Evidence map›Paper›PMID 41174806›Full record

ArticleGenome medicine2025

Expanded gut microbial genomes from Chinese populations reveal population-specific genomic features related to human physiological traits.

Quanbin Dong, Beining Ma, Xiaofeng Zhou, Pan Huang, Mengke Gao, Shuai Yang, Yuwen Jiao, Yan Zhou, Zhun Shi, Qiufeng Deng and 22 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Genome medicine, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing 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

6 citing papers in PubMed.

  1. Review
  2. Article
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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

32 authors.

Quanbin Dong *Department of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China.
Beining Ma *Department of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China.
Xiaofeng Zhou *State Key Laboratory of Genetics and Development of Complex Phenotypes, School of Life Sciences, Human Phenome Institute, Fudan University, Shanghai, China.
Pan Huang *State Key Laboratory of Food Science and Resources, Jiangnan University, Wuxi, China.
Mengke GaoDepartment of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China.
Shuai YangDepartment of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China.
Yuwen JiaoChangzhou Medical Center, The Third Affiliated Hospital of Nanjing Medical University, Nanjing Medical University, Changzhou, China.
Yan ZhouChangzhou Medical Center, The Third Affiliated Hospital of Nanjing Medical University, Nanjing Medical University, Changzhou, China.
Zhun ShiBGI Genomics, Shenzhen, China.
Qiufeng DengDepartment of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China.
Dongxu HuaDepartment of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China.
Xiuchao WangDepartment of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China.
Lu LiuDepartment of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China.
Chengcheng ZhangState Key Laboratory of Food Science and Resources, Jiangnan University, Wuxi, China.
Chuan ZhangState Key Laboratory of Food Science and Resources, Jiangnan University, Wuxi, China.
Mengmeng KongState Key Laboratory of Genetics and Development of Complex Phenotypes, School of Life Sciences, Human Phenome Institute, Fudan University, Shanghai, China.
Chang HeState Key Laboratory of Genetics and Development of Complex Phenotypes, School of Life Sciences, Human Phenome Institute, Fudan University, Shanghai, China.
Tingting WuDepartment of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China.
Huayiyang ZouDepartment of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China.
Jing ShiDepartment of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China.
Yanhui ShengCardiovascular Research Center, The Affiliated Suzhou Hospital of Nanjing Medical University, Nanjing Medical University, Suzhou, China.
Yifeng WangDepartment of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China.
GMR Consortium
Liming TangChangzhou Medical Center, The Third Affiliated Hospital of Nanjing Medical University, Nanjing Medical University, Changzhou, China.
Shixian HuInstitute of Precision Medicine, The First Affiliated Hospital, Sun Yat-Sen University, Guangzhou, China.
Huanzi ZhongBGI Genomics, Shenzhen, China.
Wei SunDepartment of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China.
Wei ChenState Key Laboratory of Food Science and Resources, Jiangnan University, Wuxi, China.
Qixiao ZhaiState Key Laboratory of Food Science and Resources, Jiangnan University, Wuxi, China. zhaiqixiao@jiangnan.edu.cn.
Xiangqing KongDepartment of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China. kongxq@njmu.edu.cn.
Yan ZhengState Key Laboratory of Genetics and Development of Complex Phenotypes, School of Life Sciences, Human Phenome Institute, Fudan University, Shanghai, China. yan_zheng@fudan.edu.cn.
Lianmin ChenDepartment of Cardiology, The First Affiliated Hospital With Nanjing Medical University, Nanjing Medical University, Nanjing, China. lianminchen@njmu.edu.cn.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundA comprehensive and representative reference database is crucial for accurate taxonomic and functional profiling of the human gut microbiome in population-level studies. However, as approximately 70% of current microbial reference data originate from European and North American populations, other regions, including East Asia-and particularly China-remain significantly underrepresented.

methodsWe constructed the human Gut Microbiome Reference (GMR), comprising 478,588 high-quality microbial genomes from Chinese (247,134) and non-Chinese (231,454) populations. Species-level clustering and protein annotations were performed to characterize microbial diversity and function. We further integrated novel microbial genomes into taxonomic profile database and validated the improvements using independent cohort data.

resultsThe GMR dataset spans 6664 species, including 26.4% newly classified species, and encodes over 20 million unique proteins, with 47% lacking known functional annotations. Notably, we observed that 35.35 and 32.46% of species unique to Chinese and non-Chinese populations, respectively. For 2145 species shared between populations, 74% of 304 species with balanced prevalence between populations exhibited population-specific phylogenetic stratification, involving health relevant functionalities such as antibiotic resistance. Integration of novel genomes into taxonomic improved population-level species profiling by up to 23% and uncovered replicable associations between novel species and host physiological traits.

conclusionsOur study largely expands the compositional and functional landscape of the human gut microbiome, providing a crucial resource for studying the role of gut microbiome for regional health disparities.

Indexed as

East Asian PeopleGastrointestinal MicrobiomeGenome, BacterialGenomicsChinaHumansPhylogeny

Identifiers

PMID41174806
PMCPMC12577051

What Socratic holds

Textmetadata
LicenceCC BY-NC-ND
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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.