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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 : 24 | |
| 1. |  | NASCENTE, A. S.; LI, Y.; CRUSCIOL, C. A. Cover crops species as affecting soil aggregation, aggregate stability, organic carbon concentration and soil bulk density in different soil aggregate fractions. In: WORLD CONGRESS OF SOIL SCIENCE, 20., 2014, Jeju, Korea. Soils embrace life and universe. Jeju: International Union of Soil Sciences, 2014.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Arroz e Feijão. |
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| 7. | | NASCENTE, A. S.; LI, Y.; CRUSCIOL, C. A. C. Soil aggregation, organic carbon concentration, and soil bulk density as affected by cover crop species in a no-tillage system. Revista Brasileira de Ciência do Solo, Viçosa, MG, v. 39, n. 3, p. 871-879, maio/jun. 2015.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 2 |
| Biblioteca(s): Embrapa Arroz e Feijão. |
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| 11. | | YANG, Y.; PING, S; PENG, J.; HAN, Y.; LI, Y.; YANG, J.; DOU, Y.; LI, Y.; FAN, H; FAN, Y.; LI, D.; ZHAN, Y.; CHEN, M.; LU, W.; ZHANG, W.; CHENG, W.; CHENG, Q.; JIN, Q.; LIN, M. Global transcriptional analysis of nitrogen fixation and ammonium repression in root-associated Pseudomonas stutzeri A1501. BMC Genomics, v. 11, n.. 11, 2010.| Biblioteca(s): Embrapa Agrobiologia. |
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| 12. | | LI, Y.; TRÍBULO, P.; BAKHTIARIZADEH, M. R.; SIQUEIRA, L. G. B.; JI, T.; RIVERA, R. M.; HANSEN, P. J. Conditions of embryo culture from days 5 to 7 of development alter the DNA methylome of the bovine fetus at day 86 of gestation. Journal of Assisted Reproduction and Genetics, v. 37, p. 417-426, 2020.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: B - 1 |
| Biblioteca(s): Embrapa Gado de Leite. |
|  |
| 14. | | 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. Defining functional diversity for lignocellulose degradation in a microbial community using multi-omics studies. Biotechnology for Biofuels, v. 11, article 166, 2018.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Solos. |
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| 15. | | ZERLOTINI NETO, A.; AGUIAR, E. R. G. R.; YU, F.; XU, H.; LI, Y.; YOUNG, N. D.; GASSER, R. B.; PROTASIO, A. V.; BERRIMAN, M.; ROOS, D. S.; KISSINGER, J. C.; OLIVEIRA, G. SchistoDB: an updated genome resource for the three key schistosomes of humans. Nucleic Acids Research, p. 1-4, 2012.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 16. | | VERBOOM, J.; KRUIJT, B.; SOBA, M. P.; BAVECO, H.; EUPEN, M. van; CLAROS, M. P.; STAAL, A.; SANDE, M. van der; LI, Y.; PARR, T.; JONES, L.; MASANTE, D.; PURSE, B.; HUNTINGFORD, C.; THONICKE, K.; SAKSCHEWSKI, B.; BOIT, A.; MARTORANO, L. G.; BELTRÃO, N. S.; NASCIMENTO, N.; SOTTA, E. D.; LISBOA, L. S.; MUNIZ, R. Deliverable 2.3.4. Tipping points in neotropical forests: exploring causes, risks, consequences and prevention of large scale forest dieback. [S.l.]: ROBIN consortium, 2016. 69 p. Project name (GA number): ROBIN (283093).| Biblioteca(s): Embrapa Amazônia Oriental. |
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| 17. | | YOUNG, N. D.; JEX, A. R.; LI, B.; LIU, S.; YANG, L.; XIONG, Z.; LI, Y.; CANTACESSI, C.; HALL, R. S.; XU, X.; CHEN, F.; WU, X.; ZERLOTINI, A.; OLIVEIRA, G.; HOFMANN, A.; ZHANG, G.; FANG, X.; KANG, Y.; CAMPBELL, B. E.; LOUKAS, A.; RANGANATHAN, S.; ROLLINSON, D.; RINALDI, G.; BRINDLEY, P. J.; YANG, H.; WANG, J.; WANG, J.; GASSER, R. B. Whole-genome sequence of Schistosoma haematobium. Nature Genetics, v. 44, n. 2, p. 221-225, Feb. 2012.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 18. | | ROBIN, P.; AMAND, G.; AUBERT, C.; BABELA, N.; BRACHET, A.; BECKMANS, D.; BURTON, C.; CANART, B.; CELLIER, P.; DOLLÉ, J. B.; DONG, H. M.; DURIF, M.; EHRLACHER, A.; EREN ÖZCAN, S.; ESPAGNOL, S.; GAUTIER, S.; GUINGAND, N.; GUINZIOU, F.; HARTUNG, E.; HASSOUANA, M.; LANDRAIN, P.; LEE, I. B.; LELEU, C.; LI, Y. S.; LIAO, X. D.; LOUBET, B.; LOYON, L.; LUTH; NICKS, B.; OLIVEIRA, P. A. V. de; PONCHANT, P.; POWERS, W.; RAMONET, Y.; SOMMER, S. G.; THIARD, J.; WANG, K. Y.; XIN, H.; YOUSSEF, A. Reference procedures for the measurement of gaseous emissions from livestock houses and stores of animal manure. In: INTERNATIONAL SYMPOSIUM ON EMISSIONS OF GAS AND DUST FROM LIVESTOCK, 2012, Saint-Malo. [Proceedings?]. Saint-Brieuc: INRA; Le Rheu: IFIP-Institut du Porc, 2013. EMILI 2012. Edited by Mélynda Hassouna and Nadine Guingand.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Suínos e Aves. |
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| 19. | | ANGELINI, M. E.; FONTANA, A.; LANDI, A.; MERMUT, A. R.; MOREIRA, A. L.; LOPATKA, A.; LABAZ, B.; IRINA, B.; VANDENBYGAART, B.; OLGA, B.; PÁLKA, B.; SMRECZAK, B.; CLERICI, C.; PINHEIRO JÚNIOR, C. R.; FERGUSON, C.; OLGA, C.; VAN HUYSSTEEN, C. W.; MONGER, C.; WEI, D.; RODRÍGUEZ, D. M.; LINDBO, D.; NURSYAMSI, D.; CAHYANA, D.; BEAUDETTE, D.; NUREMBERG, E.; LIU, F.; FONTES, F.; OLIVEIRA, F. P. de; ZHANG, G.; OLEG, G.; PEREIRA, G.; SCHULZ, G.; VASQUES, G. M.; IAAICH, H.; MORRÁS, H. J. M.; HUSEIN, H. H.; GUTIÉRREZ DÍAZ, J. S.; IVELIC-SÁEZ, J.; KOBZA, J.; FUENTE, J. C. de la; HE, J.; NIKOLAI, K.; RODRÍGUEZ JIMÉNEZ, L. M.; WANG, L.; TENTI VUEGEN, L.; JIN, L.; MORETTI, L. M.; ANJOS, L. H. C. dos; SANTOS, L. A. C. dos; PFEIFFER, M.; PEREIRA, M. G.; GUEVARA SANTAMARIA, M.; BOLAÑOS-BENAVIDES, M.; DELL'ACQUA, M.; SAKSA, M.; COELHO, M. R.; CAMPOS, M. C. C.; NEVENA, M.; ORDOÑEZ DELGADO, N.; BATKHISHIG, O.; SERRATO ALCAREZ, P. K.; MOUSSSADEK, R.; DART, R. de O.; DALMOLIN, R. S. D.; OROZAKUNOVA, R.; RADIC, S.; TOMA, S.; WILLS, S. A.; ROECKER, S.; VALLE, S.; KIENAST-BROWN, S.; NAKISKO, S.; KUYPER, T. W.; SOLOVEI, V.; IVAN, V.; CHERLINKA, V.; MORA, V. R. de la; LEBED, V.; CARDONA, W. A.; GENG, X.; LI, Y.; ZHANG, Y.; SULAEMAN, Y.; ZALAVSKYI, Y.; YIGINI, Y.; TAKATA, Y.; SUN, Z. Global distribution and characteristics of black soils. In: FAO. Global status of black soils. Rome, 2022. cap. 2, p. 14-69.| Tipo: Capítulo em Livro Técnico-Científico |
| Biblioteca(s): Embrapa Solos. |
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| 20. | | PHILLIPS, H. R. P.; GUERRA, C. A.; BARTZ, M. L. C.; BRIONES, M. J. I.; BROWN, G. G.; CROWTHER, T. W.; FERLIAN, O.; GONGALSKY, K. B.; VAN DEN HOOGEN, J.; KREBS, J.; ORGIAZZI, A.; ROUTH, D.; SCHWARZ, B.; BACH, E. M.; BENNETT, J.; BROSE, U.; DECAËNS, T.; KÖNIG-RIES, B.; LOREAU, M.; MATHIEU, J.; MULDER, C.; VAN DER PUTTEN, W. H.; RAMIREZ, K. S.; RILLIG, M. C.; RUSSELL, D.; RUTGERS, M.; THAKUR, M. P.; VRIES, F. T. de; WALL, D. H.; WARDLE, D. A.; ARAI, M.; AYUKE, F. O.; BAKER, G. H.; BEAUSÉJOUR, R.; BEDANO, J. C.; BIRKHOFER, K.; BLANCHART, E.; BLOSSEY, B.; BOLGER, T.; BRADLEY, R. L.; CALLAHAM, M. A.; CAPOWIEZ, Y.; CAULFIELD, M. E.; CHOI, A.; CROTTY, F. V.; DÁVALOS, A.; DIAZ COSIN, D. J.; DOMINGUEZ, A.; ESTEBAN DUHOUR, A.; VAN EEKEREN, N.; EMMERLING, C.; FALCO, L. B.; FERNÁNDEZ, R.; FONTE, S. J.; FRAGOSO, C.; FRANCO, A. L. C.; FUGÈRE, M.; FUSILERO, A. T.; GHOLAMI, S.; GUNDALE, M. J.; GUTIÉRREZ LÓPEZ, M.; HACKENBERGER, D. K.; HERNÁNDEZ, L. M.; HISHI, T.; HOLDSWORTH, A. R.; HOLMSTRUP, M.; HOPFENSPERGER, K. N.; HUERTA LWANGA, E.; HUHTA, V.; HURISSO, T. T.; IANNONE III, B. V.; IORDACHE, M.; JOSCHKO, M.; KANEKO, N.; KANIANSKA, R.; KEITH, A. M.; KELLY, C. A.; KERNECKER, M. L.; KLAMINDER, J.; KONÉ, A. W.; KOOCH, Y.; KUKKONEN, S. T.; LALTHANZARA, H.; LAMMEL, D. R.; LEBEDEV, I. M.; LI, Y.; JESUS LIDON, J. B.; LINCOLN, N. K.; LOSS, S. R.; MARICHAL, R.; MATULA, R.; MOOS, J. H.; MORENO, G.; MORÓN-RÍOS, A.; MUYS, B.; NEIRYNCK, J.; NORGROVE, L.; NOVO, M.; NUUTINEN, V.; NUZZO, V.; MUJEEB RAHMAN, P.; PANSU, J.; PAUDEL, S.; PÉRÈS, G.; PÉREZ-CAMACHO, L.; PIÑEIRO, R.; PONGE, J.-F.; RASHID, M. I.; REBOLLO, S.; RODEIRO-IGLESIAS, J.; RODRÍGUEZ, M. Á.; ROTH, A. M.; ROUSSEAU, G. X.; ROZEN, A.; SAYAD, E.; VAN SCHAIK, L.; SCHARENBROCH, B. C.; SCHIRRMANN, M.; SCHMIDT, O.; SCHRÖDER, B.; SEEBER, J.; SHASHKOV, M. P.; SINGH, J.; SMITH, S. M.; STEINWANDTER, M.; TALAVERA, J. A.; TRIGO, D.; TSUKAMOTO, J.; VALENÇA, A. W. de; VANEK, S. J.; VIRTO, I.; WACKETT, A. A.; WARREN, M. W.; WEHR, N. H.; WHALEN, J. K.; WIRONEN, M. B.; WOLTERS, V.; ZENKOVA, I. V.; ZHANG, W.; CAMERON, E. K.; EISENHAUER, N. Global distribution of earthworm diversity. Science, v. 366, n. 6464, p. 480-485, Oct. 2019.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Florestas. |
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| Registros recuperados : 24 | |
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| Nenhum registro encontrado para a expressão de busca informada. |
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