Agricultural activities affect the pattern of the resistome within the phyllosphere microbiome in peri-urban environments.

The plant microbiome represents a crucial pathway for human exposure to environmental antibiotic resistance. However, little information is available regarding the plant associated resistome in human-related environments at a larger scale. Here, by high-throughput quantitative-PCR chip-based array and amplicon sequencing, we characterized antibiotic resistance genes (ARGs) and bacterial communities in plant and soil microbiomes from human highly disturbed peri-urban farmland and less disturbed forest at a watershed scale. A total of 71 ARGs were detected in the phyllosphere, which covered almost all the major recognized classes of antibiotics that are administered commonly to humans and animals. The overall pattern of the plant associated resistome in intensive anthropogenic influenced farmland was significantly different from that of forest environments (PERMANOVA, P < 0.01), indicating that agricultural activities might be important drivers in shaping the plant resistome. A bipartite network analysis suggested that all ARGs detected in the plant microbiome were also present in the soil microbiome. Together, our findings provide a better understanding of the plant resistome and suggest that land use is a key contributor to the composition of ARG profiles in the plant phyllosphere, and that the soil resistome may represent a critical reservoir of plant associated ARGs.

• Publication year

  2020

• Venue

  Journal of Hazardous Materials

• Publication date

  2020-01-15

• Fields of study

  Agricultural and Food Sciences, Medicine, Biology, Environmental Science

• Identifiers
  DOI 10.1016/j.jhazmat.2019.121068PMID 31472469
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• All antibiotic resistance genes detected in the plant resistome were also present in the soil microbiome, supporting soil as a reservoir for plant-associated resistance genes.

  Confidence 0.95

  박진우 (dztg5apj7m) extraction뀨 (7c402c1b98) reviewAK (4715169a40) reviewB (s683577b42) reviewAnonymous (12632b8b5f) review
• The plant resistome in peri-urban farmland differed significantly from that in forest environments, consistent with agricultural activities shaping its composition.

  Confidence 0.93

  박진우 (dztg5apj7m) extraction뀨 (7c402c1b98) reviewAK (4715169a40) reviewB (s683577b42) reviewAnonymous (12632b8b5f) review
• Seventy-one antibiotic resistance genes were detected in the phyllosphere microbiome, covering nearly all major antibiotic classes used in humans and animals.

  Confidence 0.97

  박진우 (dztg5apj7m) extraction뀨 (7c402c1b98) reviewAK (4715169a40) reviewB (s683577b42) reviewAnonymous (12632b8b5f) review

• agricultural activities

  process

  Human farming practices and land-use pressures that act on the peri-urban landscape.

  Aliases: land use, anthropogenic activities

  박진우 (dztg5apj7m) extraction뀨 (7c402c1b98) reviewAK (4715169a40) reviewB (s683577b42) reviewAnonymous (12632b8b5f) review
• antibiotic resistance genes

  gene

  Genes that confer resistance to antibiotics and were profiled in plant and soil microbiomes in this watershed-scale survey.

  Aliases: ARGs

  박진우 (dztg5apj7m) extraction뀨 (7c402c1b98) reviewAK (4715169a40) reviewB (s683577b42) reviewAnonymous (12632b8b5f) review
• forest environments

  environment

  Less disturbed forest sites used as the comparison environment in the watershed.

  Aliases: forest

  박진우 (dztg5apj7m) extraction뀨 (7c402c1b98) reviewAK (4715169a40) reviewB (s683577b42) reviewAnonymous (12632b8b5f) review
• peri-urban farmland

  environment

  Farmland in a watershed with strong human disturbance and urban influence.

  Aliases: peri-urban farmland environment

  박진우 (dztg5apj7m) extraction뀨 (7c402c1b98) reviewAK (4715169a40) reviewB (s683577b42) reviewAnonymous (12632b8b5f) review
• phyllosphere microbiome

  microbiome

  The microbial community inhabiting the above-ground surfaces of plants.

  Aliases: phyllosphere

  박진우 (dztg5apj7m) extraction뀨 (7c402c1b98) reviewAK (4715169a40) reviewB (s683577b42) reviewAnonymous (12632b8b5f) review
• plant resistome

  resistome

  The collection of antibiotic resistance genes associated with the plant microbiome.

  Aliases: plant-associated resistome, resistome within the phyllosphere microbiome

  박진우 (dztg5apj7m) extraction뀨 (7c402c1b98) reviewAK (4715169a40) reviewB (s683577b42) reviewAnonymous (12632b8b5f) review
• soil microbiome

  microbiome

  The microbial community in soil sampled alongside the plant microbiome.

  Aliases: soil microflora

  박진우 (dztg5apj7m) extraction뀨 (7c402c1b98) reviewAK (4715169a40) reviewB (s683577b42) reviewAnonymous (12632b8b5f) review

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