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Interactive analysis of biosurfactants in fruit-waste fermentation samples using BioSurfDB and MEGAN

Agroindustrial waste, such as fruit residues, are a renewable, abundant, low-cost, commonly-used carbon source. Biosurfactants are molecules of increasing interest due to their multifunctional properties, biodegradable nature and low toxicity, in comparison to synthetic surfactants. A better underst...

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Autores principales: Silva, Gabriela Fiori da, Gautam, Anupam, Duarte, Iolanda Cristina Silveira, Delforno, Tiago Palladino, Oliveira, Valéria Maia de, Huson, Daniel H.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9095615/
https://www.ncbi.nlm.nih.gov/pubmed/35546170
http://dx.doi.org/10.1038/s41598-022-11753-0
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author Silva, Gabriela Fiori da
Gautam, Anupam
Duarte, Iolanda Cristina Silveira
Delforno, Tiago Palladino
Oliveira, Valéria Maia de
Huson, Daniel H.
author_facet Silva, Gabriela Fiori da
Gautam, Anupam
Duarte, Iolanda Cristina Silveira
Delforno, Tiago Palladino
Oliveira, Valéria Maia de
Huson, Daniel H.
author_sort Silva, Gabriela Fiori da
collection PubMed
description Agroindustrial waste, such as fruit residues, are a renewable, abundant, low-cost, commonly-used carbon source. Biosurfactants are molecules of increasing interest due to their multifunctional properties, biodegradable nature and low toxicity, in comparison to synthetic surfactants. A better understanding of the associated microbial communities will aid prospecting for biosurfactant-producing microorganisms. In this study, six samples of fruit waste, from oranges, mangoes and mixed fruits, were subjected to autochthonous fermentation, so as to promote the growth of their associated microbiota, followed by short-read metagenomic sequencing. Using the DIAMOND+MEGAN analysis pipeline, taxonomic analysis shows that all six samples are dominated by Proteobacteria, in particular, a common core consisting of the genera Klebsiella, Enterobacter, Stenotrophomonas, Acinetobacter and Escherichia. Functional analysis indicates high similarity among samples and a significant number of reads map to genes that are involved in the biosynthesis of lipopeptide-class biosurfactants. Gene-centric analysis reveals Klebsiella as the main assignment for genes related to putisolvins biosynthesis. To simplify the interactive visualization and exploration of the surfactant-related genes in such samples, we have integrated the BiosurfDB classification into MEGAN and make this available. These results indicate that microbiota obtained from autochthonous fermentation have the genetic potential for biosynthesis of biosurfactants, suggesting that fruit wastes may provide a source of biosurfactant-producing microorganisms, with applications in the agricultural, chemical, food and pharmaceutical industries.
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spelling pubmed-90956152022-05-13 Interactive analysis of biosurfactants in fruit-waste fermentation samples using BioSurfDB and MEGAN Silva, Gabriela Fiori da Gautam, Anupam Duarte, Iolanda Cristina Silveira Delforno, Tiago Palladino Oliveira, Valéria Maia de Huson, Daniel H. Sci Rep Article Agroindustrial waste, such as fruit residues, are a renewable, abundant, low-cost, commonly-used carbon source. Biosurfactants are molecules of increasing interest due to their multifunctional properties, biodegradable nature and low toxicity, in comparison to synthetic surfactants. A better understanding of the associated microbial communities will aid prospecting for biosurfactant-producing microorganisms. In this study, six samples of fruit waste, from oranges, mangoes and mixed fruits, were subjected to autochthonous fermentation, so as to promote the growth of their associated microbiota, followed by short-read metagenomic sequencing. Using the DIAMOND+MEGAN analysis pipeline, taxonomic analysis shows that all six samples are dominated by Proteobacteria, in particular, a common core consisting of the genera Klebsiella, Enterobacter, Stenotrophomonas, Acinetobacter and Escherichia. Functional analysis indicates high similarity among samples and a significant number of reads map to genes that are involved in the biosynthesis of lipopeptide-class biosurfactants. Gene-centric analysis reveals Klebsiella as the main assignment for genes related to putisolvins biosynthesis. To simplify the interactive visualization and exploration of the surfactant-related genes in such samples, we have integrated the BiosurfDB classification into MEGAN and make this available. These results indicate that microbiota obtained from autochthonous fermentation have the genetic potential for biosynthesis of biosurfactants, suggesting that fruit wastes may provide a source of biosurfactant-producing microorganisms, with applications in the agricultural, chemical, food and pharmaceutical industries. Nature Publishing Group UK 2022-05-11 /pmc/articles/PMC9095615/ /pubmed/35546170 http://dx.doi.org/10.1038/s41598-022-11753-0 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Silva, Gabriela Fiori da
Gautam, Anupam
Duarte, Iolanda Cristina Silveira
Delforno, Tiago Palladino
Oliveira, Valéria Maia de
Huson, Daniel H.
Interactive analysis of biosurfactants in fruit-waste fermentation samples using BioSurfDB and MEGAN
title Interactive analysis of biosurfactants in fruit-waste fermentation samples using BioSurfDB and MEGAN
title_full Interactive analysis of biosurfactants in fruit-waste fermentation samples using BioSurfDB and MEGAN
title_fullStr Interactive analysis of biosurfactants in fruit-waste fermentation samples using BioSurfDB and MEGAN
title_full_unstemmed Interactive analysis of biosurfactants in fruit-waste fermentation samples using BioSurfDB and MEGAN
title_short Interactive analysis of biosurfactants in fruit-waste fermentation samples using BioSurfDB and MEGAN
title_sort interactive analysis of biosurfactants in fruit-waste fermentation samples using biosurfdb and megan
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9095615/
https://www.ncbi.nlm.nih.gov/pubmed/35546170
http://dx.doi.org/10.1038/s41598-022-11753-0
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