Annals of Microbiology

, Volume 69, Issue 9, pp 945–955 | Cite as

Assessment of soil potential to natural attenuation and autochthonous bioaugmentation using microarray and functional predictions from metagenome profiling

  • Jakub CzarnyEmail author
  • Justyna Staninska-Pięta
  • Agnieszka Piotrowska-Cyplik
  • Łukasz Wolko
  • Krzysztof Staninski
  • Bartosz Hornik
  • Paweł Cyplik
Original Article



The use of autochthonous microorganisms for the bioaugmentation of areas contaminated with hydrocarbons has a high potential to overcome the limitations associated with the difficulty of allochthonous microorganisms to adapt. The prediction of bioremediation effects of autochthonous bioaugmentation can be improved by employing the rapid methods of the direct detection of genes crucial to the hydrocarbon biodegradation. This study aimed to evaluate the potential of microflora originating from soils with different levels of anthropogenization for application in autochthonous bioaugmentation by using microarray and functional predictions from metagenome profiling.


Analyses based on the modern techniques of molecular biology—DNA microarrays and next-generation sequencing—coupled with the functional predictions of metagenome profiling.


Studies indicated that the metapopulations of all analyzed stations possess the ability to biodegrade petroleum hydrocarbons. It was established that the long-term supply of hydrocarbons in the areas characterized by strong anthropogenization resulted in increasing the biological decomposition of aromatic and polycyclic aromatic compounds. In contrast, areas with a low level of anthropogenization were characterized by a higher potential to decompose aliphatic hydrocarbons. Although alpha-biodiversity decreased when the consortia was isolated and cultivated under laboratory conditions with hydrocarbons as the sole carbon source, microbial communities with genetic biodegradation potential increased, which was confirmed by the analysis involving the loss of selected hydrocarbon fractions in aqueous systems.


The presented studies indicated the vast potential for the application of isolated autochthonous microflora on soils permanently contaminated with hydrocarbons. The prediction of bioremediation effects may be improved by employing the rapid method of the direct detection of genes crucial to the biological decomposition of hydrocarbons, with DNA microarrays developed in the framework of this study.


Autochthonous bioaugmentation Microarray Hydrocarbon biodegradation Biodiversity 



This study was funded by the National Science Centre in Poland in the years 2014–2018 with the research project Opus no. 2013/11/B/NZ9/01908.

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Human and animal rights and informed consent

This research does not involve human participants and/or animals; therefore, no informed consent is needed.

Supplementary material

13213_2019_1486_MOESM1_ESM.docx (363 kb)
ESM 1 (DOCX 363 kb)
13213_2019_1486_MOESM2_ESM.pdf (200 kb)
ESM 2 (PDF 199 kb)
13213_2019_1486_MOESM3_ESM.pdf (198 kb)
ESM 3 (PDF 198 kb)


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Copyright information

© Università degli studi di Milano 2019

Authors and Affiliations

  1. 1.Institute of Forensic GeneticsBydgoszczPoland
  2. 2.Institute of Food Technology of Plant OriginPoznan University of Life SciencesPoznanPoland
  3. 3.Department of Biochemistry and BiotechnologyPoznan University of Life SciencesPoznanPoland
  4. 4.Department of Rare Earths, Faculty of ChemistryAdam Mickiewicz UniversityPoznanPoland
  5. 5.Department Biotechnology and Food MicrobiologyPoznan University of Life SciencesPoznanPoland

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