Effect of freezing on gut microbiota composition and functionality for in vitro fermentation experiments
The gut microbiota has a profound effect on human health and is modulated by food and bioactive compounds. To study such interaction, in vitro batch fermentations are performed with fecal material, and some experimental designs may require that such fermentations be performed with previously frozen...
| Autores: | , , , , , , , , , , , |
|---|---|
| Formato: | artículo |
| Fecha de publicación: | 2021 |
| País: | España |
| Recursos: | Consejo Superior de Investigaciones Científicas (CSIC) |
| Repositorio: | Dadun. Depósito Académico Digital de la Universidad de Navarra |
| Idioma: | inglés |
| OAI Identifier: | oai:dadun.unav.edu:10171/115227 |
| Acesso em linha: | https://hdl.handle.net/10171/115227 |
| Access Level: | acceso abierto |
| Palavra-chave: | Gut microbiota Freezing Foods Bioactive compounds Storage |
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Effect of freezing on gut microbiota composition and functionality for in vitro fermentation experimentsPérez-Burillo, S. (Sergio)|||/items/f693a845-e93f-45a7-80a5-d4e63a300f18Hinojosa-Nogueira, D. (Daniel)|||/items/dc294e4e-8ada-46a9-8d1e-3b71cf8f1ab1Navajas-Porras, B. (Beatriz)|||/items/485c6801-6407-48d4-82fc-ed59951283beBalzerani, F. (Francesco)|||/items/8b7a4faf-167a-4631-8dd0-676cfce9e04aLerma-Aguilera, A. (Alberto)|||/items/82f9c14c-0114-4159-a2fe-aba2471b2e2dLeón, D. (Daniel)|||/items/f71e14ab-fc65-45a0-a0ce-112bf44be162Pastoriza, S. (Silvia)|||/items/4a2c87c3-76db-4cd2-98a2-5b9fc0fe2bc0Apaolaza-Emparanza, I.(Iñigo)|||/items/2a505211-8ceb-4c53-a1bc-5fce2aabbf50Planes-Pedreño, F.J. (Francisco Javier)|||/items/3234f2e5-4407-41e9-9058-1834965f6afaFrancino, M.P. (M. Pilar)|||/items/7da65cad-65d1-4cbc-b71c-b2362bd38f04Rufián-Henares, J.Á. (Ángel José)|||/items/e6bc3d5e-2e59-491b-8075-528a4288a5cfBlasco-Aramburu, T. (Telmo)|||/items/d5e49995-9c11-4047-8bbd-748bcf13cb06Gut microbiotaFreezingFoodsBioactive compoundsStorageThe gut microbiota has a profound effect on human health and is modulated by food and bioactive compounds. To study such interaction, in vitro batch fermentations are performed with fecal material, and some experimental designs may require that such fermentations be performed with previously frozen stools. Although it is known that freezing fecal material does not alter the composition of the microbial community in 16S rRNA gene amplicon and metagenomic sequencing studies, it is not known whether the microbial community in frozen samples could still be used for in vitro fermentations. To explore this, we undertook a pilot study in which in vitro fermentations were performed with fecal material from celiac, cow's milk allergic, obese, or lean children that was frozen (or not) with 20% glycerol. Before fermentation, the fecal material was incubated in a nutritious medium for 6 days, with the aim of giving the microbial community time to recover from the effects of freezing. An aliquot was taken daily from the stabilization vessel and used for the in vitro batch fermentation of lentils. The microbial community structure was significantly different between fresh and frozen samples, but the variation introduced by freezing a sample was always smaller than the variation among individuals, both before and after fermentation. Moreover, the potential functionality (as determined in silico by a genome-scaled metabolic reconstruction) did not differ significantly, possibly due to functional redundancy. The most affected genus was Bacteroides, a fiber degrader. In conclusion, if frozen fecal material is to be used for in vitro fermentation purposes, our preliminary analyses indicate that the functionality of microbial communities can be preserved after stabilization.MDPIDadun. Depósito Académico Digital Universidad de Navarra20212021-01-0120212021-01-01journal articlehttp://purl.org/coar/resource_type/c_6501info:eu-repo/semantics/articleapplication/pdfhttps://hdl.handle.net/10171/115227reponame:Dadun. Depósito Académico Digital de la Universidad de Navarrainstname:Consejo Superior de Investigaciones Científicas (CSIC)Inglésengopen accesshttp://purl.org/coar/access_right/c_abf2info:eu-repo/semantics/openAccessoai:dadun.unav.edu:10171/1152272026-06-21T12:47:57Z |
| dc.title.none.fl_str_mv |
Effect of freezing on gut microbiota composition and functionality for in vitro fermentation experiments |
| title |
Effect of freezing on gut microbiota composition and functionality for in vitro fermentation experiments |
| spellingShingle |
Effect of freezing on gut microbiota composition and functionality for in vitro fermentation experiments Pérez-Burillo, S. (Sergio)|||/items/f693a845-e93f-45a7-80a5-d4e63a300f18 Gut microbiota Freezing Foods Bioactive compounds Storage |
| title_short |
Effect of freezing on gut microbiota composition and functionality for in vitro fermentation experiments |
| title_full |
Effect of freezing on gut microbiota composition and functionality for in vitro fermentation experiments |
| title_fullStr |
Effect of freezing on gut microbiota composition and functionality for in vitro fermentation experiments |
| title_full_unstemmed |
Effect of freezing on gut microbiota composition and functionality for in vitro fermentation experiments |
| title_sort |
Effect of freezing on gut microbiota composition and functionality for in vitro fermentation experiments |
| dc.creator.none.fl_str_mv |
Pérez-Burillo, S. (Sergio)|||/items/f693a845-e93f-45a7-80a5-d4e63a300f18 Hinojosa-Nogueira, D. (Daniel)|||/items/dc294e4e-8ada-46a9-8d1e-3b71cf8f1ab1 Navajas-Porras, B. (Beatriz)|||/items/485c6801-6407-48d4-82fc-ed59951283be Balzerani, F. (Francesco)|||/items/8b7a4faf-167a-4631-8dd0-676cfce9e04a Lerma-Aguilera, A. (Alberto)|||/items/82f9c14c-0114-4159-a2fe-aba2471b2e2d León, D. (Daniel)|||/items/f71e14ab-fc65-45a0-a0ce-112bf44be162 Pastoriza, S. (Silvia)|||/items/4a2c87c3-76db-4cd2-98a2-5b9fc0fe2bc0 Apaolaza-Emparanza, I.(Iñigo)|||/items/2a505211-8ceb-4c53-a1bc-5fce2aabbf50 Planes-Pedreño, F.J. (Francisco Javier)|||/items/3234f2e5-4407-41e9-9058-1834965f6afa Francino, M.P. (M. Pilar)|||/items/7da65cad-65d1-4cbc-b71c-b2362bd38f04 Rufián-Henares, J.Á. (Ángel José)|||/items/e6bc3d5e-2e59-491b-8075-528a4288a5cf Blasco-Aramburu, T. (Telmo)|||/items/d5e49995-9c11-4047-8bbd-748bcf13cb06 |
| author |
Pérez-Burillo, S. (Sergio)|||/items/f693a845-e93f-45a7-80a5-d4e63a300f18 |
| author_facet |
Pérez-Burillo, S. (Sergio)|||/items/f693a845-e93f-45a7-80a5-d4e63a300f18 Hinojosa-Nogueira, D. (Daniel)|||/items/dc294e4e-8ada-46a9-8d1e-3b71cf8f1ab1 Navajas-Porras, B. (Beatriz)|||/items/485c6801-6407-48d4-82fc-ed59951283be Balzerani, F. (Francesco)|||/items/8b7a4faf-167a-4631-8dd0-676cfce9e04a Lerma-Aguilera, A. (Alberto)|||/items/82f9c14c-0114-4159-a2fe-aba2471b2e2d León, D. (Daniel)|||/items/f71e14ab-fc65-45a0-a0ce-112bf44be162 Pastoriza, S. (Silvia)|||/items/4a2c87c3-76db-4cd2-98a2-5b9fc0fe2bc0 Apaolaza-Emparanza, I.(Iñigo)|||/items/2a505211-8ceb-4c53-a1bc-5fce2aabbf50 Planes-Pedreño, F.J. (Francisco Javier)|||/items/3234f2e5-4407-41e9-9058-1834965f6afa Francino, M.P. (M. Pilar)|||/items/7da65cad-65d1-4cbc-b71c-b2362bd38f04 Rufián-Henares, J.Á. (Ángel José)|||/items/e6bc3d5e-2e59-491b-8075-528a4288a5cf Blasco-Aramburu, T. (Telmo)|||/items/d5e49995-9c11-4047-8bbd-748bcf13cb06 |
| author_role |
author |
| author2 |
Hinojosa-Nogueira, D. (Daniel)|||/items/dc294e4e-8ada-46a9-8d1e-3b71cf8f1ab1 Navajas-Porras, B. (Beatriz)|||/items/485c6801-6407-48d4-82fc-ed59951283be Balzerani, F. (Francesco)|||/items/8b7a4faf-167a-4631-8dd0-676cfce9e04a Lerma-Aguilera, A. (Alberto)|||/items/82f9c14c-0114-4159-a2fe-aba2471b2e2d León, D. (Daniel)|||/items/f71e14ab-fc65-45a0-a0ce-112bf44be162 Pastoriza, S. (Silvia)|||/items/4a2c87c3-76db-4cd2-98a2-5b9fc0fe2bc0 Apaolaza-Emparanza, I.(Iñigo)|||/items/2a505211-8ceb-4c53-a1bc-5fce2aabbf50 Planes-Pedreño, F.J. (Francisco Javier)|||/items/3234f2e5-4407-41e9-9058-1834965f6afa Francino, M.P. (M. Pilar)|||/items/7da65cad-65d1-4cbc-b71c-b2362bd38f04 Rufián-Henares, J.Á. (Ángel José)|||/items/e6bc3d5e-2e59-491b-8075-528a4288a5cf Blasco-Aramburu, T. (Telmo)|||/items/d5e49995-9c11-4047-8bbd-748bcf13cb06 |
| author2_role |
author author author author author author author author author author author |
| dc.contributor.none.fl_str_mv |
Dadun. Depósito Académico Digital Universidad de Navarra |
| dc.subject.none.fl_str_mv |
Gut microbiota Freezing Foods Bioactive compounds Storage |
| topic |
Gut microbiota Freezing Foods Bioactive compounds Storage |
| description |
The gut microbiota has a profound effect on human health and is modulated by food and bioactive compounds. To study such interaction, in vitro batch fermentations are performed with fecal material, and some experimental designs may require that such fermentations be performed with previously frozen stools. Although it is known that freezing fecal material does not alter the composition of the microbial community in 16S rRNA gene amplicon and metagenomic sequencing studies, it is not known whether the microbial community in frozen samples could still be used for in vitro fermentations. To explore this, we undertook a pilot study in which in vitro fermentations were performed with fecal material from celiac, cow's milk allergic, obese, or lean children that was frozen (or not) with 20% glycerol. Before fermentation, the fecal material was incubated in a nutritious medium for 6 days, with the aim of giving the microbial community time to recover from the effects of freezing. An aliquot was taken daily from the stabilization vessel and used for the in vitro batch fermentation of lentils. The microbial community structure was significantly different between fresh and frozen samples, but the variation introduced by freezing a sample was always smaller than the variation among individuals, both before and after fermentation. Moreover, the potential functionality (as determined in silico by a genome-scaled metabolic reconstruction) did not differ significantly, possibly due to functional redundancy. The most affected genus was Bacteroides, a fiber degrader. In conclusion, if frozen fecal material is to be used for in vitro fermentation purposes, our preliminary analyses indicate that the functionality of microbial communities can be preserved after stabilization. |
| publishDate |
2021 |
| dc.date.none.fl_str_mv |
2021 2021-01-01 2021 2021-01-01 |
| dc.type.none.fl_str_mv |
journal article http://purl.org/coar/resource_type/c_6501 |
| dc.type.openaire.fl_str_mv |
info:eu-repo/semantics/article |
| format |
article |
| dc.identifier.none.fl_str_mv |
https://hdl.handle.net/10171/115227 |
| url |
https://hdl.handle.net/10171/115227 |
| dc.language.none.fl_str_mv |
Inglés eng |
| language_invalid_str_mv |
Inglés |
| language |
eng |
| dc.rights.none.fl_str_mv |
open access http://purl.org/coar/access_right/c_abf2 |
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info:eu-repo/semantics/openAccess |
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open access http://purl.org/coar/access_right/c_abf2 |
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openAccess |
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application/pdf |
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MDPI |
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MDPI |
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reponame:Dadun. Depósito Académico Digital de la Universidad de Navarra instname:Consejo Superior de Investigaciones Científicas (CSIC) |
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Consejo Superior de Investigaciones Científicas (CSIC) |
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Dadun. Depósito Académico Digital de la Universidad de Navarra |
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Dadun. Depósito Académico Digital de la Universidad de Navarra |
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1869405270194520064 |
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15,228081 |