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Bacterial diversity dynamics in microbial consortia selected for lignin utilization
Lignin is nature’s largest source of phenolic compounds. Its recalcitrance to enzymatic conversion is still a limiting step to increase the value of lignin. Although bacteria are able to degrade lignin in nature, most studies have focused on lignin degradation by fungi. To understand which bacteria...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8437272/ https://www.ncbi.nlm.nih.gov/pubmed/34516585 http://dx.doi.org/10.1371/journal.pone.0255083 |
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author | Mendes, Isis Viana Garcia, Mariana Botelho Bitencourt, Ana Carolina Araújo Santana, Renata Henrique Lins, Philippe de Castro Silveira, Rafaella Simmons, Blake A. Gladden, John M. Kruger, Ricardo Henrique Quirino, Betania Ferraz |
author_facet | Mendes, Isis Viana Garcia, Mariana Botelho Bitencourt, Ana Carolina Araújo Santana, Renata Henrique Lins, Philippe de Castro Silveira, Rafaella Simmons, Blake A. Gladden, John M. Kruger, Ricardo Henrique Quirino, Betania Ferraz |
author_sort | Mendes, Isis Viana |
collection | PubMed |
description | Lignin is nature’s largest source of phenolic compounds. Its recalcitrance to enzymatic conversion is still a limiting step to increase the value of lignin. Although bacteria are able to degrade lignin in nature, most studies have focused on lignin degradation by fungi. To understand which bacteria are able to use lignin as the sole carbon source, natural selection over time was used to obtain enriched microbial consortia over a 12-week period. The source of microorganisms to establish these microbial consortia were commercial and backyard compost soils. Cultivation occurred at two different temperatures, 30°C and 37°C, in defined culture media containing either Kraft lignin or alkaline-extracted lignin as carbon source. iTag DNA sequencing of bacterial 16S rDNA gene was performed for each of the consortia at six timepoints (passages). The initial bacterial richness and diversity of backyard compost soil consortia was greater than that of commercial soil consortia, and both parameters decreased after the enrichment protocol, corroborating that selection was occurring. Bacterial consortia composition tended to stabilize from the fourth passage on. After the enrichment protocol, Firmicutes phylum bacteria were predominant when lignin extracted by alkaline method was used as a carbon source, whereas Proteobacteria were predominant when Kraft lignin was used. Bray-Curtis dissimilarity calculations at genus level, visualized using NMDS plots, showed that the type of lignin used as a carbon source contributed more to differentiate the bacterial consortia than the variable temperature. The main known bacterial genera selected to use lignin as a carbon source were Altererythrobacter, Aminobacter, Bacillus, Burkholderia, Lysinibacillus, Microvirga, Mycobacterium, Ochrobactrum, Paenibacillus, Pseudomonas, Pseudoxanthomonas, Rhizobiales and Sphingobium. These selected bacterial genera can be of particular interest for studying lignin degradation and utilization, as well as for lignin-related biotechnology applications. |
format | Online Article Text |
id | pubmed-8437272 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-84372722021-09-14 Bacterial diversity dynamics in microbial consortia selected for lignin utilization Mendes, Isis Viana Garcia, Mariana Botelho Bitencourt, Ana Carolina Araújo Santana, Renata Henrique Lins, Philippe de Castro Silveira, Rafaella Simmons, Blake A. Gladden, John M. Kruger, Ricardo Henrique Quirino, Betania Ferraz PLoS One Research Article Lignin is nature’s largest source of phenolic compounds. Its recalcitrance to enzymatic conversion is still a limiting step to increase the value of lignin. Although bacteria are able to degrade lignin in nature, most studies have focused on lignin degradation by fungi. To understand which bacteria are able to use lignin as the sole carbon source, natural selection over time was used to obtain enriched microbial consortia over a 12-week period. The source of microorganisms to establish these microbial consortia were commercial and backyard compost soils. Cultivation occurred at two different temperatures, 30°C and 37°C, in defined culture media containing either Kraft lignin or alkaline-extracted lignin as carbon source. iTag DNA sequencing of bacterial 16S rDNA gene was performed for each of the consortia at six timepoints (passages). The initial bacterial richness and diversity of backyard compost soil consortia was greater than that of commercial soil consortia, and both parameters decreased after the enrichment protocol, corroborating that selection was occurring. Bacterial consortia composition tended to stabilize from the fourth passage on. After the enrichment protocol, Firmicutes phylum bacteria were predominant when lignin extracted by alkaline method was used as a carbon source, whereas Proteobacteria were predominant when Kraft lignin was used. Bray-Curtis dissimilarity calculations at genus level, visualized using NMDS plots, showed that the type of lignin used as a carbon source contributed more to differentiate the bacterial consortia than the variable temperature. The main known bacterial genera selected to use lignin as a carbon source were Altererythrobacter, Aminobacter, Bacillus, Burkholderia, Lysinibacillus, Microvirga, Mycobacterium, Ochrobactrum, Paenibacillus, Pseudomonas, Pseudoxanthomonas, Rhizobiales and Sphingobium. These selected bacterial genera can be of particular interest for studying lignin degradation and utilization, as well as for lignin-related biotechnology applications. Public Library of Science 2021-09-13 /pmc/articles/PMC8437272/ /pubmed/34516585 http://dx.doi.org/10.1371/journal.pone.0255083 Text en https://creativecommons.org/publicdomain/zero/1.0/This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 (https://creativecommons.org/publicdomain/zero/1.0/) public domain dedication. |
spellingShingle | Research Article Mendes, Isis Viana Garcia, Mariana Botelho Bitencourt, Ana Carolina Araújo Santana, Renata Henrique Lins, Philippe de Castro Silveira, Rafaella Simmons, Blake A. Gladden, John M. Kruger, Ricardo Henrique Quirino, Betania Ferraz Bacterial diversity dynamics in microbial consortia selected for lignin utilization |
title | Bacterial diversity dynamics in microbial consortia selected for lignin utilization |
title_full | Bacterial diversity dynamics in microbial consortia selected for lignin utilization |
title_fullStr | Bacterial diversity dynamics in microbial consortia selected for lignin utilization |
title_full_unstemmed | Bacterial diversity dynamics in microbial consortia selected for lignin utilization |
title_short | Bacterial diversity dynamics in microbial consortia selected for lignin utilization |
title_sort | bacterial diversity dynamics in microbial consortia selected for lignin utilization |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8437272/ https://www.ncbi.nlm.nih.gov/pubmed/34516585 http://dx.doi.org/10.1371/journal.pone.0255083 |
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