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Analysis of ethanol fermentation mechanism of ethanol producing white-rot fungus Phlebia sp. MG-60 by RNA-seq
BACKGROUND: The white-rot fungus Phlebia sp. MG-60 shows valuable properties such as high ethanol yield from several lignocellulosic materials, although white-rot fungi commonly degrade woody components to CO(2) and H(2)O. In order to identify genes involved in ethanol production by Phlebia sp. MG-6...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2016
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4982002/ https://www.ncbi.nlm.nih.gov/pubmed/27515927 http://dx.doi.org/10.1186/s12864-016-2977-7 |
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author | Wang, Jianqiao Suzuki, Tomohiro Dohra, Hideo Takigami, Shoko Kako, Hiroko Soga, Ayumi Kamei, Ichiro Mori, Toshio Kawagishi, Hirokazu Hirai, Hirofumi |
author_facet | Wang, Jianqiao Suzuki, Tomohiro Dohra, Hideo Takigami, Shoko Kako, Hiroko Soga, Ayumi Kamei, Ichiro Mori, Toshio Kawagishi, Hirokazu Hirai, Hirofumi |
author_sort | Wang, Jianqiao |
collection | PubMed |
description | BACKGROUND: The white-rot fungus Phlebia sp. MG-60 shows valuable properties such as high ethanol yield from several lignocellulosic materials, although white-rot fungi commonly degrade woody components to CO(2) and H(2)O. In order to identify genes involved in ethanol production by Phlebia sp. MG-60, we compared genes differentially expressed by the ethanol producing fungus Phlebia sp. MG-60 and the model white-rot fungus Phanerochaete chrysosporium under ethanol fermenting and non-fermenting conditions using next-generation sequencing technologies. RESULTS: mRNAs from mycelia of Phlebia sp. MG-60 and P. chrysosporium under fermenting and non-fermenting conditions were sequenced using the MiSeq system. To detect differentially expressed genes, expression levels were measured in fragments per kilobase of exon per million mapped reads (FPKM). Differentially expressed genes were annotated using BLAST searches, Gene Ontology classifications, and KEGG pathway analysis. Functional analyses of differentially expressed genes revealed that genes involved in glucose uptake, glycolysis, and ethanol synthesis were widely upregulated in Phlebia sp. MG-60 under fermenting conditions. CONCLUSIONS: In this study, we provided novel transcriptomic information on Phlebia sp. MG-60, and these RNA-seq data were useful in targeting genes involved in ethanol production for future genetic engineering. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-016-2977-7) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-4982002 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2016 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-49820022016-08-13 Analysis of ethanol fermentation mechanism of ethanol producing white-rot fungus Phlebia sp. MG-60 by RNA-seq Wang, Jianqiao Suzuki, Tomohiro Dohra, Hideo Takigami, Shoko Kako, Hiroko Soga, Ayumi Kamei, Ichiro Mori, Toshio Kawagishi, Hirokazu Hirai, Hirofumi BMC Genomics Research Article BACKGROUND: The white-rot fungus Phlebia sp. MG-60 shows valuable properties such as high ethanol yield from several lignocellulosic materials, although white-rot fungi commonly degrade woody components to CO(2) and H(2)O. In order to identify genes involved in ethanol production by Phlebia sp. MG-60, we compared genes differentially expressed by the ethanol producing fungus Phlebia sp. MG-60 and the model white-rot fungus Phanerochaete chrysosporium under ethanol fermenting and non-fermenting conditions using next-generation sequencing technologies. RESULTS: mRNAs from mycelia of Phlebia sp. MG-60 and P. chrysosporium under fermenting and non-fermenting conditions were sequenced using the MiSeq system. To detect differentially expressed genes, expression levels were measured in fragments per kilobase of exon per million mapped reads (FPKM). Differentially expressed genes were annotated using BLAST searches, Gene Ontology classifications, and KEGG pathway analysis. Functional analyses of differentially expressed genes revealed that genes involved in glucose uptake, glycolysis, and ethanol synthesis were widely upregulated in Phlebia sp. MG-60 under fermenting conditions. CONCLUSIONS: In this study, we provided novel transcriptomic information on Phlebia sp. MG-60, and these RNA-seq data were useful in targeting genes involved in ethanol production for future genetic engineering. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-016-2977-7) contains supplementary material, which is available to authorized users. BioMed Central 2016-08-11 /pmc/articles/PMC4982002/ /pubmed/27515927 http://dx.doi.org/10.1186/s12864-016-2977-7 Text en © The Author(s). 2016 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 Wang, Jianqiao Suzuki, Tomohiro Dohra, Hideo Takigami, Shoko Kako, Hiroko Soga, Ayumi Kamei, Ichiro Mori, Toshio Kawagishi, Hirokazu Hirai, Hirofumi Analysis of ethanol fermentation mechanism of ethanol producing white-rot fungus Phlebia sp. MG-60 by RNA-seq |
title | Analysis of ethanol fermentation mechanism of ethanol producing white-rot fungus Phlebia sp. MG-60 by RNA-seq |
title_full | Analysis of ethanol fermentation mechanism of ethanol producing white-rot fungus Phlebia sp. MG-60 by RNA-seq |
title_fullStr | Analysis of ethanol fermentation mechanism of ethanol producing white-rot fungus Phlebia sp. MG-60 by RNA-seq |
title_full_unstemmed | Analysis of ethanol fermentation mechanism of ethanol producing white-rot fungus Phlebia sp. MG-60 by RNA-seq |
title_short | Analysis of ethanol fermentation mechanism of ethanol producing white-rot fungus Phlebia sp. MG-60 by RNA-seq |
title_sort | analysis of ethanol fermentation mechanism of ethanol producing white-rot fungus phlebia sp. mg-60 by rna-seq |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4982002/ https://www.ncbi.nlm.nih.gov/pubmed/27515927 http://dx.doi.org/10.1186/s12864-016-2977-7 |
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