title: The sequence capture by hybridization: a new approach for revealing the potential of mono-aromatic hydrocarbons bioattenuation in a deep oligotrophic aquifer.
abstract: The formation water of a deep aquifer (853 m of depth) used for geological storage of natural gas was sampled to assess the mono-aromatic hydrocarbons attenuation potential of the indigenous microbiota. The study of bacterial diversity suggests that Firmicutes and, in particular, sulphate-reducing bacteria (Peptococcaceae) predominate in this microbial community. The capacity of the microbial community to biodegrade toluene and m- and p-xylenes was demonstrated using a culture-based approach after several hundred days of incubation. In order to reveal the potential for biodegradation of these compounds within a shorter time frame, an innovative approach named the solution hybrid selection method, which combines sequence capture by hybridization and next-generation sequencing, was applied to the same original water sample. The bssA and bssA-like genes were investigated as they are considered good biomarkers for the potential of toluene and xylene biodegradation. Unlike a PCR approach which failed to detect these genes directly from formation water, this innovative strategy demonstrated the presence of the bssA and bssA-like genes in this oligotrophic ecosystem, probably harboured by Peptococcaceae. The sequence capture by hybridization shows significant potential to reveal the presence of genes of functional interest which have low-level representation in the biosphere.
authors.affiliation: Université de Pau et des Pays de l'Adour, Equipe Environnement et Microbiologie, IPREM-CNRS 5254, F-64013, Pau, France.
authors.forename: Magali
authors.initials: M
authors.lastname: Ranchou-Peyruse
authors.affiliation: Université d'Auvergne, EA 4678 CIDAM, 63001, Clermont-Ferrand, France.
authors.forename: Cyrielle
authors.initials: C
authors.lastname: Gasc
authors.affiliation: Université de Pau et des Pays de l'Adour, Equipe Environnement et Microbiologie, IPREM-CNRS 5254, F-64013, Pau, France.
authors.forename: Marion
authors.initials: M
authors.lastname: Guignard
authors.affiliation: TIGF - Transport et Infrastructures Gaz France, 40 Avenue de l'Europe, CS20522, 64000, Pau, France.
authors.forename: Thomas
authors.initials: T
authors.lastname: Aüllo
authors.affiliation: STORENGY - Geosciences Department, Bois-Colombes, France.
authors.forename: David
authors.initials: D
authors.lastname: Dequidt
authors.affiliation: Université d'Auvergne, EA 4678 CIDAM, 63001, Clermont-Ferrand, France.
authors.forename: Pierre
authors.initials: P
authors.lastname: Peyret
authors.affiliation: Université de Pau et des Pays de l'Adour, Equipe Environnement et Microbiologie, IPREM-CNRS 5254, F-64013, Pau, France.
authors.forename: Anthony
authors.initials: A
authors.lastname: Ranchou-Peyruse
mesh_terms: D058448:Biota; D001711:Biotransformation; D060587:Groundwater / Q000382:microbiology*; D059014:High-Throughput Nucleotide Sequencing; D006841:Hydrocarbons, Aromatic / Q000378:metabolism*; D056186:Metagenomics / Q000379:methods*; D009693:Nucleic Acid Hybridization; D010459:Peptococcaceae / Q000235:genetics / Q000302:isolation & purification* / Q000378:metabolism*; D017422:Sequence Analysis, DNA
chemical_list: D006841:Hydrocarbons, Aromatic