Bacterial community changes in response to oil contamination and perennial crop cultivation

Bacterial community changes in response to oil contamination and perennial crop cultivation We investigated bacterial community dynamics in response to used motor oil contamination and perennial crop cultivation by 16S rRNA gene amplicon sequencing in a 4-year field study. Actinobacteria, Proteobacteria, Chloroflexi, Acidobacteria, and Gemmatimonadetes were the major bacterial phyla, and Rhodococcus was the most abundant genus. Initially, oil contamination decreased the overall bacterial diversity. Actinobacteria, Betaproteobacteria, and Gammaproteobacteria were sensitive to oil contamination, exhibiting clear succession with time. However, bacterial communities changed over time, regardless of oil contamination and crop cultivation. The abundance difference of most OTUs between oil-contaminated and non-contaminated plots remained the same in later sampling years after the initial abundance difference induced by oil spike. The abundances of three oil-favored actinobacteria (Lysinimonas, Microbacteriaceae, and Marmoricola) and one betaproteobacterium (Aquabacterium) changed in different manner over time in oil-contaminated and non-contaminated soil. We propose that these taxa are potential bio-indicators for monitoring recovery from motor oil contamination in boreal soil. The effect of crop cultivation on bacterial communities became significant only after the crops achieved stable growth, likely associated with plant material decomposition by Bacteroidetes, Armatimonadetes and Fibrobacteres. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Environmental Science and Pollution Research Springer Journals

Bacterial community changes in response to oil contamination and perennial crop cultivation

10 pages
Read Article

Loading next page...
 
/lp/springer_journal/bacterial-community-changes-in-response-to-oil-contamination-and-LqU7L9PcGl
Publisher
Springer Journals
Copyright
Copyright © 2018 by Springer-Verlag GmbH Germany, part of Springer Nature
Subject
Environment; Environment, general; Environmental Chemistry; Ecotoxicology; Environmental Health; Atmospheric Protection/Air Quality Control/Air Pollution; Waste Water Technology / Water Pollution Control / Water Management / Aquatic Pollution
ISSN
0944-1344
eISSN
1614-7499
DOI
10.1007/s11356-018-1635-9
Publisher site
See Article on Publisher Site

Abstract

We investigated bacterial community dynamics in response to used motor oil contamination and perennial crop cultivation by 16S rRNA gene amplicon sequencing in a 4-year field study. Actinobacteria, Proteobacteria, Chloroflexi, Acidobacteria, and Gemmatimonadetes were the major bacterial phyla, and Rhodococcus was the most abundant genus. Initially, oil contamination decreased the overall bacterial diversity. Actinobacteria, Betaproteobacteria, and Gammaproteobacteria were sensitive to oil contamination, exhibiting clear succession with time. However, bacterial communities changed over time, regardless of oil contamination and crop cultivation. The abundance difference of most OTUs between oil-contaminated and non-contaminated plots remained the same in later sampling years after the initial abundance difference induced by oil spike. The abundances of three oil-favored actinobacteria (Lysinimonas, Microbacteriaceae, and Marmoricola) and one betaproteobacterium (Aquabacterium) changed in different manner over time in oil-contaminated and non-contaminated soil. We propose that these taxa are potential bio-indicators for monitoring recovery from motor oil contamination in boreal soil. The effect of crop cultivation on bacterial communities became significant only after the crops achieved stable growth, likely associated with plant material decomposition by Bacteroidetes, Armatimonadetes and Fibrobacteres.

Journal

Environmental Science and Pollution Research – Springer Journals

Published: Mar 12, 2018

References

  • Comparison of indigenous and exogenous microbial populations during slurry phase biodegradation of long-term hydrocarbon-contaminated soil
    Aburto-Medina, A; Adetutu, EM; Aleer, S; Weber, J; Patil, SS; Sheppard, PJ; Ball, AS; Juhasz, AL
  • Tag-encoded pyrosequencing analysis of bacterial diversity in a single soil type as affected by management and land use
    Acosta-Martinez, V; Dowd, S; Sun, Y; Allen, V
  • Canonical analysis of principal coordinates: a useful method of constrained ordination for ecology
    Anderson, MJ; Willis, TJ
  • A new method for non-parametric multivariate analysis of variance
    Anderson, MJ
  • Petroleum and polycyclic aromatic hydrocarbons (PAHs) degradation and naphthalene metabolism in Streptomyces sp.(ERI-CPDA-1) isolated from oil contaminated soil
    Balachandran, C; Duraipandiyan, V; Balakrishna, K; Ignacimuthu, S
  • Changes in land use alter the structure of bacterial communities in Western Amazon soils
    C Jesus, E; Marsh, TL; Tiedje, JM; S Moreira, FM
  • High bacterial biodiversity increases degradation performance of hydrocarbons during bioremediation of contaminated harbor marine sediments
    Dell'Anno, A; Beolchini, F; Rocchetti, L; Luna, GM; Danovaro, R
  • Phytoremediation of soil contaminated with used motor oil: II. Greenhouse studies
    Dominguez-Rosado, E; Pichtel, J
  • Phytoremediation of soil contaminated with used motor oil: I. Enhanced microbial activities from laboratory and growth chamber studies
    Dominguez-Rosado, E; Pichtel, J; Coughlin, M
  • Biostimulation reveals functional redundancy of anthracene-degrading bacteria in polycyclic aromatic hydrocarbon-contaminated soil
    Dunlevy, SR; Singleton, DR; Aitken, MD
  • Naphthalene and crude oil degradation by biosurfactant producing Streptomyces spp. isolated from Mitidja plain soil (north of Algeria)
    Ferradji, FZ; Mnif, S; Badis, A; Rebbani, S; Fodil, D; Eddouaouda, K; Sayadi, S
  • Alkane-degrading bacteria at the soil-litter interface: comparing isolates with T-RFLP-based community profiles
    Giebler, J; Wick, LY; Chatzinotas, A; Harms, H
  • The investigation of growing and using of tall perennial grasses as energy crops
    Jasinskas, A; Zaltauskas, A; Kryzeviciene, A
  • DNA fingerprinting reveals links among agricultural crops, soil properties, and the composition of soil microbial communities
    Johnson, M; Lee, K; Scow, K
  • Stable-isotope probing of the polycyclic aromatic hydrocarbon-degrading bacterial guild in a contaminated soil
    Jones, MD; Crandell, DW; Singleton, DR; Aitken, MD
  • Effect of incubation conditions on the enrichment of pyrene-degrading bacteria identified by stable-isotope probing in an aged, PAH-contaminated soil
    Jones, MD; Singleton, DR; Carstensen, DP; Powell, SN; Swanson, JS; Pfaender, FK; Aitken, MD
  • Genetic diversity of culturable bacteria in oil-contaminated rhizosphere of Galega orientalis
    Jussila, MM; Jurgens, G; Lindström, K; Suominen, L
  • Development of a dual-index sequencing strategy and curation pipeline for analyzing amplicon sequence data on the MiSeq Illumina sequencing platform
    Kozich, JJ; Westcott, SL; Baxter, NT; Highlander, SK; Schloss, PD
  • Perennial grasses as a source of bioenergy in Lithuania
    Kryževičienė, A; Jasinskas, A; Gulbinas, A
  • Microbial secondary succession in a chronosequence of chalk grasslands
    Kuramae, EE; Gamper, HA; Yergeau, E; Piceno, YM; Brodie, EL; DeSantis, TZ; Andersen, GL; Veen, JA; Kowalchuk, GA
  • Comparative phylogenetic analysis of microbial communities in pristine and hydrocarbon-contaminated Alpine soils
    Labbe, D; Margesin, R; Schinner, F; Whyte, LG; Greer, CW
  • Bacterial diversity of a consortium degrading high-molecular-weight polycyclic aromatic hydrocarbons in a two-liquid phase biosystem
    Lafortune, I; Juteau, P; Déziel, E; Lépine, F; Beaudet, R; Villemur, R
  • Pyrosequencing-based assessment of soil pH as a predictor of soil bacterial community structure at the continental scale
    Lauber, CL; Hamady, M; Knight, R; Fierer, N
  • Functional gene diversity of soil microbial communities from five oil-contaminated fields in China
    Liang, Y; Nostrand, JD; Deng, Y; He, Z; Wu, L; Zhang, X; Li, G; Zhou, J
  • Potential of the Galega-Rhizobium galegae system for bioremediation of oil-contaminated soil
    Lindstrom, K; Jussila, MM; Hintsa, H; Kaksonen, A; Mokelke, L; Makelainen, K; Pitkajarvi, J; Suominen, L
  • Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
    Love, MI; Huber, W; Anders, S
  • Fitting multivariate models to community data: a comment on distance-based redundancy analysis
    McArdle, BH; Anderson, MJ
  • Contaminant and plant-derived changes in soil chemical and microbiological indicators during fuel oil rhizoremediation with< i> Galega orientalis
    Mikkonen, A; Kondo, E; Lappi, K; Wallenius, K; Lindström, K; Hartikainen, H; Suominen, L
  • Ecological inference on bacterial succession using curve-based community fingerprint data analysis, demonstrated with rhizoremediation experiment
    Mikkonen, A; Lappi, K; Wallenius, K; Lindström, K; Suominen, L
  • A comparison of DNA profiling techniques for monitoring nutrient impact on microbial community composition during bioremediation of petroleum-contaminated soils
    Mills, DK; Fitzgerald, K; Litchfield, CD; Gillevet, PM
  • Genomic analysis of the potential for aromatic compounds biodegradation in Burkholderiales
    Pérez-Pantoja, D; Donoso, R; Agulló, L; Córdova, M; Seeger, M; Pieper, DH; González, B
  • On the beta-binomial model for analysis of spectral count data in label-free tandem mass spectrometry-based proteomics
    Pham, TV; Piersma, SR; Warmoes, M; Jimenez, CR
  • The Fibrobacteres: an important phylum of cellulose-degrading bacteria
    Ransom-Jones, E; Jones, DL; McCarthy, AJ; McDonald, JE
  • Bacterial community in semiarid hydrocarbon contaminated soils treated by aeration and organic amendments
    Ros, M; Rodríguez, I; García, C; Hernández, MT
  • A novel phenanthrene dioxygenase from Nocardioides sp. strain KP7: expression in Escherichia coli
    Saito, A; Iwabuchi, T; Harayama, S
  • Nocardioides oleivorans sp. nov., a novel crude-oil-degrading bacterium
    Schippers, A; Schumann, P; Sproer, C
  • Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities
    Schloss, PD; Westcott, SL; Ryabin, T; Hall, JR; Hartmann, M; Hollister, EB; Lesniewski, RA; Oakley, BB; Parks, DH; Robinson, CJ; Sahl, JW; Stres, B; Thallinger, GG; Horn, DJ; Weber, CF
  • Cytoscape: a software environment for integrated models of biomolecular interaction networks
    Shannon, P; Markiel, A; Ozier, O; Baliga, NS; Wang, JT; Ramage, D; Amin, N; Schwikowski, B; Ideker, T
  • Identification and quantification of uncultivated Proteobacteria associated with pyrene degradation in a bioreactor treating PAH-contaminated soil
    Singleton, DR; Sangaiah, R; Gold, A; Ball, LM; Aitken, MD
  • Isolation, characterization of Rhodococcus sp. P14 capable of degrading high-molecular-weight polycyclic aromatic hydrocarbons and aliphatic hydrocarbons
    Song, X; Xu, Y; Li, G; Zhang, Y; Huang, T; Hu, Z
  • Evaluation of the Galega–Rhizobium galegae system for the bioremediation of oil-contaminated soil
    Suominen, L; Jussila, M; Mäkeläinen, K; Romantschuk, M; Lindström, K
  • Diversity of alkane hydroxylase genes on the rhizoplane of grasses planted in petroleum-contaminated soils
    Tsuboi, S; Yamamura, S; Nakajima-Kambe, T; Iwasaki, K
  • Environmental impact of used motor oil
    Vazquez-Duhalt, R
  • Bacterial community dynamics and polycyclic aromatic hydrocarbon degradation during bioremediation of heavily creosote-contaminated soil
    Vinas, M; Sabate, J; Espuny, MJ; Solanas, AM
  • Rhizosphere processes and management in plant-assisted bioremediation (phytoremediation) of soils
    Wenzel, WW
  • Biodiversity and ecosystem productivity in a fluctuating environment: the insurance hypothesis
    Yachi, S; Loreau, M
  • Thermoleophilum album and Thermoleophilum minutum are culturable representatives of group 2 of the Rubrobacteridae (Actinobacteria)
    Yakimov, MM; Lunsdorf, H; Golyshin, PN
  • Characterization of successional changes in bacterial community composition during bioremediation of used motor oil-contaminated soil in a boreal climate
    Yan, L; Sinkko, H; Penttinen, P; Lindström, K
  • Perennial crop growth in oil-contaminated soil in a boreal climate
    Yan, L; Penttinen, P; Simojoki, A; Stoddard, FL; Lindström, K
  • Crude oil treatment leads to shift of bacterial communities in soils from the deep active layer and upper permafrost along the China-Russia crude oil pipeline route
    Yang, S; Wen, X; Zhao, L; Shi, Y; Jin, H
  • Arenimonas malthae sp. nov., a gammaproteobacterium isolated from an oil-contaminated site
    Young, CC; Kampfer, P; Ho, MJ; Busse, HJ; Huber, BE; Arun, AB; Shen, FT; Lai, WA; Rekha, PD
  • Characterization of culturable heterotrophic bacteria in hydrocarbon-contaminated soil from an alpine former military site
    Zhang, D; Margesin, R

You’re reading a free preview. Subscribe to read the entire article.

Try 2 weeks free now

DeepDyve is your
personal research library

It’s your single place to instantly
discover and read the research
that matters to you.

Enjoy affordable access to
over 18 million articles from more than
15,000 peer-reviewed journals.

All for just $49/month

Explore the DeepDyve Library

or browse the journals available

Search

Query the DeepDyve database, plus search all of PubMed and Google Scholar seamlessly

Organize

Save any article or search result from DeepDyve, PubMed, and Google Scholar... all in one place.

Access

Get unlimited, online access to over 18 million full-text articles from more than 15,000 scientific journals.

Your journals are on DeepDyve

Read from thousands of the leading scholarly journals from SpringerNature, Elsevier, Wiley-Blackwell, Oxford University Press and more.

All the latest content is available, no embargo periods.

See the journals in your area

DeepDyve

Freelancer

DeepDyve

Pro

Price

FREE

$49/month
$360/year

Save searches from
Google Scholar,
PubMed

Create folders to
organize your research

Export folders, citations

Read DeepDyve articles

Abstract access only

Unlimited access to over
18 million full-text articles

Print

20 pages / month

PDF Discount

20% off

Sign up
for free
Start 14 day
Free Trial