Prospecting biotechnologically-relevant monooxygenases from cold sediment metagenomes: An in silico approach
Source at https://doi.org/10.3390/md15040114 . The goal of this work was to identify sequences encoding monooxygenase biocatalysts with novel features by in silico mining an assembled metagenomic dataset of polar and subpolar marine sediments. The targeted enzyme sequences were Baeyer–Villiger and b...
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Online Access: | https://hdl.handle.net/10037/12700 https://doi.org/10.3390/md15040114 |
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ftunivtroemsoe:oai:munin.uit.no:10037/12700 2023-05-15T14:26:58+02:00 Prospecting biotechnologically-relevant monooxygenases from cold sediment metagenomes: An in silico approach Musumeci, Matias A. Lozada, Mariana Rial, Daniela V. Cormack, Walter P. Mac Jansson, Janet K. Sjöling, Sara Carroll, JoLynn Dionisi, Hebe M. 2017-04-09 https://hdl.handle.net/10037/12700 https://doi.org/10.3390/md15040114 eng eng MDPI Marine Drugs info:eu-repo/grantAgreement/RCN/PETROSENTR/228107/Norway/Research Centre for Arctic Petroleum Exploration-ARCEx// Musumeci, M.A., Lozada, M., Rial, D.V., Mac Cormack, W. P., Jansson J.K., Sjöling, S., … Dionisi, H.M. (2017). Prospecting biotechnologically- relevant monooxygenases from cold sediment metagenomes: An in silico approach. Marine Drugs, 15(4), 1-19. https://doi.org/10.3390/md15040114 FRIDAID 1489684 doi:10.3390/md15040114 1660-3397 https://hdl.handle.net/10037/12700 openAccess VDP::Matematikk og Naturvitenskap: 400::Geofag: 450::Sedimentologi: 456 VDP::Matematikk og Naturvitenskap: 400::Zoologiske og botaniske fag: 480::Marinbiologi: 497 VDP::Mathematics and natural science: 400::Zoology and botany: 480::Marine biology: 497 Bacterial cytochrome P450 Baeyer–Villiger monooxygenases Bioprospecting biocatalysts Phylogenetic analysis Molecular modeling Journal article Tidsskriftartikkel Peer reviewed 2017 ftunivtroemsoe https://doi.org/10.3390/md15040114 2021-06-25T17:55:41Z Source at https://doi.org/10.3390/md15040114 . The goal of this work was to identify sequences encoding monooxygenase biocatalysts with novel features by in silico mining an assembled metagenomic dataset of polar and subpolar marine sediments. The targeted enzyme sequences were Baeyer–Villiger and bacterial cytochrome P450 monooxygenases (CYP153). These enzymes have wide-ranging applications, from the synthesis of steroids, antibiotics, mycotoxins and pheromones to the synthesis of monomers for polymerization and anticancer precursors, due to their extraordinary enantio-, regio-, and chemo- selectivity that are valuable features for organic synthesis. Phylogenetic analyses were used to select the most divergent sequences affiliated to these enzyme families among the 264 putative monooxygenases recovered from the ~14 million protein-coding sequences in the assembled metagenome dataset. Three-dimensional structure modeling and docking analysis suggested features useful in biotechnological applications in five metagenomic sequences, such as wide substrate range, novel substrate specificity or regioselectivity. Further analysis revealed structural features associated with psychrophilic enzymes, such as broader substrate accessibility, larger catalytic pockets or low domain interactions, suggesting that they could be applied in biooxidations at room or low temperatures, saving costs inherent to energy consumption. This work allowed the identification of putative enzyme candidates with promising features from metagenomes, providing a suitable starting point for further developments. Article in Journal/Newspaper Arctic University of Tromsø: Munin Open Research Archive Marine Drugs 15 4 114 |
institution |
Open Polar |
collection |
University of Tromsø: Munin Open Research Archive |
op_collection_id |
ftunivtroemsoe |
language |
English |
topic |
VDP::Matematikk og Naturvitenskap: 400::Geofag: 450::Sedimentologi: 456 VDP::Matematikk og Naturvitenskap: 400::Zoologiske og botaniske fag: 480::Marinbiologi: 497 VDP::Mathematics and natural science: 400::Zoology and botany: 480::Marine biology: 497 Bacterial cytochrome P450 Baeyer–Villiger monooxygenases Bioprospecting biocatalysts Phylogenetic analysis Molecular modeling |
spellingShingle |
VDP::Matematikk og Naturvitenskap: 400::Geofag: 450::Sedimentologi: 456 VDP::Matematikk og Naturvitenskap: 400::Zoologiske og botaniske fag: 480::Marinbiologi: 497 VDP::Mathematics and natural science: 400::Zoology and botany: 480::Marine biology: 497 Bacterial cytochrome P450 Baeyer–Villiger monooxygenases Bioprospecting biocatalysts Phylogenetic analysis Molecular modeling Musumeci, Matias A. Lozada, Mariana Rial, Daniela V. Cormack, Walter P. Mac Jansson, Janet K. Sjöling, Sara Carroll, JoLynn Dionisi, Hebe M. Prospecting biotechnologically-relevant monooxygenases from cold sediment metagenomes: An in silico approach |
topic_facet |
VDP::Matematikk og Naturvitenskap: 400::Geofag: 450::Sedimentologi: 456 VDP::Matematikk og Naturvitenskap: 400::Zoologiske og botaniske fag: 480::Marinbiologi: 497 VDP::Mathematics and natural science: 400::Zoology and botany: 480::Marine biology: 497 Bacterial cytochrome P450 Baeyer–Villiger monooxygenases Bioprospecting biocatalysts Phylogenetic analysis Molecular modeling |
description |
Source at https://doi.org/10.3390/md15040114 . The goal of this work was to identify sequences encoding monooxygenase biocatalysts with novel features by in silico mining an assembled metagenomic dataset of polar and subpolar marine sediments. The targeted enzyme sequences were Baeyer–Villiger and bacterial cytochrome P450 monooxygenases (CYP153). These enzymes have wide-ranging applications, from the synthesis of steroids, antibiotics, mycotoxins and pheromones to the synthesis of monomers for polymerization and anticancer precursors, due to their extraordinary enantio-, regio-, and chemo- selectivity that are valuable features for organic synthesis. Phylogenetic analyses were used to select the most divergent sequences affiliated to these enzyme families among the 264 putative monooxygenases recovered from the ~14 million protein-coding sequences in the assembled metagenome dataset. Three-dimensional structure modeling and docking analysis suggested features useful in biotechnological applications in five metagenomic sequences, such as wide substrate range, novel substrate specificity or regioselectivity. Further analysis revealed structural features associated with psychrophilic enzymes, such as broader substrate accessibility, larger catalytic pockets or low domain interactions, suggesting that they could be applied in biooxidations at room or low temperatures, saving costs inherent to energy consumption. This work allowed the identification of putative enzyme candidates with promising features from metagenomes, providing a suitable starting point for further developments. |
format |
Article in Journal/Newspaper |
author |
Musumeci, Matias A. Lozada, Mariana Rial, Daniela V. Cormack, Walter P. Mac Jansson, Janet K. Sjöling, Sara Carroll, JoLynn Dionisi, Hebe M. |
author_facet |
Musumeci, Matias A. Lozada, Mariana Rial, Daniela V. Cormack, Walter P. Mac Jansson, Janet K. Sjöling, Sara Carroll, JoLynn Dionisi, Hebe M. |
author_sort |
Musumeci, Matias A. |
title |
Prospecting biotechnologically-relevant monooxygenases from cold sediment metagenomes: An in silico approach |
title_short |
Prospecting biotechnologically-relevant monooxygenases from cold sediment metagenomes: An in silico approach |
title_full |
Prospecting biotechnologically-relevant monooxygenases from cold sediment metagenomes: An in silico approach |
title_fullStr |
Prospecting biotechnologically-relevant monooxygenases from cold sediment metagenomes: An in silico approach |
title_full_unstemmed |
Prospecting biotechnologically-relevant monooxygenases from cold sediment metagenomes: An in silico approach |
title_sort |
prospecting biotechnologically-relevant monooxygenases from cold sediment metagenomes: an in silico approach |
publisher |
MDPI |
publishDate |
2017 |
url |
https://hdl.handle.net/10037/12700 https://doi.org/10.3390/md15040114 |
genre |
Arctic |
genre_facet |
Arctic |
op_relation |
Marine Drugs info:eu-repo/grantAgreement/RCN/PETROSENTR/228107/Norway/Research Centre for Arctic Petroleum Exploration-ARCEx// Musumeci, M.A., Lozada, M., Rial, D.V., Mac Cormack, W. P., Jansson J.K., Sjöling, S., … Dionisi, H.M. (2017). Prospecting biotechnologically- relevant monooxygenases from cold sediment metagenomes: An in silico approach. Marine Drugs, 15(4), 1-19. https://doi.org/10.3390/md15040114 FRIDAID 1489684 doi:10.3390/md15040114 1660-3397 https://hdl.handle.net/10037/12700 |
op_rights |
openAccess |
op_doi |
https://doi.org/10.3390/md15040114 |
container_title |
Marine Drugs |
container_volume |
15 |
container_issue |
4 |
container_start_page |
114 |
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1766300516079370240 |