Does increasing the organic fertilizer application rate always boost the antibiotic resistance level in agricultural soils?

Andersson, 2010, Antibiotic resistance and its cost: is it possible to reverse resistance?, Nat. Rev. Microbiol., 8, 260, 10.1038/nrmicro2319 Cerqueira, 2019, Antibiotic resistance genes distribution in microbiomes from the soil-plant-fruit continuum in commercial Lycopersicon esculentum fields under different agricultural practices, Sci. Total Environ., 652, 660, 10.1016/j.scitotenv.2018.10.268 Cerqueira, 2019, Antibiotic resistance gene distribution in agricultural fields and crops. A soil-to-food analysis, Environ. Res., 177, 10.1016/j.envres.2019.108608 Chen, 2016, Long-term field application of sewage sludge increases the abundance of antibiotic resistance genes in soil, Environ. Int., 92, 1, 10.1016/j.envint.2016.03.026 Chen, 2017, An underappreciated hotspot of antibiotic resistance: the groundwater near the municipal solid waste landfill, Sci. Total Environ., 609, 966, 10.1016/j.scitotenv.2017.07.164 Chen, 2017, Do manure-borne or indigenous soil microorganisms influence the spread of antibiotic resistance genes in manured soil?, Soil Biol. Biochem., 114, 229, 10.1016/j.soilbio.2017.07.022 Chen, 2017, Application of struvite alters the antibiotic resistome in soil, rhizosphere, and phyllosphere, Environ. Sci. Technol., 51, 8149, 10.1021/acs.est.7b01420 Chen, 2019, Loss of soil microbial diversity exacerbates spread of antibiotic resistance, Soil Ecol. Lett., 1, 3, 10.1007/s42832-019-0011-0 de Mendiburu, 2019 Deng, 2020, Heavy metals, antibiotics and nutrients affect the bacterial community and resistance genes in chicken manure composting and fertilized soil, J. Environ. Manag., 257, 10.1016/j.jenvman.2019.109980 Duan, 2017, Effects of biochar on reducing the abundance of oxytetracycline, antibiotic resistance genes, and human pathogenic bacteria in soil and lettuce, Environ. Pollut., 224, 787, 10.1016/j.envpol.2017.01.021 Fang, 2015, Prevalence of antibiotic resistance genes and bacterial pathogens in long-term manured greenhouse soils as revealed by metagenomic survey, Environ. Sci. Technol., 49, 1095, 10.1021/es504157v Forsberg, 2012, The shared antibiotic resistome of soil bacteria and human pathogens, Science, 337, 1107, 10.1126/science.1220761 Fu, 2021, Strategy for mitigating antibiotic resistance by biochar and hyperaccumulators in cadmium and oxytetracycline co-contaminated soil, Environ. Sci. Technol., 55, 16369, 10.1021/acs.est.1c03434 Gillings, 2015, Using the class 1 integron-integrase gene as a proxy for anthropogenic pollution, ISME J., 9, 1269, 10.1038/ismej.2014.226 Guo, 2021, Diversity and abundance of antibiotic resistance genes in rhizosphere soil and endophytes of leafy vegetables: focusing on the effect of the vegetable species, J. Hazard Mater., 415, 10.1016/j.jhazmat.2021.125595 Ji, 2012, Antibiotic resistance gene abundances associated with antibiotics and heavy metals in animal manures and agricultural soils adjacent to feedlots in Shanghai; China, J. Hazard Mater., 235, 178, 10.1016/j.jhazmat.2012.07.040 Kolde, 2015 Laxminarayan, 2016, UN High-Level Meeting on antimicrobials--what do we need?, Lancet, 388, 218, 10.1016/S0140-6736(16)31079-0 Li, 2020, Effects of external additives: biochar, bentonite, phosphate, on co-composting for swine manure and corn straw, Chemosphere, 248, 10.1016/j.chemosphere.2020.125927 Li, 2021, Irrigation has a higher impact on soil bacterial abundance, diversity and composition than nitrogen fertilization, Sci. Rep., 11 Li, 2022, Multiple perspectives reveal the gut toxicity of polystyrene microplastics on Eisenia fetida: insights into community signatures of gut bacteria and their translocation, Sci. Total Environ., 838, 10.1016/j.scitotenv.2022.156352 Liao, 2019, Horizontal gene transfer and shifts in linked bacterial community composition are associated with maintenance of antibiotic resistance genes during food waste composting, Sci. Total Environ., 660, 841, 10.1016/j.scitotenv.2018.12.353 Lin, 2009, Effects of different organic fertilizers on soil microbial biomass and yield of peanut, Chin. J. Ecol., 17, 235 Liu, 2022, Cropping system exerts stronger influence on antibiotic resistance gene assemblages in greenhouse soils than reclaimed wastewater irrigation, J. Hazard Mater., 425, 10.1016/j.jhazmat.2021.128046 Ma, 2011, Effect of various sludge digestion conditions on sulfonamide, macrolide, and tetracycline resistance genes and class I integrons, Environ. Sci. Technol., 45, 7855, 10.1021/es200827t Martinez, 2009, Environmental pollution by antibiotics and by antibiotic resistance determinants, Environ. Pollut., 157, 2893, 10.1016/j.envpol.2009.05.051 McKinney, 2018, Occurrence and abundance of antibiotic resistance genes in agricultural soil receiving dairy manure, FEMS Microbiol. Ecol., 94, fiy010, 10.1093/femsec/fiy010 Mei, 2021, Bioaccumulation of manure-borne antibiotic resistance genes in carrot and its exposure assessment, Environ. Int., 157, 10.1016/j.envint.2021.106830 Murray, 2018, Novel insights into selection for antibiotic resistance in complex microbial communities, mBio, 9, 10.1128/mBio.00969-18 Murray, 2019, The impact of municipal sewage sludge stabilization processes on the abundance, field persistence, and transmission of antibiotic resistant bacteria and antibiotic resistance genes to vegetables at harvest, Sci. Total Environ., 651, 1680, 10.1016/j.scitotenv.2018.10.030 Nesme, 2014, Large-scale metagenomic-based study of antibiotic resistance in the environment, Curr. Biol., 24, 1096, 10.1016/j.cub.2014.03.036 Oksanen, 2013, Package ‘vegan’, Community ecology package, 1 Peng, 2015, Long-term application of fresh and composted manure increase tetracycline resistance in the arable soil of eastern China, Sci. Total Environ., 506, 279, 10.1016/j.scitotenv.2014.11.010 Peng, 2017, Prevalence of antibiotic resistance genes in soils after continually applied with different manure for 30 years, J. Hazard Mater., 340, 16, 10.1016/j.jhazmat.2017.06.059 Pruden, 2022, Antimicrobial resistance in the environment: informing policy and practice to prevent the spread, Environ. Sci. Technol., 56, 14869, 10.1021/acs.est.2c07503 Pu, 2020, Manure fertilization increase antibiotic resistance in soils from typical greenhouse vegetable production bases, China, J. Hazard Mater., 391, 10.1016/j.jhazmat.2020.122267 Qian, 2018, Diversity, abundance, and persistence of antibiotic resistance genes in various types of animal manure following industrial composting, J. Hazard Mater., 344, 716, 10.1016/j.jhazmat.2017.11.020 Qin, 2010, A human gut microbial gene catalogue established by metagenomic sequencing, Nature, 464, 59, 10.1038/nature08821 Qin, 2022, Restriction of biosolids returning to land: fate of antibiotic resistance genes in soils after long-term biosolids application, Environ. Pollut., 301, 10.1016/j.envpol.2022.119029 Rousk, 2010, Soil bacterial and fungal communities across a pH gradient in an arable soil, ISME J., 4, 1340, 10.1038/ismej.2010.58 Rutgersson, 2020, Long-term application of Swedish sewage sludge on farmland does not cause clear changes in the soil bacterial resistome, Environ. Int., 137, 10.1016/j.envint.2019.105339 Sanchez, 2013 Sanz, 2021, Implications of the use of organic fertilizers for antibiotic resistance gene distribution in agricultural soils and fresh food products. A plot-scale study, Sci. Total Environ. Shen, 2016, Bacterial community composition is shaped by soil secondary salinization and acidification brought on by high nitrogen fertilization rates, Appl. Soil Ecol., 108, 76, 10.1016/j.apsoil.2016.08.005 Su, 2015, Antibiotic resistome and its association with bacterial communities during sewage sludge composting, Environ. Sci. Technol., 49, 7356, 10.1021/acs.est.5b01012 Sun, 2019, Inorganic and organic fertilizers application enhanced antibiotic resistome in greenhouse soils growing vegetables, Ecotoxicol. Environ. Saf., 179, 24, 10.1016/j.ecoenv.2019.04.039 Sun, 2021, Effect of antibiotic type and vegetable species on antibiotic accumulation in soil-vegetable system, soil microbiota, and resistance genes, Chemosphere, 263, 10.1016/j.chemosphere.2020.128099 Tong, 2022, Swine manure facilitates the spread of antibiotic resistome including tigecycline-resistant tet(X) variants to farm workers and receiving environment, Sci. Total Environ., 808, 10.1016/j.scitotenv.2021.152157 Udikovic-Kolic, 2014, Bloom of resident antibiotic-resistant bacteria in soil following manure fertilization, Proc. Natl. Acad. Sci. U. S. A, 111, 15202, 10.1073/pnas.1409836111 von Wintersdorff, 2016, Dissemination of antimicrobial resistance in microbial ecosystems through horizontal gene transfer, Front. Microbiol., 7, 173, 10.3389/fmicb.2016.00173 Wang, 2014, Impact of reclaimed water irrigation on antibiotic resistance in public parks, Beijing. China, Environ. Pollut., 184, 247, 10.1016/j.envpol.2013.08.038 Wang, 2021, Heavy metal could drive co-selection of antibiotic resistance in terrestrial subsurface soils, J. Hazard Mater., 411, 10.1016/j.jhazmat.2020.124848 2015 Xu, 2020, Long-term chemical-only fertilization induces a diversity decline and deep selection on the soil bacteria, mSystems, 5, 10.1128/mSystems.00337-20 Yang, 2018, Application of biosolids drives the diversity of antibiotic resistance genes in soil and lettuce at harvest, Soil Biol. Biochem., 122, 131, 10.1016/j.soilbio.2018.04.017 Yang, 2021, Short-term cold stress can reduce the abundance of antibiotic resistance genes in the cecum and feces in a pig model, J. Hazard Mater., 416, 10.1016/j.jhazmat.2021.125868 Yu, 2011, Progress in protected vegetable production and research during 'The Eleventh Five-year Plan' in China, China Veg., 2, 11 Yuan, 2022, Profile of bacterial community and antibiotic resistance genes in typical vegetable greenhouse soil, Int. J. Environ. Res. Publ. Health, 19, 7742, 10.3390/ijerph19137742 Zeng, 2016, Nitrogen fertilization directly affects soil bacterial diversity and indirectly affects bacterial community composition, Soil Biol. Biochem., 92, 41, 10.1016/j.soilbio.2015.09.018 Zhang, 2017, Temporal succession of soil antibiotic resistance genes following application of swine, cattle and poultry manures spiked with or without antibiotics, Environ. Pollut., 231, 1621, 10.1016/j.envpol.2017.09.074 Zhang, 2019, Transfer of antibiotic resistance from manure-amended soils to vegetable microbiomes, Environ. Int., 130, 10.1016/j.envint.2019.104912 Zhang, 2020, Manure application did not enrich antibiotic resistance genes in root endophytic bacterial microbiota of cherry radish plants, Appl. Environ. Microbiol., 86, 10.1128/AEM.02106-19 Zhang, 2021, Soil type shapes the antibiotic resistome profiles of long-term manured soil, Sci. Total Environ., 786, 10.1016/j.scitotenv.2021.147361 Zhang, 2023, Soil antibiotic resistance genes accumulate at different rates over four decades of manure application, J. Hazard Mater., 443, 10.1016/j.jhazmat.2022.130136 Zhu, 2013, Diverse and abundant antibiotic resistance genes in Chinese swine farms, Proc. Natl. Acad. Sci. U. S. A, 110, 3435, 10.1073/pnas.1222743110