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Comparative transcriptome analysis reveals different strategies for degradation of steam-exploded sugarcane bagasse by Aspergillus niger and Trichoderma reesei

BACKGROUND: Second generation (2G) ethanol is produced by breaking down lignocellulosic biomass into fermentable sugars. In Brazil, sugarcane bagasse has been proposed as the lignocellulosic residue for this biofuel production. The enzymatic cocktails for the degradation of biomass-derived polysacch...

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Autores principales: Borin, Gustavo Pagotto, Sanchez, Camila Cristina, de Santana, Eliane Silva, Zanini, Guilherme Keppe, dos Santos, Renato Augusto Corrêa, de Oliveira Pontes, Angélica, de Souza, Aline Tieppo, Dal’Mas, Roberta Maria Menegaldo Tavares Soares, Riaño-Pachón, Diego Mauricio, Goldman, Gustavo Henrique, Oliveira, Juliana Velasco de Castro
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5493111/
https://www.ncbi.nlm.nih.gov/pubmed/28666414
http://dx.doi.org/10.1186/s12864-017-3857-5
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author Borin, Gustavo Pagotto
Sanchez, Camila Cristina
de Santana, Eliane Silva
Zanini, Guilherme Keppe
dos Santos, Renato Augusto Corrêa
de Oliveira Pontes, Angélica
de Souza, Aline Tieppo
Dal’Mas, Roberta Maria Menegaldo Tavares Soares
Riaño-Pachón, Diego Mauricio
Goldman, Gustavo Henrique
Oliveira, Juliana Velasco de Castro
author_facet Borin, Gustavo Pagotto
Sanchez, Camila Cristina
de Santana, Eliane Silva
Zanini, Guilherme Keppe
dos Santos, Renato Augusto Corrêa
de Oliveira Pontes, Angélica
de Souza, Aline Tieppo
Dal’Mas, Roberta Maria Menegaldo Tavares Soares
Riaño-Pachón, Diego Mauricio
Goldman, Gustavo Henrique
Oliveira, Juliana Velasco de Castro
author_sort Borin, Gustavo Pagotto
collection PubMed
description BACKGROUND: Second generation (2G) ethanol is produced by breaking down lignocellulosic biomass into fermentable sugars. In Brazil, sugarcane bagasse has been proposed as the lignocellulosic residue for this biofuel production. The enzymatic cocktails for the degradation of biomass-derived polysaccharides are mostly produced by fungi, such as Aspergillus niger and Trichoderma reesei. However, it is not yet fully understood how these microorganisms degrade plant biomass. In order to identify transcriptomic changes during steam-exploded bagasse (SEB) breakdown, we conducted a RNA-seq comparative transcriptome profiling of both fungi growing on SEB as carbon source. RESULTS: Particular attention was focused on CAZymes, sugar transporters, transcription factors (TFs) and other proteins related to lignocellulose degradation. Although genes coding for the main enzymes involved in biomass deconstruction were expressed by both fungal strains since the beginning of the growth in SEB, significant differences were found in their expression profiles. The expression of these enzymes is mainly regulated at the transcription level, and A. niger and T. reesei also showed differences in TFs content and in their expression. Several sugar transporters that were induced in both fungal strains could be new players on biomass degradation besides their role in sugar uptake. Interestingly, our findings revealed that in both strains several genes that code for proteins of unknown function and pro-oxidant, antioxidant, and detoxification enzymes were induced during growth in SEB as carbon source, but their specific roles on lignocellulose degradation remain to be elucidated. CONCLUSIONS: This is the first report of a time-course experiment monitoring the degradation of pretreated bagasse by two important fungi using the RNA-seq technology. It was possible to identify a set of genes that might be applied in several biotechnology fields. The data suggest that these two microorganisms employ different strategies for biomass breakdown. This knowledge can be exploited for the rational design of enzymatic cocktails and 2G ethanol production improvement. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-017-3857-5) contains supplementary material, which is available to authorized users.
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spelling pubmed-54931112017-07-05 Comparative transcriptome analysis reveals different strategies for degradation of steam-exploded sugarcane bagasse by Aspergillus niger and Trichoderma reesei Borin, Gustavo Pagotto Sanchez, Camila Cristina de Santana, Eliane Silva Zanini, Guilherme Keppe dos Santos, Renato Augusto Corrêa de Oliveira Pontes, Angélica de Souza, Aline Tieppo Dal’Mas, Roberta Maria Menegaldo Tavares Soares Riaño-Pachón, Diego Mauricio Goldman, Gustavo Henrique Oliveira, Juliana Velasco de Castro BMC Genomics Research Article BACKGROUND: Second generation (2G) ethanol is produced by breaking down lignocellulosic biomass into fermentable sugars. In Brazil, sugarcane bagasse has been proposed as the lignocellulosic residue for this biofuel production. The enzymatic cocktails for the degradation of biomass-derived polysaccharides are mostly produced by fungi, such as Aspergillus niger and Trichoderma reesei. However, it is not yet fully understood how these microorganisms degrade plant biomass. In order to identify transcriptomic changes during steam-exploded bagasse (SEB) breakdown, we conducted a RNA-seq comparative transcriptome profiling of both fungi growing on SEB as carbon source. RESULTS: Particular attention was focused on CAZymes, sugar transporters, transcription factors (TFs) and other proteins related to lignocellulose degradation. Although genes coding for the main enzymes involved in biomass deconstruction were expressed by both fungal strains since the beginning of the growth in SEB, significant differences were found in their expression profiles. The expression of these enzymes is mainly regulated at the transcription level, and A. niger and T. reesei also showed differences in TFs content and in their expression. Several sugar transporters that were induced in both fungal strains could be new players on biomass degradation besides their role in sugar uptake. Interestingly, our findings revealed that in both strains several genes that code for proteins of unknown function and pro-oxidant, antioxidant, and detoxification enzymes were induced during growth in SEB as carbon source, but their specific roles on lignocellulose degradation remain to be elucidated. CONCLUSIONS: This is the first report of a time-course experiment monitoring the degradation of pretreated bagasse by two important fungi using the RNA-seq technology. It was possible to identify a set of genes that might be applied in several biotechnology fields. The data suggest that these two microorganisms employ different strategies for biomass breakdown. This knowledge can be exploited for the rational design of enzymatic cocktails and 2G ethanol production improvement. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-017-3857-5) contains supplementary material, which is available to authorized users. BioMed Central 2017-06-30 /pmc/articles/PMC5493111/ /pubmed/28666414 http://dx.doi.org/10.1186/s12864-017-3857-5 Text en © The Author(s). 2017 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Research Article
Borin, Gustavo Pagotto
Sanchez, Camila Cristina
de Santana, Eliane Silva
Zanini, Guilherme Keppe
dos Santos, Renato Augusto Corrêa
de Oliveira Pontes, Angélica
de Souza, Aline Tieppo
Dal’Mas, Roberta Maria Menegaldo Tavares Soares
Riaño-Pachón, Diego Mauricio
Goldman, Gustavo Henrique
Oliveira, Juliana Velasco de Castro
Comparative transcriptome analysis reveals different strategies for degradation of steam-exploded sugarcane bagasse by Aspergillus niger and Trichoderma reesei
title Comparative transcriptome analysis reveals different strategies for degradation of steam-exploded sugarcane bagasse by Aspergillus niger and Trichoderma reesei
title_full Comparative transcriptome analysis reveals different strategies for degradation of steam-exploded sugarcane bagasse by Aspergillus niger and Trichoderma reesei
title_fullStr Comparative transcriptome analysis reveals different strategies for degradation of steam-exploded sugarcane bagasse by Aspergillus niger and Trichoderma reesei
title_full_unstemmed Comparative transcriptome analysis reveals different strategies for degradation of steam-exploded sugarcane bagasse by Aspergillus niger and Trichoderma reesei
title_short Comparative transcriptome analysis reveals different strategies for degradation of steam-exploded sugarcane bagasse by Aspergillus niger and Trichoderma reesei
title_sort comparative transcriptome analysis reveals different strategies for degradation of steam-exploded sugarcane bagasse by aspergillus niger and trichoderma reesei
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5493111/
https://www.ncbi.nlm.nih.gov/pubmed/28666414
http://dx.doi.org/10.1186/s12864-017-3857-5
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