Metagenomic assembly reveals hosts and mobility of common antibiotic resistome in animal manure and commercial compost
文献类型： 外文期刊
作者： Qiu, Tianlei 1 ; Huo, Linhe 1 ; Guo, Yajie 1 ; Gao, Min 1 ; Wang, Guoliang 1 ; Hu, Dong 2 ; Li, Cheng 3 ; Wang, Zhanwu 2 ; Liu, Guiming 1 ; Wang, Xuming 1 ;
作者机构： 1.Beijing Acad Agr & Forestry Sci, Inst Biotechnol, Beijing Key Lab Agr Genet Resources & Biotechnol, Beijing 100097, Peoples R China
2.Hebei Acad Agr & Forestry Sci, Hebei Fertilizer Technol Innovat Ctr, Inst Agroresources & Environm, Shijiazhuang 050051, Hebei, Peoples R China
3.Beijing Acad Agr & Forestry Sci, Inst Qual Stand & Testing, Beijing 100097, Peoples R China
关键词： Metagenome; Antibiotic resistance genes; Resistome; Host community; Mobile genetic elements; Livestock farm
期刊名称：ENVIRONMENTAL MICROBIOME （ 影响因子：6.36； 五年影响因子：6.36 ）
ISSN：
年卷期： 2022 年 17 卷 1 期
页码：
收录情况： SCI
摘要： Background Antibiotics and antibiotic resistance genes (ARGs) used in intensive animal farming threaten human health worldwide; however, the common resistome, ARG mobility, and ARG host composition in different animal manures and mixed manure composts remain unclear. In the present study, metagenomic assembly and cross-sample mapping were used to comprehensively decipher the common resistome and its potential mobility and hosts in animal manure and composts. Results In total, 201 ARGs were shared among different animal (layer, broiler, swine, beef cow, and dairy cow) manures and accounted for 86-99% of total relative abundance of ARGs. Except for multidrug, sulfonamide, and trimethoprim resistance genes, the relative abundance of most ARGs in composts was significantly lower than that in animal manure. Procrustes analysis indicated that antibiotic residues positively correlated with ARG composition in manure but not in composts. More than 75% ARG subtypes were shared between plasmids and chromosomes in our samples. Transposases could play a pivotal role in mediating the transfer of ARGs between different phyla in animal manure and composting. Cross-sample mapping to contigs carrying ARGs showed that the hosts of common resistome in manure had preference on animal species, and the dominant genus of ARG host shifted from Enterococcus in manure to Pseudomonas in composts. The broad host range and linking with diverse mobile genetic elements (MGEs) were two key factors for ARGs, such as sul1 and aadA, which could survive during composting. The multidrug resistance genes represented the dominant ARGs in pathogenic antibiotic-resistant bacteria in manure but could be effectively controlled by composting. Conclusions Our experiments revealed the common resistome in animal manure, classified and relative quantified the ARG hosts, and assessed the mobility of ARGs. Composting can mitigate ARGs in animal manure by altering the bacterial hosts; however, persistent ARGs can escape from the removal because of diverse host range and MGEs. Our findings provide an overall background for source tracking, risk assessment, and control of livestock ARGs.
- 相关文献
作者其他论文 更多>>
-
Insights into Molecular Mechanism of Secondary Xylem Rapid Growth in Salix psammophila
作者：Qiao, Hongxia;Wei, Dongshan;Li, Yingjie;Chao, Kairui;Yang, Haifeng;Qiao, Hongxia;Wang, Yunhan;Liu, Guiming;Zhang, Jiewei;Qiao, Hongxia;Wang, Yunhan;Liu, Guiming;Zhang, Jiewei;Wang, Yunhan;Shi, Lin;Wang, Ruiping;Yang, Yeru;Jia, Li;Yu, Fengqiang
关键词：
Salix psammophila ; secondary growth; secondary xylem; lignin; caffeoyl shikimate esterase -
EasyMetagenome: A user-friendly and flexible pipeline for shotgun metagenomic analysis in microbiome research
作者：Bai, Defeng;Xun, Jiani;Ma, Chuang;Luo, Hao;Yang, Haifei;Hou, Huiyu;Lv, Hujie;Wan, Xiulin;Wang, Yao;Yousuf, Salsabeel;Zeng, Meiyin;Zhang, Tianyuan;Gao, Yunyun;Liu, Yong-Xin;Chen, Tong;Ma, Chuang;Yang, Haifei;Cao, Chen;Cao, Xiaofeng;Cui, Jianzhou;Deng, Yuan-Ping;Deng, Zhaochao;Yu, Hao;Zhang, Chunfang;Dong, Wenxin;Dong, Wenxue;Du, Juan;Fang, Qunkai;Fang, Wei;Fang, Yue;Luan, Yaning;Fu, Fangtian;Fu, Min;Fu, Yi-Tian;Gao, He;Ge, Jingping;Guo, Yuhao;Gong, Qinglong;Lou, Wenbo;Gu, Lunda;Yang, Li;Guo, Peng;Hai, Tang;Liu, Hao;He, Jieqiang;He, Zi-Yang;Huang, Can;Ji, Shuai;Jiang, ChangHai;Jiang, Gui-Lai;Jiang, Lingjuan;Jin, Ling N.;Li, Changchao;Kan, Yuhe;Kang, Da;Kou, Jin;Lam, Ka-Lung;Li, Chong;Li, Fuyi;Li, Liwei;Li, Miao;Li, Xin;Li, Ye;Li, Zheng-Tao;Zhu, Chengshuai;Liang, Jing;Mo, Jiayuan;Lin, Yongxin;Liu, Changzhen;Liu, Danni;Zhang, Jing;Chen, Shifu;Liu, Fengqin;Liu, Jia;Liu, Tianrui;Liu, Tingting;Wang, Xinlong;Liu, Xinyuan;Luo, Yuanyuan;Liu, Yaqun;Liu, Bangyan;Liu, Minghao;Lv, Hujie;Ma, Tengfei;Mai, Zongjiong;Niu, Dongze;Pan, Zhuo;Qi, Heyuan;Shi, Zhanyao;Song, Chunjiao;Sun, Fuxiang;Sun, Yan;Tian, Sihui;Wang, Guoliang;Wang, Hongyang;Wang, Hongyu;Wang, Huanhuan;Wang, Jing;Wang, Jun;Wang, Kang;Wang, Leli;Yao, Xiaofang;Wang, Shao-kun;Xiao, Zufei;Xing, Huichun;Xu, Yifan;Yang, Song;Yan, Shu-yan;Zhang, Yi-Bo;Yang, Yuanming;Lei, Yu;Yuan, Zhengrong;Zhang, Chunge;Zhang, Huimin;Zhang, Na;Zhang, Yupeng;Zhang, Zheng;Zhou, Mingda;Zhou, Yuanping;Zhu, Zhihao;Zhu, Lin;Zhu, Yue;Zou, Hongqin;Zuo, Anna;Dong, Wenxuan;Wen, Tao;Chen, Shifu;Chen, Shifu;Li, Guoliang
关键词：metagenome; microbiome; microbiota; pipeline; visualization
-
Metagenomic analysis deciphers airborne pathogens with enhanced antimicrobial resistance and virulence factors in composting facilities
作者：Chen, Mo;Xing, Lijun;Guo, Yajie;Qiu, Tianlei;Wang, Xuming;Gao, Min;Gao, Shanshan;Wang, Xuming
关键词：Airborne antimicrobial resistance; Human-pathogenic antibiotic-resistant bacteria; Metagenome-assembled genomes; Enrichment; Composting facility
-
Simultaneously improve autotrophic denitrification and membrane fouling mitigation under low sludge concentration in sulfur-fed membrane bioreactor
作者：Gao, Shanshan;Li, Ting;Geng, Mingyue;Xie, Binghan;Dong, Junliang;Tian, Jiayu;Gao, Min
关键词：Membrane bioreactor; Sulfur-driven autotrophic denitrification; Membrane fouling; Microbial assembly; Sludge concentration
-
Identification and characterization of pigeon adenovirus 1 as an emerging pathogen in pigeons from Northern and Northwest China
作者：Yang, Zhiyuan;Zhou, Yuting;Lin, Jian;Huang, Cheng;Yang, Baolin;Duan, Huijuan;Cui, Jian;Zhao, Jicheng;Liu, Yuehuan;Gao, Jie;Luo, Weijue;Cheng, Shuisheng;Wang, Xiuqing;Wang, Guoliang;Liu, Guiming
关键词：Pigeon adenovirus 1; PiAdV-1; Fiber-2; Pigeon; Pathological changes; Viral characterization
-
Predicting nasal diseases based on microbiota relationship network
作者：Liang, Yibo;Zhang, Chenting;Zhang, Guimin;Mao, Jie;Sun, Zhe;Qiu, Tianlei;Li, Binghua;Zhang, Kai
关键词：Nasal microbiome; relationship network; graph theory; machine learning; disease prediction
-
Traditional and novel organophosphate esters in atmosphere of greenhouse covered with mulch films: Seasonal variations, partitioning and exposure risks
作者：Zhao, Fang;Tian, Sinuo;Liu, Jing;Wang, Yingjun;Ma, Zhihong;Ping, Hua;Li, Cheng;Zhao, Fang;Tian, Sinuo;Liu, Jing;Wang, Yingjun;Ma, Zhihong;Ping, Hua;Li, Cheng;Cui, Guanglu;Ha, Xuejiao
关键词：Organophosphate ester; Seasonal variation; Gas-particle partition; Soil-air exchange; Non-dietary risk
