Gacesa, Ranko; Baranasic, Damir; Starcevic, Antonio; Diminic, Janko; Korlević, Marino; Najdek-Dragić, Mirjana; Blažina, Maria; Oršolić, Davor; Kolesarić, Domagoj; Long, Paul F.; Cullum, John; Hranueli, Daslav; Orlić, Sandi; Zucko, Jurica (2018) Bioprospecting for Genes Encoding Hydrocarbon-Degrading Enzymes from Metagenomic Samples Isolated from Northern Adriatic Sea Sediments. Food technology and biotechnology, 56 (2). pp. 270-277. ISSN 1330-9862
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Abstract
Three metagenomic libraries were constructed using surface sediment samples from the northern Adriatic Sea. Two of the samples were taken from a highly polluted and an unpolluted site respectively. The third sample from a polluted site had been enriched using crude oil. The results of the metagenome analyses were incorporated in the REDPET relational database (http://redpet.bioinfo.pbf.hr/REDPET), which was generated using the previously developed MEGGASENSE platform. The database includes taxonomic data to allow the assessment of the biodiversity of metagenomic libraries and a general functional analysis of genes using hidden Markov model (HMM) profiles based on the KEGG database. A set of 22 specialised HMM-profiles was developed to detect putative genes for hydrocarbon-degrading enzymes. Use of these profiles showed that the metagenomic library generated after selection on crude oil had enriched genes for aerobic n-alkane degradation. The use of this system for bioprospecting was exemplified using potential alkB and almA genes from this library.
| Item Type: | Article |
|---|---|
| Uncontrolled Keywords: | oil pollution ; n-alkane degradation, database |
| Subjects: | NATURAL SCIENCES > Biology |
| Divisions: | Center for Marine Research |
| Depositing User: | Mirjana Najdek Dragić |
| Date Deposited: | 31 Jul 2018 12:35 |
| URI: | http://fulir.irb.hr/id/eprint/4112 |
| DOI: | 10.17113/ftb.56.02.18.5393 |
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