Bacterial community dynamics during bioremediation of alkane- and PAHs-contaminated soil of Siri island, Persian Gulf: a microcosm study
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Studding the diversity of soil indigenous microorganisms, and monitoring effect of contaminants on microbial population, is very critical for understanding microbial activity during bioremediation and selecting successful remediation strategy. To simulate the natural environment, four microcosms were prepared by artificially contaminating clean soil with defined amounts of petroleum hydrocarbons including alkanes mixture (C13–C20), polyaromatic hydrocarbons (PAHs) mixture (anthracene, phenanthrene, fluoranthene, pyrene and benzo (α) pyrene) and both alkanes and PAHs. Contaminants degradation and heterotrophic bacterial count were measured during a 6-month study. Copy number of alkB and C23DO genes was studied using real-time PCR, and bacterial diversity was monitored by 16S rRNA gene PCR and denaturing gradient gel electrophoresis (DGGE). Results indicated that all types of contaminants (except the five ring benzo (α) pyrene) were totally degraded after 6 months and the increase in hydrocarbon degradation rate coincided with the enhancement of total heterotrophic bacterial count in each microcosm. Real-time PCR results showed a significant increase in the copy number of both alkB and C23DO genes in alkane- and PAHs-contaminated microcosm comparing with the control microcosm, indicating selection for special hydrocarbon degraders in hydrocarbon-amended microcosms. The results of DGGE revealed that the type of contaminant in the same soil has a remarkable influence on soil bacterial community structure. Sequencing of DGGE bands suggested that most of the dominant members of the microbial community of contaminated soil are unculturable bacteria from Proteobacteria and the genus Bacillus.
KeywordsBioremediation Biodegradation Polycyclic aromatic hydrocarbons Alkanes Microbial community structure
The authors are grateful to Mr. Hassan Tirandaz for his contribution in microbial count analysis. The authors would like to thank Mr Vahid Samimi and Hadi Ghanbarnejad for their assistance in GC and HPLC analysis.
This research was funded by National Iranian Offshore Oil Company (IOOC) under contract Number 1-90-4386.
Compliance with ethical standards
Conflict of interest
The authors declare that they have no conflict of interest.
Human participants and animal rights
This article does not contain any studies with human participants or animals performed by any of the authors.
- Bardgett, RD, De Vries FT, van der Putten WH (2017) Soil Biodiversity and ecosystem functioning. In: Microbial biomass: a paradigm shift in terrestrial biogeochemistry, pp. 119–140. Google Scholar
- Das S, Kuppanan N, Channashettar VA, Lal B (2018). Remediation of oily sludge-and oil-contaminated soil from petroleum industry: recent developments and future prospects. In: Advances in soil microbiology: recent trends and future prospects. Springer, Singapore.Google Scholar
- Dell’Anno A, Beolchini F, Rocchetti L, Luna GM, Danovaro R (2012) High bacterial biodiversity increases degradation performance of hydrocarbons during bioremediation of contaminated harbor marine sediments. Environ Pollut 167:85–92. https://doi.org/10.1016/j.envpol.2012.03.043 CrossRefGoogle Scholar
- Ivshina IB, Kuyukina MS, Krivoruchko AV (2017) Hydrocarbon-Oxidizing bacteria and their potential in eco-biotechnology and bioremediation. In: Microbial resources. Academic Press, Cambridge, MassachusettsGoogle Scholar
- Kirchman DL (2002) The ecology of Cytophaga–Flavobacteria in aquatic environments. FEMS Microbiol Ecol 39:91–100. https://doi.org/10.1111/j.1574-6941.2002.tb00910.x Google Scholar
- Kuppusamy S, Thavamani P, Venkateswarlu K, Lee YB, Naidu R, Megharaj M (2017) Remediation approaches for polycyclic aromatic hydrocarbons (PAHs) contaminated soils: technological constraints, emerging trends and future directions. Chemosphere 168:944–968. https://doi.org/10.1016/j.chemosphere.2016.10.115 CrossRefGoogle Scholar
- MacNaughton SJ, Stephen JR, Venosa AD, Davis GA, Chang YJ, White DC (1999) Microbial population changes during bioremediation of an experimental oil spill. Appl Environ Microbiol 65:3566–3574Google Scholar
- Muangchinda C, Chavanich S, Viyakarn V, Watanabe K, Imura S, Vangnai AS, Pinyakong O (2015) Abundance and diversity of functional genes involved in the degradation of aromatic hydrocarbons in Antarctic soils and sediments around Syowa Station. Environ Sci Pollut Res 22:4725–4735. https://doi.org/10.1007/s11356-014-3721-y CrossRefGoogle Scholar
- Muyzer G, De Waal EC, Uitterlinden AG (1993) Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl Environ Microbiol 59:695–700Google Scholar
- Ringelberg DB, Talley JW, Perkins EJ, Tucker SG, Luthy RG, Bouwer EJ, Fredrickson HL (2001) Succession of phenotypic, genotypic, and metabolic community characteristics during in vitro bioslurry treatment of polycyclic aromatic hydrocarbon-contaminated sediments. Appl Environ Microbiol 67:1542–1550. https://doi.org/10.1128/AEM.67.4.1542-1550.2001 CrossRefGoogle Scholar
- Robert K, Richard B, Samuel F (1997) Biodegradation of 14C benzo [a] pyrene added in crude oil to uncontaminated soil. Appl Environ Microbiol 63:4511–4515Google Scholar
- Roy AS, Baruah R, Borah M, Singh AK, Boruah HPD, Saikia N, Deka M, Dutta N, Bora TC (2014) Bioremediation potential of native hydrocarbon degrading bacterial strains in crude oil contaminated soil under microcosm study. Int Biodeterior Biodegradation 94:79–89. https://doi.org/10.1016/j.ibiod.2014.03.024 CrossRefGoogle Scholar
- Schulz S, Peréz-de-Mora A, Engel M, Munch JC, Schloter M (2010) A comparative study of most probable number (MPN)-PCR vs. real-time-PCR for the measurement of abundance and assessment of diversity of alkB homologous genes in soil. J Microbiol Methods 80:295–298. https://doi.org/10.1016/j.mimet.2010.01.005 CrossRefGoogle Scholar
- Sei K, Inoue D, Wada K, Mori K, Ike M, Kohno T, Fujita M (2004) Monitoring behaviour of catabolic genes and change of microbial community structures in seawater microcosms during aromatic compound degradation. Water Res 38:4405–4414. https://doi.org/10.1016/j.watres.2004.08.028 CrossRefGoogle Scholar
- Srivastava N, Gupta B, Gupta S, Danquah MK, Sarethy IP (2019) Analyzing Functional microbial diversity: an overview of techniques. In Microbial diversity in the genomic era. Academic Press, pp 79–102Google Scholar
- Sutton S (2010) The most probable number method and its uses in enumeration, qualification, and validation. J Valid Technol 16:35–38Google Scholar
- Vandecasteele JP (2008) Petroleum microbiology: concepts, environmental implications, industrial applications. Editions Technip, ParisGoogle Scholar
- Wu Y, Lai Q, Zhou Z, Qiao N, Liu C, Shao Z (2009) Alcanivorax hongdengensis sp. nov., an alkane-degrading bacterium isolated from surface seawater of the straits of Malacca and Singapore, producing a lipopeptide as its biosurfactant. Int J Syst Evol Microbiol 59:1474–1479. https://doi.org/10.1099/ijs.0.001552-0 CrossRefGoogle Scholar
- Zamani S, Ghasemnezhad A, Ebrahimi S, Fathi M (2018) Evaluation the growth potential of artichoke (Synara scolymus L.) and Milk thistle (Sylibum marianum L.) in petroleum-contaminated Soil. J Chem Health Risks 8:39–50Google Scholar