Evidence map›Paper›PMID 40946852›Full record

ArticleJournal of advanced research2026

Nutrition cycling microbiomes drive the succession of antibiotic resistome in long-term manured soils.

Conglai Zheng, Jiajin Song, Mei Shan, Mengting Qiu, Minrong Cui, Chenyu Huang, Weibin Chen, Jiao Wang, Luqing Zhang, Yunlong Yu and 1 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Journal of advanced research, 2026. 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. 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

11 authors.

Conglai ZhengZhejiang Key Laboratory of Biology and Ecological Regulation of Crop Pathogens and Insects, Ministry of Agriculture and Rural Affairs Key Laboratory and Molecular Biology of Crop Pathogens and Insect Pests, Zhejiang Engineering Research Center for Biological Control of Crop Pathogens and Insect Pests, Institute of Pesticide and Environmental Toxicology, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China.
Jiajin SongZhejiang Key Laboratory of Biology and Ecological Regulation of Crop Pathogens and Insects, Ministry of Agriculture and Rural Affairs Key Laboratory and Molecular Biology of Crop Pathogens and Insect Pests, Zhejiang Engineering Research Center for Biological Control of Crop Pathogens and Insect Pests, Institute of Pesticide and Environmental Toxicology, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China.
Mei ShanZhejiang Key Laboratory of Biology and Ecological Regulation of Crop Pathogens and Insects, Ministry of Agriculture and Rural Affairs Key Laboratory and Molecular Biology of Crop Pathogens and Insect Pests, Zhejiang Engineering Research Center for Biological Control of Crop Pathogens and Insect Pests, Institute of Pesticide and Environmental Toxicology, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China.
Mengting QiuZhejiang Key Laboratory of Biology and Ecological Regulation of Crop Pathogens and Insects, Ministry of Agriculture and Rural Affairs Key Laboratory and Molecular Biology of Crop Pathogens and Insect Pests, Zhejiang Engineering Research Center for Biological Control of Crop Pathogens and Insect Pests, Institute of Pesticide and Environmental Toxicology, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China.
Minrong CuiZhejiang Key Laboratory of Biology and Ecological Regulation of Crop Pathogens and Insects, Ministry of Agriculture and Rural Affairs Key Laboratory and Molecular Biology of Crop Pathogens and Insect Pests, Zhejiang Engineering Research Center for Biological Control of Crop Pathogens and Insect Pests, Institute of Pesticide and Environmental Toxicology, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China.
Chenyu HuangZhejiang Key Laboratory of Biology and Ecological Regulation of Crop Pathogens and Insects, Ministry of Agriculture and Rural Affairs Key Laboratory and Molecular Biology of Crop Pathogens and Insect Pests, Zhejiang Engineering Research Center for Biological Control of Crop Pathogens and Insect Pests, Institute of Pesticide and Environmental Toxicology, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China.
Weibin ChenZhejiang Key Laboratory of Biology and Ecological Regulation of Crop Pathogens and Insects, Ministry of Agriculture and Rural Affairs Key Laboratory and Molecular Biology of Crop Pathogens and Insect Pests, Zhejiang Engineering Research Center for Biological Control of Crop Pathogens and Insect Pests, Institute of Pesticide and Environmental Toxicology, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China.
Jiao WangZhejiang Key Laboratory of Biology and Ecological Regulation of Crop Pathogens and Insects, Ministry of Agriculture and Rural Affairs Key Laboratory and Molecular Biology of Crop Pathogens and Insect Pests, Zhejiang Engineering Research Center for Biological Control of Crop Pathogens and Insect Pests, Institute of Pesticide and Environmental Toxicology, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China.
Luqing ZhangZhejiang Key Laboratory of Biology and Ecological Regulation of Crop Pathogens and Insects, Ministry of Agriculture and Rural Affairs Key Laboratory and Molecular Biology of Crop Pathogens and Insect Pests, Zhejiang Engineering Research Center for Biological Control of Crop Pathogens and Insect Pests, Institute of Pesticide and Environmental Toxicology, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China.
Yunlong YuZhejiang Key Laboratory of Biology and Ecological Regulation of Crop Pathogens and Insects, Ministry of Agriculture and Rural Affairs Key Laboratory and Molecular Biology of Crop Pathogens and Insect Pests, Zhejiang Engineering Research Center for Biological Control of Crop Pathogens and Insect Pests, Institute of Pesticide and Environmental Toxicology, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China.
Hua FangZhejiang Key Laboratory of Biology and Ecological Regulation of Crop Pathogens and Insects, Ministry of Agriculture and Rural Affairs Key Laboratory and Molecular Biology of Crop Pathogens and Insect Pests, Zhejiang Engineering Research Center for Biological Control of Crop Pathogens and Insect Pests, Institute of Pesticide and Environmental Toxicology, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China. Electronic address: agri@zju.edu.cn.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

introductionThe spread of antibiotic resistance genes (ARGs) in the environment has received widespread attention. Nutrition cycling microbiomes specifically refer to microorganisms capable of mineralizing nitrogen and phosphorus, which dominate the microbial community in long-term manured soils. However, changes in nutrition cycling genes/microbiomes and the mechanisms by which these microbiomes mediate ARG transfer through vertical and horizontal gene transfer remain poorly understood.

objectivesThis study aimed to elucidate how nutrition cycling microbiomes mediate the dissemination and ecological risk of antibiotic resistance genes (ARGs) in long-term manure-amended soils.

methodsHere, we employed metagenomic assembly and binning to investigate the distribution of nutrition mineralization genes, nutrition cycling microbiomes, mobile genetic elements (MGEs), and ARGs in rapeseed cake, pig manure, duck manure and their corresponding long-term amended soils.

resultsLong-term application of organic manures led to the dominance of nutrition cycling microbiomes associated with methanogenesis (pmoA and mmoX) and incomplete denitrification (norBC), thereby exacerbating soil nutrient loss. Nutrition cycling microbiomes, particularly Rhodanobacter and Pseudomonas, served as the primary host for ARGs and harbored multiple clinically relevant resistance genes, including MexF, ceoB, and mdtB. Notably, the abundance of ARGs in rapeseed cake and pig manure was 2.09-2.23-fold and 6.74-7.38-fold higher, respectively, than in duck manure, promoting the vertical transmission of ARGs via nutrition cycling microbiomes under long-term application. Furthermore, a significant positive correlation between nutrition mineralization genes and ARGs revealed a co-dispersal mechanism between nutrition cycling microbiomes and ARGs in long-term manured soils.

conclusionsIt is concluded that the nutrition cycling microbiome plays a more prominent role in shaping antibiotic resistome through vertical transfer in manured soils, compared to horizontal gene transfer mediated by MGEs.

Indexed as

Drug Resistance, MicrobialManureMicrobiotaSoil MicrobiologyAnimalsAnti-Bacterial AgentsBacteriaDucksGenes, BacterialGene Transfer, HorizontalNitrogenPhosphorusSoilSwineAnti-Bacterial AgentsManureNitrogenPhosphorusSoilAntibiotic resistance geneMobile genetic elementNutrition cycling microbiomeOrganic manure

Identifiers

PMID40946852
PMCPMC13227270

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Registered trials

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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.