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Registro Completo |
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Biblioteca(s): |
Embrapa Solos. |
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Data corrente: |
16/11/2018 |
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Data da última atualização: |
11/11/2021 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
ALESSI, A. M.; BIRD, S. M.; OATES, N. C.; LI, Y.; DOWLE, A. A.; NOVOTNY, E. H.; AZEVEDO, E. R. de; BENNETT, J. P.; POLIKARPOV, I.; YOUNG, J. P. W.; MCQUEEN-MASON, S. J.; BRUCE, N. C. |
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Afiliação: |
ANNA M. ALESSI, UNIVERSITY OF YORK; SUSANNAH M. BIRD, UNIVERSITY OF YORK; NICOLA C. OATES, UNIVERSITY OF YORK; YI LI, UNIVERSITY OF YORK; ADAM A. DOWLE, UNIVERSITY OF YORK; ETELVINO HENRIQUE NOVOTNY, CNPS; EDUARDO R. DE AZEVEDO, USP; JOSEPH P. BENNETT, UNIVERSITY OF YORK; IGOR POLIKARPOV, USP; J. PETER W. YOUNG, UNIVERSITY OF YORK; SIMON J. MCQUEEN-MASON, UNIVERSITY OF YORK; NEIL C. BRUCE, UNIVERSITY OF YORK. |
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Título: |
Defining functional diversity for lignocellulose degradation in a microbial community using multi-omics studies. |
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Ano de publicação: |
2018 |
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Fonte/Imprenta: |
Biotechnology for Biofuels, v. 11, article 166, 2018. |
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DOI: |
https://doi.org/10.1186/s13068-018-1164-2 |
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Idioma: |
Inglês |
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Conteúdo: |
Background: Lignocellulose is one of the most abundant forms of fixed carbon in the biosphere. Current industrial approaches to the degradation of lignocellulose employ enzyme mixtures, usually from a single fungal species, which are only effective in hydrolyzing polysaccharides following biomass pre-treatments. While the enzymatic mechanisms of lignocellulose degradation have been characterized in detail in individual microbial species, the microbial communities that efficiently breakdown plant materials in nature are species rich and secrete a myriad of enzymes to perform "community-level" metabolism of lignocellulose. Single-species approaches are, therefore, likely to miss important aspects of lignocellulose degradation that will be central to optimizing commercial processes. Results: Here, we investigated the microbial degradation of wheat straw in liquid cultures that had been inoculated with wheat straw compost. Samples taken at selected time points were subjected to multi-omics analysis with the aim of identifying new microbial mechanisms for lignocellulose degradation that could be applied in industrial pretreatment of feedstocks. Phylogenetic composition of the community, based on sequenced bacterial and eukaryotic ribosomal genes, showed a gradual decrease in complexity and diversity over time due to microbial enrichment. Taxonomic affiliation of bacterial species showed dominance of Bacteroidetes and Proteobacteria and high relative abundance of genera Asticcacaulis, Leadbetterella and Truepera. The eukaryotic members of the community were enriched in peritrich ciliates from genus Telotrochidium that thrived in the liquid cultures compared to fungal species that were present in low abundance. A targeted metasecretome approach combined with metatranscriptomics analysis, identified 1127 proteins and showed the presence of numerous carbohydrate-active enzymes extracted from the biomassbound fractions and from the culture supernatant. This revealed a wide array of hydrolytic cellulases, hemicellulases and carbohydrate-binding modules involved in lignocellulose degradation. The expression of these activities correlated to the changes in the biomass composition observed by FTIR and ssNMR measurements. Conclusions: A combination of mass spectrometry-based proteomics coupled with metatranscriptomics has enabled the identification of a large number of lignocellulose degrading enzymes that can now be further explored for the development of improved enzyme cocktails for the treatment of plant-based feedstocks. In addition to the expected carbohydrate-active enzymes, our studies reveal a large number of unknown proteins, some of which may play a crucial role in community-based lignocellulose degradation. MenosBackground: Lignocellulose is one of the most abundant forms of fixed carbon in the biosphere. Current industrial approaches to the degradation of lignocellulose employ enzyme mixtures, usually from a single fungal species, which are only effective in hydrolyzing polysaccharides following biomass pre-treatments. While the enzymatic mechanisms of lignocellulose degradation have been characterized in detail in individual microbial species, the microbial communities that efficiently breakdown plant materials in nature are species rich and secrete a myriad of enzymes to perform "community-level" metabolism of lignocellulose. Single-species approaches are, therefore, likely to miss important aspects of lignocellulose degradation that will be central to optimizing commercial processes. Results: Here, we investigated the microbial degradation of wheat straw in liquid cultures that had been inoculated with wheat straw compost. Samples taken at selected time points were subjected to multi-omics analysis with the aim of identifying new microbial mechanisms for lignocellulose degradation that could be applied in industrial pretreatment of feedstocks. Phylogenetic composition of the community, based on sequenced bacterial and eukaryotic ribosomal genes, showed a gradual decrease in complexity and diversity over time due to microbial enrichment. Taxonomic affiliation of bacterial species showed dominance of Bacteroidetes and Proteobacteria and high relative abundance of genera Asticcacau... Mostrar Tudo |
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Palavras-Chave: |
CAZy; Metasecretome. |
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Thesaurus Nal: |
Lignocellulose. |
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Categoria do assunto: |
P Recursos Naturais, Ciências Ambientais e da Terra |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/186133/1/2018-044.pdf
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Marc: |
LEADER 03644naa a2200301 a 4500
001 2099501
005 2021-11-11
008 2018 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.1186/s13068-018-1164-2$2DOI
100 1 $aALESSI, A. M.
245 $aDefining functional diversity for lignocellulose degradation in a microbial community using multi-omics studies.$h[electronic resource]
260 $c2018
520 $aBackground: Lignocellulose is one of the most abundant forms of fixed carbon in the biosphere. Current industrial approaches to the degradation of lignocellulose employ enzyme mixtures, usually from a single fungal species, which are only effective in hydrolyzing polysaccharides following biomass pre-treatments. While the enzymatic mechanisms of lignocellulose degradation have been characterized in detail in individual microbial species, the microbial communities that efficiently breakdown plant materials in nature are species rich and secrete a myriad of enzymes to perform "community-level" metabolism of lignocellulose. Single-species approaches are, therefore, likely to miss important aspects of lignocellulose degradation that will be central to optimizing commercial processes. Results: Here, we investigated the microbial degradation of wheat straw in liquid cultures that had been inoculated with wheat straw compost. Samples taken at selected time points were subjected to multi-omics analysis with the aim of identifying new microbial mechanisms for lignocellulose degradation that could be applied in industrial pretreatment of feedstocks. Phylogenetic composition of the community, based on sequenced bacterial and eukaryotic ribosomal genes, showed a gradual decrease in complexity and diversity over time due to microbial enrichment. Taxonomic affiliation of bacterial species showed dominance of Bacteroidetes and Proteobacteria and high relative abundance of genera Asticcacaulis, Leadbetterella and Truepera. The eukaryotic members of the community were enriched in peritrich ciliates from genus Telotrochidium that thrived in the liquid cultures compared to fungal species that were present in low abundance. A targeted metasecretome approach combined with metatranscriptomics analysis, identified 1127 proteins and showed the presence of numerous carbohydrate-active enzymes extracted from the biomassbound fractions and from the culture supernatant. This revealed a wide array of hydrolytic cellulases, hemicellulases and carbohydrate-binding modules involved in lignocellulose degradation. The expression of these activities correlated to the changes in the biomass composition observed by FTIR and ssNMR measurements. Conclusions: A combination of mass spectrometry-based proteomics coupled with metatranscriptomics has enabled the identification of a large number of lignocellulose degrading enzymes that can now be further explored for the development of improved enzyme cocktails for the treatment of plant-based feedstocks. In addition to the expected carbohydrate-active enzymes, our studies reveal a large number of unknown proteins, some of which may play a crucial role in community-based lignocellulose degradation.
650 $aLignocellulose
653 $aCAZy
653 $aMetasecretome
700 1 $aBIRD, S. M.
700 1 $aOATES, N. C.
700 1 $aLI, Y.
700 1 $aDOWLE, A. A.
700 1 $aNOVOTNY, E. H.
700 1 $aAZEVEDO, E. R. de
700 1 $aBENNETT, J. P.
700 1 $aPOLIKARPOV, I.
700 1 $aYOUNG, J. P. W.
700 1 $aMCQUEEN-MASON, S. J.
700 1 $aBRUCE, N. C.
773 $tBiotechnology for Biofuels$gv. 11, article 166, 2018.
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Registro original: |
Embrapa Solos (CNPS) |
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| Registros recuperados : 29 | |
| 5. |  | SONG, G.; NOVOTNY, E. H.; HAYES, M. H. B.; AZEVEDO, E. R. de; BONAGAMBA, T. J. Char and humin fractions in Amazonian dark earths. In: INTERNATIONAL MEETING OF THE INTERNATIONAL HUMIC SUBSTANCES SOCIETY, 14., 2008, Saint Petersburg. From molecular understanding to innovative applications of humic substances: proceedings... Moscow: Lomonosov Moscow State University, 2008. v. 1, p. 311-314.| Tipo: Artigo em Anais de Congresso / Nota Técnica |
| Biblioteca(s): Embrapa Solos. |
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| 6. | | SONG, G.; NOVOTNY, E. H.; AZEVEDO, E. R. de; BONAGAMBA, T. J. Composition of the humin fraction and coarse char of Terra Preta de Índios soils by NMR, multivariate curve resolution and scanning electron microscopy. In: ANNUAL INTERNATIONAL MEETING OF THE INTERNATIONAL BIOCHAR INITIATIVE, 2., 2008, Newcastle. Biochar, sustainability and security in a changing climate. Newcastle: International Biochar Initiative, 2008. p. 27-28. Ref. B21.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Solos. |
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| 8. | | NOVOTNY, E. H.; HAYES, M. H. B.; SONG, G.; AZEVEDO, E. R. de; BONAGAMBA, T. Extraction and characterisation of humin fraction from Amazonian anthropogenic dark earth soils ("Terra Preta de Indios"). In: INTERNATIONAL MEETING OF THE INTERNATIONAL HUMIC SUBSTANCES SOCIETY, 14., 2008, Saint Petersburg. From molecular understanding to innovative applications of humic substances: proceedings... Moscow: Lomonosov Moscow State University, 2008. v. 1, p. 105-108.| Tipo: Artigo em Anais de Congresso / Nota Técnica |
| Biblioteca(s): Embrapa Solos. |
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| 11. | | NOVOTNY, E. H.; BONAGAMBA, T. J.; AZEVEDO, E. R. de; HAYES, M. H. B. Solid-state 13C nuclear magnetic resonance characterisation of humic acids extracted from amazonian dark earths (terra preta de índio). In: WOODS, W. I.; TEIXEIRA, W. G.; LEHMANN, J.; STEINER, C.; WINKLERPRINS, A.; REBELLATO, L. (ed.). Amazonian dark earths: Wim Sombroek's vision. Berlin: Springer, 2009. cap. 21, p. 373-391.| Tipo: Capítulo em Livro Técnico-Científico |
| Biblioteca(s): Embrapa Solos. |
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| 14. | | NOVOTNY, E. H.; VELLOSO, M. H. R.; AZEVEDO, E. R. de; BONAGAMBA, T. J.; SONG, G.; HAYES, M. H. B. Extração seletiva da fração húmica característica das terras pretas de índios. In: ENCONTRO BRASILEIRO DE SUBSTÂNCIAS HÚMICAS, 8., 2009, Pelotas. Matéria orgânica ambiental e sustentabilidade: resumos expandidos. Pelotas: Embrapa Clima Temperado, 2009. 1 CD-ROM.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Solos. |
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| 16. | | LINHARES, C. R.; AZEVEDO, E. R. de; BONAGAMBA, T. J.; SOUZA, A. A. de; ROMEIRO, G. A.; NOVOTNY, E. H. Funcionalização química de carvões e de materiais parcialmente carbonizados produzidos a partir de diferentes biomassas com vistas ao uso agrícola como condicionadores de solo. In: ENCONTRO BRASILEIRO DE SUBSTÂNCIAS HÚMICAS, 8., 2009, Pelotas. Matéria orgânica ambiental e sustentabilidade: resumos expandidos. Pelotas: Embrapa Clima Temperado, 2009. 1 CD-ROM.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Solos. |
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| 17. | | MONARETTO, T.; ANDRADE, F. D.; MORAES, T. B.; SOUZA, A. A.; AZEVEDO, E. R. de; COLNAGO, L. A. On resonance phase alternated CWFP sequences for rapid and simultaneous measurement of relaxation times. Journal of Magnetic Resonance, [S. l.], v. 259, p. 174-178, 2015.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Instrumentação. |
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| 18. | | NOVOTNY, E. H.; ROMEIRO, G. A.; FIGUEIREDO, M. K. K.; ROCHA, J. D.; AZEVEDO, E. R. de; BONAGAMBA, T. J.; HAYES, M. H. B. 13C-MMR spectroscopy evaluation of different pyrolysis feedstock. In: ANNUAL INTERNATIONAL MEETING OF THE INTERNATIONAL BIOCHAR INITIATIVE, 2., 2008, Newcastle. Abstracts... Newcastle: IBI, 2008, p. 16.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agroenergia. |
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| 19. | | NOVOTNY, E. H.; ROMEIRO, G. A.; FIGUEIREDO, M. K. K.; ROCHA, J. D.; AZEVEDO, E. R. de; BONAGAMBA, T. J.; HAYES, M. H. B. 13C-NMR spectroscopy evaluation of different pyrolysis feedstock. In: ANNUAL INTERNATIONAL MEETING OF THE INTERNATIONAL BIOCHAR INITIATIVE, 2., 2008, Newcastle. Biochar, sustainability and security in a changing climate. Newcastle: International Biochar Initiative, 2008. p. 26. Ref. B18.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Solos. |
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| 20. | | COSTA, A. B.; NOVOTNY, E. H.; BLOISE, A. C.; AZEVEDO, E. R. de; BONAGAMBA, T. J.; ZUCCHI, M. R.; SANTOS, V. L. C. S.; AZEVEDO, A. E. G. Characterization of organic matter in sediment cores of the Todos os Santos Bay, Bahia, Brazil, by elemental analysis and 13C NMR. Marine Pollution Bulletin, v. 62, n. 8, p. 1883-1890, Aug. 2011.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Solos. |
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| Registros recuperados : 29 | |
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| Nenhum registro encontrado para a expressão de busca informada. |
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