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Title: WA-IsoC_MSC1.1.0 (in EN)

Abstract

The soil microbiome is central to the cycling of carbon and other nutrients and to the promotion of plant growth. Despite its importance, analysis of the soil microbiome is difficult due to its sheer complexity, with thousands of interacting species. Here, we reduced this complexity by developing model soil microbial consortia that are simpler and more amenable to experimental analysis but still represent important microbial functions of the native soil ecosystem. Samples were collected from an arid grassland soil and microbial communities (consisting mainly of bacterial species) were enriched on agar plates containing chitin as the main carbon source. Chitin was chosen because it is an abundant carbon and nitrogen polymer in soil that often requires the coordinated action of several microorganisms for complete metabolic degradation. Several soil consortia were derived that had tractable richness (30-50 OTUs) with diverse phyla representative of the native soil, including Actinobacteria, Bacteroidetes, Firmicutes, Proteobacteria and Verrucomicrobia. The resulting consortia can be stored as glycerol or lyophilized stocks at -80° C and revived while retaining community composition, greatly increasing their use as tools for the research community at large. One of the consortia that was particularly stable was chosen as a model soil consortium (MSC-1)more » for further analysis. MSC-1 species interactions were studied using both pairwise co-cultivation in liquid media and during growth in soil under several perturbations. Co-abundance analyses highlighted interspecies interactions and helped to define keystone species, including Mycobacterium, Rhodococcus, and Rhizobiales taxa. These experiments demonstrate the success of an approach based on naturally enriching a community of interacting species that can be stored, revived, and shared. The knowledge gained from querying these communities and their interactions will enable better understanding of the soil microbiome and the roles these interactions play in this environment.« less

Authors:
ORCiD logo
  1. Pacific Northwest National Laboratory
Contributors:
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  1. Pacific Northwest National Laboratory
Publication Date:
Other Number(s):
WA-IsoC_MSC1.1.0
DOE Contract Number:  
DE-AC05-76RLO1830
Product Type:
Dataset
Research Org.:
Pacific Northwest National Lab. (PNNL), Richland, WA (United States)
Sponsoring Org.:
SC-23
Subject:
54 ENVIRONMENTAL SCIENCES
Keywords:
soil microbiome model consortia
OSTI Identifier:
1635272
DOI:
https://doi.org/10.25584/WAIsoCMSC1/1635272

Citation Formats

McClure, Ryan, and Anderson, Lindsey. WA-IsoC_MSC1.1.0. United States: N. p., 2020. Web. doi:10.25584/WAIsoCMSC1/1635272.
McClure, Ryan, & Anderson, Lindsey. WA-IsoC_MSC1.1.0. United States. doi:https://doi.org/10.25584/WAIsoCMSC1/1635272
McClure, Ryan, and Anderson, Lindsey. 2020. "WA-IsoC_MSC1.1.0". United States. doi:https://doi.org/10.25584/WAIsoCMSC1/1635272. https://www.osti.gov/servlets/purl/1635272. Pub date:Wed Jul 01 00:00:00 EDT 2020
@article{osti_1635272,
title = {WA-IsoC_MSC1.1.0},
author = {McClure, Ryan and Anderson, Lindsey},
abstractNote = {The soil microbiome is central to the cycling of carbon and other nutrients and to the promotion of plant growth. Despite its importance, analysis of the soil microbiome is difficult due to its sheer complexity, with thousands of interacting species. Here, we reduced this complexity by developing model soil microbial consortia that are simpler and more amenable to experimental analysis but still represent important microbial functions of the native soil ecosystem. Samples were collected from an arid grassland soil and microbial communities (consisting mainly of bacterial species) were enriched on agar plates containing chitin as the main carbon source. Chitin was chosen because it is an abundant carbon and nitrogen polymer in soil that often requires the coordinated action of several microorganisms for complete metabolic degradation. Several soil consortia were derived that had tractable richness (30-50 OTUs) with diverse phyla representative of the native soil, including Actinobacteria, Bacteroidetes, Firmicutes, Proteobacteria and Verrucomicrobia. The resulting consortia can be stored as glycerol or lyophilized stocks at -80° C and revived while retaining community composition, greatly increasing their use as tools for the research community at large. One of the consortia that was particularly stable was chosen as a model soil consortium (MSC-1) for further analysis. MSC-1 species interactions were studied using both pairwise co-cultivation in liquid media and during growth in soil under several perturbations. Co-abundance analyses highlighted interspecies interactions and helped to define keystone species, including Mycobacterium, Rhodococcus, and Rhizobiales taxa. These experiments demonstrate the success of an approach based on naturally enriching a community of interacting species that can be stored, revived, and shared. The knowledge gained from querying these communities and their interactions will enable better understanding of the soil microbiome and the roles these interactions play in this environment.},
doi = {10.25584/WAIsoCMSC1/1635272},
journal = {},
number = ,
volume = ,
place = {United States},
year = {2020},
month = {7}
}