Guild Composition of Root-Associated Bacteria Changes with Increased Soil Contamination

Cairn S. Ely*, Barth F. Smets

*Corresponding author for this work

Research output: Contribution to journalJournal articleResearchpeer-review

Abstract

The interaction of plants and root-associated bacteria encourage the removal of soil contaminants. Engineers and scientists have looked at this phenomenon as a possible means of soil treatment (rhizodegradation). In this study, root-associated bacteria were isolated and selected for growth on a model soil contaminant: polycyclic aromatic hydrocarbons. Isolates were compared genetically to see how plant-bacteria interactions change with soil contamination levels. Characterization of root-associated bacteria was performed using REP-PCR genetic fingerprinting and 16s rRNA gene alignments for identification. Genomic fingerprinting indicated that the composition of PAH-metabolizing bacteria ("guild") was similar among plant species at each treatment level. However, guild composition changed with contamination level and differed from that of bulk soils, suggesting a common rhizosphere effect among plant species related to PAH contamination. PAH-metabolizing bacteria were identified through 16s rRNA gene alignment as members of the α-, β-, and γ-proteobacteria, Actinobacteria, and Bacilli classes. Burkholderia and Pseudomonas spp. were the only genera of bacteria isolated from all plant types in uncontaminated controls. Bacterial species found at the highest treatment included Achromobacter xylosoxidans, Rhodococcus spp., members of the Microbacteriae, Stenotrophomonas rhizophilia, as well as other members of the alpha-proteobacteria. Given their ability to grow on PAHs and inhabit highly contaminated rhizospheres, these bacteria appear good candidates for the promotion of rhizodegradation.
Original languageEnglish
JournalMicrobial Ecology
Volume78
Issue number5
Pages (from-to)416-427
ISSN0095-3628
DOIs
Publication statusPublished - 2019

Keywords

  • Bacteria
  • Phytoremediation
  • Polycyclic aromatic hydrocarbons
  • Rhizodegradation
  • Rhizosphere
  • Soil remediation

Cite this

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title = "Guild Composition of Root-Associated Bacteria Changes with Increased Soil Contamination",
abstract = "The interaction of plants and root-associated bacteria encourage the removal of soil contaminants. Engineers and scientists have looked at this phenomenon as a possible means of soil treatment (rhizodegradation). In this study, root-associated bacteria were isolated and selected for growth on a model soil contaminant: polycyclic aromatic hydrocarbons. Isolates were compared genetically to see how plant-bacteria interactions change with soil contamination levels. Characterization of root-associated bacteria was performed using REP-PCR genetic fingerprinting and 16s rRNA gene alignments for identification. Genomic fingerprinting indicated that the composition of PAH-metabolizing bacteria ({"}guild{"}) was similar among plant species at each treatment level. However, guild composition changed with contamination level and differed from that of bulk soils, suggesting a common rhizosphere effect among plant species related to PAH contamination. PAH-metabolizing bacteria were identified through 16s rRNA gene alignment as members of the α-, β-, and γ-proteobacteria, Actinobacteria, and Bacilli classes. Burkholderia and Pseudomonas spp. were the only genera of bacteria isolated from all plant types in uncontaminated controls. Bacterial species found at the highest treatment included Achromobacter xylosoxidans, Rhodococcus spp., members of the Microbacteriae, Stenotrophomonas rhizophilia, as well as other members of the alpha-proteobacteria. Given their ability to grow on PAHs and inhabit highly contaminated rhizospheres, these bacteria appear good candidates for the promotion of rhizodegradation.",
keywords = "Bacteria, Phytoremediation, Polycyclic aromatic hydrocarbons, Rhizodegradation, Rhizosphere, Soil remediation",
author = "Ely, {Cairn S.} and Smets, {Barth F.}",
year = "2019",
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language = "English",
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Guild Composition of Root-Associated Bacteria Changes with Increased Soil Contamination. / Ely, Cairn S.; Smets, Barth F.

In: Microbial Ecology, Vol. 78, No. 5, 2019, p. 416-427.

Research output: Contribution to journalJournal articleResearchpeer-review

TY - JOUR

T1 - Guild Composition of Root-Associated Bacteria Changes with Increased Soil Contamination

AU - Ely, Cairn S.

AU - Smets, Barth F.

PY - 2019

Y1 - 2019

N2 - The interaction of plants and root-associated bacteria encourage the removal of soil contaminants. Engineers and scientists have looked at this phenomenon as a possible means of soil treatment (rhizodegradation). In this study, root-associated bacteria were isolated and selected for growth on a model soil contaminant: polycyclic aromatic hydrocarbons. Isolates were compared genetically to see how plant-bacteria interactions change with soil contamination levels. Characterization of root-associated bacteria was performed using REP-PCR genetic fingerprinting and 16s rRNA gene alignments for identification. Genomic fingerprinting indicated that the composition of PAH-metabolizing bacteria ("guild") was similar among plant species at each treatment level. However, guild composition changed with contamination level and differed from that of bulk soils, suggesting a common rhizosphere effect among plant species related to PAH contamination. PAH-metabolizing bacteria were identified through 16s rRNA gene alignment as members of the α-, β-, and γ-proteobacteria, Actinobacteria, and Bacilli classes. Burkholderia and Pseudomonas spp. were the only genera of bacteria isolated from all plant types in uncontaminated controls. Bacterial species found at the highest treatment included Achromobacter xylosoxidans, Rhodococcus spp., members of the Microbacteriae, Stenotrophomonas rhizophilia, as well as other members of the alpha-proteobacteria. Given their ability to grow on PAHs and inhabit highly contaminated rhizospheres, these bacteria appear good candidates for the promotion of rhizodegradation.

AB - The interaction of plants and root-associated bacteria encourage the removal of soil contaminants. Engineers and scientists have looked at this phenomenon as a possible means of soil treatment (rhizodegradation). In this study, root-associated bacteria were isolated and selected for growth on a model soil contaminant: polycyclic aromatic hydrocarbons. Isolates were compared genetically to see how plant-bacteria interactions change with soil contamination levels. Characterization of root-associated bacteria was performed using REP-PCR genetic fingerprinting and 16s rRNA gene alignments for identification. Genomic fingerprinting indicated that the composition of PAH-metabolizing bacteria ("guild") was similar among plant species at each treatment level. However, guild composition changed with contamination level and differed from that of bulk soils, suggesting a common rhizosphere effect among plant species related to PAH contamination. PAH-metabolizing bacteria were identified through 16s rRNA gene alignment as members of the α-, β-, and γ-proteobacteria, Actinobacteria, and Bacilli classes. Burkholderia and Pseudomonas spp. were the only genera of bacteria isolated from all plant types in uncontaminated controls. Bacterial species found at the highest treatment included Achromobacter xylosoxidans, Rhodococcus spp., members of the Microbacteriae, Stenotrophomonas rhizophilia, as well as other members of the alpha-proteobacteria. Given their ability to grow on PAHs and inhabit highly contaminated rhizospheres, these bacteria appear good candidates for the promotion of rhizodegradation.

KW - Bacteria

KW - Phytoremediation

KW - Polycyclic aromatic hydrocarbons

KW - Rhizodegradation

KW - Rhizosphere

KW - Soil remediation

U2 - 10.1007/s00248-019-01326-6

DO - 10.1007/s00248-019-01326-6

M3 - Journal article

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SP - 416

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JO - Microbial Ecology

JF - Microbial Ecology

SN - 0095-3628

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