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Scientific paper - Original scientific paper
From DNA sequences to chemical structures – methods for mining microbial genomic and metagenomic data sets for new natural products
Food Technology and Biotechnology, 48 (2010), 2; 234-242. urn:nbn:hr:159:385570
Žučko, Jurica; Starčević, Antonio; Diminić, Janko; Elbekali, Mouhsine; Lisfi, Mohamed; Long, Paul F.; Cullum, John; Hranueli, Daslav

Institutional repository: Repository of the Faculty of Food Technology and Biotechnology

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Žučko, J., Starčević, A., Diminić, J., Elbekali, M., Lisfi, M., Long, P. F. ... Hranueli, D.. From DNA sequences to chemical structures – methods for mining microbial genomic and metagenomic data sets for new natural products. Food Technology and Biotechnology, 48. (2), 234-242. Retrieved from https://urn.nsk.hr/urn:nbn:hr:159:385570

Žučko, Jurica, et al. "From DNA sequences to chemical structures – methods for mining microbial genomic and metagenomic data sets for new natural products." Food Technology and Biotechnology, vol. 48, no. 2, pp. 234-242. https://urn.nsk.hr/urn:nbn:hr:159:385570

Žučko, Jurica, Antonio Starčević, Janko Diminić, Mouhsine Elbekali, Mohamed Lisfi, Paul F. Long, John Cullum and Daslav Hranueli. "From DNA sequences to chemical structures – methods for mining microbial genomic and metagenomic data sets for new natural products." Food Technology and Biotechnology 48, no. 2 234-242. https://urn.nsk.hr/urn:nbn:hr:159:385570

Žučko, J., et al. 'From DNA sequences to chemical structures – methods for mining microbial genomic and metagenomic data sets for new natural products', Food Technology and Biotechnology, 48(2), pp. 234-242. Available at: https://urn.nsk.hr/urn:nbn:hr:159:385570 (Accessed 24 December 2024)

Žučko J, Starčević A, Diminić J, Elbekali M, Lisfi M, Long PF, and sur.. From DNA sequences to chemical structures – methods for mining microbial genomic and metagenomic data sets for new natural products. Food Technology and Biotechnology [Internet]. [cited 2024 December 24];48(2):234-242. Available at: https://urn.nsk.hr/urn:nbn:hr:159:385570

J. Žučko, et al., "From DNA sequences to chemical structures – methods for mining microbial genomic and metagenomic data sets for new natural products", Food Technology and Biotechnology, vol. 48, no. 2, pp. 234-242. [Online]. Available at: https://urn.nsk.hr/urn:nbn:hr:159:385570. [Accessed: 24 December 2024]

Metadata
Title (english)From DNA sequences to chemical structures – methods for mining microbial genomic and metagenomic data sets for new natural products
AuthorJurica Žučko
AuthorAntonio Starčević
AuthorJanko Diminić
AuthorMouhsine Elbekali
AuthorMohamed Lisfi
AuthorPaul F. Long
AuthorJohn Cullum
AuthorDaslav Hranueli
Author's institutionUniversity of Zagreb
Faculty of Food Technology and Biotechnology
Scientific / art field,
discipline and subdiscipline		BIOTECHNICAL SCIENCES
Biotechnology
Abstract (english)
Rapid mining of large genomic and metagenomic data sets for modular polyketide synthases, non-ribosomal peptide synthetases and hybrid polyketide synthase/non-ribosomal peptide synthetase biosynthetic gene clusters has been achieved using the generic computer program packages ClustScan and CompGen. These program packages perform the annotation with the hierarchical structuring into polypeptides, modules and domains, as well as storage and graphical presentations of the data. This aims to achieve the most accurate predictions of the activities and specificities of catalytically active domains that can be made with present knowledge, leading to a prediction of the most likely chemical structures produced by these enzymes. The program packages also allow generation of novel clusters by homologous recombination of the annotated genes in silico. ClustScan and CompGen were used to construct a custom database of known compounds (CSDB) and of predicted entirely novel recombinant products (r-CSDB) that can be used for in silico screening with computer-aided drug design technology. The use of these programs has been exemplified by analysing genomic sequences from terrestrial prokaryotes and eukaryotic microorganisms, a marine metagenomic data set and a newly discovered example of a 'shared metabolic pathway' in marine-microbial endosymbiosis.
Keywords (english)
Languageenglish
Publication typeScientific paper - Original scientific paper
Publication statusPublished
Peer reviewPeer review
Publication versionPublished version
Journal titleFood Technology and Biotechnology
Numberingvol. 48, no. 2, pp. 234-242
p-ISSN1330-9862
e-ISSN1334-2606
URN:NBNurn:nbn:hr:159:385570
Accepted2010-01-26
Type of resourceText
Access conditionsOpen access
Terms of useLicence Attribution-NoDerivatives 4.0 International (CC BY-ND 4.0) icon
Created on2019-02-22 08:09:39