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Title: Characterization of Trapped Lignin-Degrading Microbes in Tropical Forest Soil

Abstract

Lignin is often the most difficult portion of plant biomass to degrade, with fungi generally thought to dominate during late stage decomposition. Lignin in feedstock plant material represents a barrier to more efficient plant biomass conversion and can also hinder enzymatic access to cellulose, which is critical for biofuels production. Tropical rain forest soils in Puerto Rico are characterized by frequent anoxic conditions and fluctuating redox, suggesting the presence of lignin-degrading organisms and mechanisms that are different from known fungal decomposers and oxygen-dependent enzyme activities. We explored microbial lignin-degraders by burying bio-traps containing lignin-amended and unamended biosep beads in the soil for 1, 4, 13 and 30 weeks. At each time point, phenol oxidase and peroxidase enzyme activity was found to be elevated in the lignin-amended versus the unamended beads, while cellulolytic enzyme activities were significantly depressed in lignin-amended beads. Quantitative PCR of bacterial communities showed more bacterial colonization in the lignin-amended compared to the unamended beads after one and four weeks, suggesting that the lignin supported increased bacterial abundance. The microbial community was analyzed by small subunit 16S ribosomal RNA genes using microarray (PhyloChip) and by high-throughput amplicon pyrosequencing based on universal primers targeting bacterial, archaeal, and eukaryotic communities.more » Community trends were significantly affected by time and the presence of lignin on the beads. Lignin-amended beads have higher relative abundances of representatives from the phyla Actinobacteria, Firmicutes, Acidobacteria and Proteobacteria compared to unamended beads. This study suggests that in low and fluctuating redox soils, bacteria could play a role in anaerobic lignin decomposition.« less

Authors:
; ; ; ; ; ; ; ;
Publication Date:
Research Org.:
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
Physical Biosciences Division
OSTI Identifier:
1051266
Report Number(s):
LBNL-5085E
Journal ID: ISSN 1932-6203
DOE Contract Number:  
DE-AC02-05CH11231
Resource Type:
Journal Article
Journal Name:
PLoS ONE
Additional Journal Information:
Journal Volume: 6; Journal Issue: 4; Related Information: Journal Publication Date: 29 APR 2011; Journal ID: ISSN 1932-6203
Country of Publication:
United States
Language:
English
Subject:
09 BIOMASS FUELS

Citation Formats

DeAngelis, Kristen, Allgaier, Martin, Chavarria, Yaucin, Fortney, Julian, Hugenholtz, Phillip, Simmons, Blake, Sublette, Kerry, Silver, Whendee, and Hazen, Terry. Characterization of Trapped Lignin-Degrading Microbes in Tropical Forest Soil. United States: N. p., 2011. Web. doi:10.1371/journal.pone.0019306.
DeAngelis, Kristen, Allgaier, Martin, Chavarria, Yaucin, Fortney, Julian, Hugenholtz, Phillip, Simmons, Blake, Sublette, Kerry, Silver, Whendee, & Hazen, Terry. Characterization of Trapped Lignin-Degrading Microbes in Tropical Forest Soil. United States. doi:10.1371/journal.pone.0019306.
DeAngelis, Kristen, Allgaier, Martin, Chavarria, Yaucin, Fortney, Julian, Hugenholtz, Phillip, Simmons, Blake, Sublette, Kerry, Silver, Whendee, and Hazen, Terry. Thu . "Characterization of Trapped Lignin-Degrading Microbes in Tropical Forest Soil". United States. doi:10.1371/journal.pone.0019306. https://www.osti.gov/servlets/purl/1051266.
@article{osti_1051266,
title = {Characterization of Trapped Lignin-Degrading Microbes in Tropical Forest Soil},
author = {DeAngelis, Kristen and Allgaier, Martin and Chavarria, Yaucin and Fortney, Julian and Hugenholtz, Phillip and Simmons, Blake and Sublette, Kerry and Silver, Whendee and Hazen, Terry},
abstractNote = {Lignin is often the most difficult portion of plant biomass to degrade, with fungi generally thought to dominate during late stage decomposition. Lignin in feedstock plant material represents a barrier to more efficient plant biomass conversion and can also hinder enzymatic access to cellulose, which is critical for biofuels production. Tropical rain forest soils in Puerto Rico are characterized by frequent anoxic conditions and fluctuating redox, suggesting the presence of lignin-degrading organisms and mechanisms that are different from known fungal decomposers and oxygen-dependent enzyme activities. We explored microbial lignin-degraders by burying bio-traps containing lignin-amended and unamended biosep beads in the soil for 1, 4, 13 and 30 weeks. At each time point, phenol oxidase and peroxidase enzyme activity was found to be elevated in the lignin-amended versus the unamended beads, while cellulolytic enzyme activities were significantly depressed in lignin-amended beads. Quantitative PCR of bacterial communities showed more bacterial colonization in the lignin-amended compared to the unamended beads after one and four weeks, suggesting that the lignin supported increased bacterial abundance. The microbial community was analyzed by small subunit 16S ribosomal RNA genes using microarray (PhyloChip) and by high-throughput amplicon pyrosequencing based on universal primers targeting bacterial, archaeal, and eukaryotic communities. Community trends were significantly affected by time and the presence of lignin on the beads. Lignin-amended beads have higher relative abundances of representatives from the phyla Actinobacteria, Firmicutes, Acidobacteria and Proteobacteria compared to unamended beads. This study suggests that in low and fluctuating redox soils, bacteria could play a role in anaerobic lignin decomposition.},
doi = {10.1371/journal.pone.0019306},
journal = {PLoS ONE},
issn = {1932-6203},
number = 4,
volume = 6,
place = {United States},
year = {2011},
month = {7}
}