdc.cn.

Funding

National Key Research and Development Project 2022YFC2602200Natural Science Foundation of Shenzhen JCYJ20210324130009024the Natural Science Foundation of Gansu Province 22JR5RA712
6 · The paper itself

Abstract

backgroundWe aimed to use whole genome sequencing (WGS) to determine species and lineage composition and drug resistance profile in a high tuberculosis (TB)-burden region of China.

methodsWe conducted WGS to 1791 acid-fast staining positive and culture-positive isolates collected from Kashgar prefecture in 2020. Bioinformatic analysis was applied to confirm species, lineage and drug resistant-related mutations. The drug susceptibility testing was performed on confirmed Mycobacterium tuberculosis complex (MTBC) isolates. We determined the accuracy of WGS prediction by comparing with phenotypes.

results95.03% (1702/1791) were identified MTBC, 3.18% (57/1791) were nontuberculous mycobacteria (NTM), 0.61% (11/1791) were nocardia, 0.89% (16/1791) were gordonia and 0.056% (1/1791) were rhodococcus, the rest 4 isolations were identified as mixed infection. MTBC were composed of lineage 2 (45.83%, 780/1702), lineage 3 (462/1702, 27.14%), lineage 4 (455/1702, 26.73%), lineage 1(1/1702, 0.06%) and M.bovis (La1, 4/1702, 0.24%). Resistance to rifampicin, ethambutol, fluoroquinolones, aminoglycosides and ethionamide were accurately predicted with sensitivity of 96.43%, 83.33%,100%, 100% and 94.74% by WGS, while resistance to isoniazid with the sensitivity of 81.62%.

conclusionsWGS can be an important approach in assessing TB control strategy and for determining therapeutic schemes in high TB-burden regions. The drug resistance TB of Kashgar prefecture is at low level and the application of WGS may prevent the increase of resistance rate.

Indexed as

Antitubercular AgentsDrug Resistance, BacterialMycobacterium tuberculosisTuberculosisWhole Genome SequencingAdultChinaFemaleGenome, BacterialHumansMaleMicrobial Sensitivity TestsMiddle AgedPhylogenyTuberculosis, Multidrug-ResistantAntitubercular AgentsDrug-resistantLineageSpecies identificationTuberculosisWGS

Identifiers

PMID41057789
PMCPMC12502365

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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.