title: Pyrosequencing reveals the effect of mobilizing agents and lignocellulosic substrate amendment on microbial community composition in a real industrial PAH-polluted soil.
abstract: Bacterial and fungal biodiversity throughout different biostimulation and bioaugmentation treatments applied to an industrial creosote-polluted soil were analyzed by means of polyphasic approach in order to gain insight into the microbial community structure and dynamics. Pyrosequencing data obtained from initial creosote polluted soil (after a biopiling step) revealed that Alpha and Gammaproteobacteria were the most abundant bacterial groups, whereas Fusarium and Scedosporium were the main fungal genera in the contaminated soil. At the end of 60-days laboratory scale bioremediation assays, pyrosequencing and DGGE data showed that (i) major bacterial community shifts were caused by the type of mobilizing agent added to the soil and, to a lesser extent, by the addition of lignocellulosic substrate; and (ii) the presence of the non-ionic surfactant (Brij 30) hampered the proliferation of Actinobacteria (Mycobacteriaceae) and Bacteroidetes (Chitinophagaceae) and, in the absence of lignocellulosic substrate, also impeded polycyclic aromatic hydrocarbons (PAHs) degradation. The results show the importance of implementing bioremediation experiments combined with microbiome assessment to gain insight on the effect of crucial parameters (e.g. use of additives) over the potential functions of complex microbial communities harbored in polluted soils, essential for bioremediation success.
authors.affiliation: Department of Microbiology, University of Barcelona, Diagonal 645, E-08028 Barcelona, Spain; Institute of Microbiology, Academy of Sciences of the Czech Republic, Vídenská 1083, 142 20 Prague 4, Czech Republic. Electronic address: llado@biomed.cas.cz.
authors.forename: S
authors.initials: S
authors.lastname: Lladó
authors.affiliation: Institute of Microbiology, Academy of Sciences of the Czech Republic, Vídenská 1083, 142 20 Prague 4, Czech Republic. Electronic address: covino@biomed.cas.cz.
authors.forename: S
authors.initials: S
authors.lastname: Covino
authors.affiliation: Department of Microbiology, University of Barcelona, Diagonal 645, E-08028 Barcelona, Spain. Electronic address: asolanas@ub.edu.
authors.forename: A M
authors.initials: AM
authors.lastname: Solanas
authors.affiliation: Department for Innovation in Biological, Agro-Food and Forest Systems [DIBAF], University of Tuscia, Via S. Camillo de Lellis snc, 01100 Viterbo, Italy. Electronic address: petrucci@unitus.it.
authors.forename: M
authors.initials: M
authors.lastname: Petruccioli
authors.affiliation: Department for Innovation in Biological, Agro-Food and Forest Systems [DIBAF], University of Tuscia, Via S. Camillo de Lellis snc, 01100 Viterbo, Italy. Electronic address: dannib@unitus.it.
authors.forename: A
authors.initials: A
authors.lastname: D'annibale
authors.affiliation: GIRO Joint Research Unit IRTA-UPC, Institute of Research and Technology Food and Agriculture [IRTA], Torre Marimon, E-08140 Caldes de Montbui, Spain. Electronic address: marc.vinas@irta.cat.
authors.forename: M
authors.initials: M
authors.lastname: Viñas
mesh_terms: D001419:Bacteria / Q000145:classification; D001673:Biodegradation, Environmental; D044822:Biodiversity; D003407:Creosote / Q000032:analysis*; D021903:DNA, Ribosomal Spacer / Q000235:genetics; D058645:Denaturing Gradient Gel Electrophoresis; D005658:Fungi / Q000145:classification; D007221:Industry; D011084:Polycyclic Aromatic Hydrocarbons / Q000032:analysis*; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D017422:Sequence Analysis, DNA; D012987:Soil / Q000737:chemistry; D012988:Soil Microbiology; D012989:Soil Pollutants / Q000032:analysis*; D013501:Surface-Active Agents / Q000737:chemistry
chemical_list: D021903:DNA, Ribosomal Spacer; D011084:Polycyclic Aromatic Hydrocarbons; D012336:RNA, Ribosomal, 16S; D012987:Soil; D012989:Soil Pollutants; D013501:Surface-Active Agents; D003407:Creosote
keywords: Creosote; HMW–PAH; Next generation sequencing (NGS); Non-ionic surfactant; Soil bioremediation; White rot fungi (WRF)