DataVXAdvanced SciencePaper
journal article·2026-07Open access

Eco‐Geography Reverses Dominant AMR Reservoirs in Klebsiella pneumoniae : Integron‐Rich Mobilomes and Cross‐Niche Connectivity

Hui Lin, Biao Tang, Hao Xu, Jiajie Qian, Feifan Shi, Junhui Zhao, Xiaorui Mao, Xiaohe Hu, Ruishan Liu, Wenhong Liu, Xiawei Jiang, Beiwen Zheng, Guoping Zhao

Advanced Science· Volume 13· Issue 42
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Abstract

ABSTRACT Multidrug‐resistant Klebsiella pneumoniae is a global health threat circulating across humans, animals, food, and environments. Despite increasing One Health surveillance, it remains unclear whether the dominant antimicrobial resistance (AMR) reservoirs in K. pneumoniae are universal or depend on regional ecological context. Here, a synchronized One Health survey in Pingguo, China (5384 samples) is integrated with parallel cross‐niche datasets (Italy, Ghana) and a 69184 public genome collection, mapping AMR ecology via network metrics and lineage‐aware mixed models. In Pingguo, high‐risk determinants are enriched in humans, whereas overall AMR burdens and multidrug resistance platforms are enriched outside humans. Across the public dataset, AMR reservoir dominance varies eco‐geographically, with nonhuman isolates carrying higher AMR gene burdens in the China subset (mean +4.5 per isolate), largely due to animal and environmental isolates, while human isolates carry higher burdens in the U.S. and Europe subsets. Lineage explains 44.8% of the burden difference. Remaining within‐lineage differences, reservoir‐matched integron enrichment, and region‐specific connectivity suggest additional horizontal gene transfer‐related contributions. This is supported in Pingguo by a highly structured cross‐niche plasmid‐sharing network shaped by specific plasmid groups and successful lineages. Overall, dominant AMR reservoirs are eco‐geographically contingent. Integron load and cross‐niche connectivity provide indicators for tiered, region‐tailored surveillance.
Source: crossref · Quality: baseline

Research context

OpenAlex topics: Antibiotic Resistance in Bacteria · Antibiotic Use and Resistance · Pharmaceutical and Antibiotic Environmental Impacts

SciVX discovery tags are terminology-based. OpenAlex topics are source-provided classifications.

Affiliations

State Key Laboratory for Quality and Safety of Agro‐Product Zhejiang Provincial Key Laboratory of Agricultural Microbiomics Institute of Environment Resource, Soil and Fertilizer Zhejiang Academy of Agricultural Sciences Hangzhou P. R. China

Key Laboratory of Systems Health Science of Zhejiang Province School of Life Science Hangzhou Institute for Advanced Study University of Chinese Academy of Sciences Hangzhou P. R. China

State Key Laboratory for Diagnosis and Treatment of Infectious Diseases National Clinical Research Center for Infectious Diseases National Medical Center for Infectious Diseases Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases The First Affiliated Hospital Zhejiang University Hangzhou P. R. China

Department of Gastrointestinal Surgery The First Affiliated Hospital College of Medicine Zhejiang University Hangzhou P. R. China

Xianghu Laboratory Hangzhou P. R. China

Department of Clinical Laboratory The Second Affiliated Hospital of Wannan Medical College Wuhu P. R. China

School of Basic Medical Sciences Zhejiang Chinese Medical University Hangzhou P. R. China

Yuhang Institute of Medical Science Innovation and Transformation Hangzhou P. R. China

Jinan Microecological Biomedicine Shandong Laboratory Jinan P. R. China

Department of Microbiology School of Life Sciences Fudan University Shanghai P. R, China

Funding

National Key Research and Development Program of China · National Natural Science Foundation of China · Fundamental Research Funds for the Central Universities

References (49)

Show source-provided references
1. 10.1016/S0140‐6736(24)01867‐110.1016/S0140‐6736(24)01867‐1 ↗
2. World Health Organization “WHO Bacterial Priority Pathogens List 2024: Bacterial Pathogens of Public Health Importance to Guide Research Development and Strategies to Prevent and Control Antimicrobial Resistance ” (World Health Organization 2024) https://www.who.int/publications/i/item/9789240093461.
3. 10.1038/s41579‐019‐0315‐110.1038/s41579‐019‐0315‐1 ↗
4. World Health Organization “Disease Outbreak News; Antimicrobial Resistance Hypervirulent Klebsiella pneumoniae – Global Situation ” July 31 2024 https://www.who.int/emergencies/disease‐outbreak‐news/item/2024‐DON527.
5. 10.1093/cid/civ42810.1093/cid/civ428 ↗
6. 10.1016/j.watres.2023.12026310.1016/j.watres.2023.120263 ↗
7. 10.1111/j.1462‐2920.2004.00590.x10.1111/j.1462‐2920.2004.00590.x ↗
8. 10.1002/vms3.7024310.1002/vms3.70243 ↗
9. 10.1038/s41564‐018‐0208‐510.1038/s41564‐018‐0208‐5 ↗
10. 10.1038/s41467‐024‐53057‐z10.1038/s41467‐024‐53057‐z ↗
11. 10.1016/j.mib.2018.04.00410.1016/j.mib.2018.04.004 ↗
12. 10.1038/s41564‐022‐01263‐010.1038/s41564‐022‐01263‐0 ↗
13. 10.1093/cid/ciz17410.1093/cid/ciz174 ↗
14. 10.1128/spectrum.01242‐2210.1128/spectrum.01242‐22 ↗
15. 10.3390/antibiotics1101004210.3390/antibiotics11010042 ↗
16. 10.12138/j.issn.1671‐9638.2021617010.12138/j.issn.1671‐9638.20216170 ↗
17. 10.1038/s41564‐024‐01612‐110.1038/s41564‐024‐01612‐1 ↗
18. 10.1016/j.jhin.2018.11.01910.1016/j.jhin.2018.11.019 ↗
19. 10.2147/idr.S46848210.2147/idr.S468482 ↗
20. 10.1038/s41467‐023‐38061‐z10.1038/s41467‐023‐38061‐z ↗
21. 10.1016/S1473‐3099(20)30332‐710.1016/S1473‐3099(20)30332‐7 ↗
22. 10.1073/pnas.150314111210.1073/pnas.1503141112 ↗
23. 10.3390/antibiotics912091810.3390/antibiotics9120918 ↗
24. 10.1073/pnas.251672212210.1073/pnas.2516722122 ↗
25. 10.1016/S2666‐5247(23)00208‐210.1016/S2666‐5247(23)00208‐2 ↗
26. 10.1038/s41467‐021‐24448‐310.1038/s41467‐021‐24448‐3 ↗
27. 10.1128/spectrum.01242‐2210.1128/spectrum.01242‐22 ↗
28. 10.1073/pnas.241191912110.1073/pnas.2411919121 ↗
29. 10.1038/s41591‐025‐03629‐310.1038/s41591‐025‐03629‐3 ↗
30. 10.1038/s41598‐022‐14547‐610.1038/s41598‐022‐14547‐6 ↗
31. 10.1038/s43856‐025‐01112‐110.1038/s43856‐025‐01112‐1 ↗
32. 10.1101/2025.09.14.67615510.1101/2025.09.14.676155 ↗
33. 10.1038/nature1057110.1038/nature10571 ↗
34. 10.1038/s41467‐019‐08853‐310.1038/s41467‐019‐08853‐3 ↗
35. 10.1038/s41467‐024‐45111‐710.1038/s41467‐024‐45111‐7 ↗
36. 10.1038/s41559‐025‐02740‐510.1038/s41559‐025‐02740‐5 ↗
37. 10.1016/j.ijantimicag.2023.10705510.1016/j.ijantimicag.2023.107055 ↗
38. 10.1126/science.aar377710.1126/science.aar3777 ↗
39. 10.1016/j.isci.2024.11153410.1016/j.isci.2024.111534 ↗
40. 10.1038/s41467‐024‐45154‐w10.1038/s41467‐024‐45154‐w ↗
41. 10.1186/s12864‐024‐10139‐y10.1186/s12864‐024‐10139‐y ↗
42. 10.1128/aac.02178‐1710.1128/aac.02178‐17 ↗
43. 10.1038/ismej.2014.22610.1038/ismej.2014.226 ↗
44. 10.1038/ncomms1380310.1038/ncomms13803 ↗
45. 10.1038/nature1235210.1038/nature12352 ↗
46. 10.1038/s41579‐021‐00649‐x10.1038/s41579‐021‐00649‐x ↗
47. 10.1038/s41467‐025‐57825‐310.1038/s41467‐025‐57825‐3 ↗
48. 10.1038/s41564‐022‐01079‐y10.1038/s41564‐022‐01079‐y ↗
49. 10.3389/fmicb.2021.64996910.3389/fmicb.2021.649969 ↗