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Model Soil Consortium-2 (MSC-2)

Community ID CommunityMech:000086
Ecological State ENGINEERED
Environment grassland soil
ENVO:00001998

Reduced-complexity model soil consortium assembled from MSC-1 isolates to study community-level chitin decomposition, interspecies interactions, and emergent phenotypes in soil. MSC-2 contains eight bacterial members spanning diverse phyla and was used for isolate genome sequencing, 16S profiling, metatranscriptomics, metabolomics, and KBase-enabled metabolic modeling in the Hofmockel Soil Microbiome SFA context.

Taxonomy

Taxon Ontology ID Functional Roles Abundance
Streptomyces sp. MSC1_001 NCBITaxon:1931
CROSS_FEEDER
N/A
Neorhizobium tomejilense MSC1_005 NCBITaxon:2093828
CROSS_FEEDER
N/A
Dyadobacter sp. MSC1_007 NCBITaxon:1914288
PRIMARY_DEGRADER
N/A
Sphingopyxis sp. MSC1_008 NCBITaxon:1908224
CROSS_FEEDER
N/A
Ensifer adhaerens MSC1_011 NCBITaxon:106592
PRIMARY_DEGRADER
N/A
Variovorax beijingensis MSC1_012 NCBITaxon:2496117
PRIMARY_DEGRADER CROSS_FEEDER
N/A
Sinorhizobium meliloti MSC1_014 NCBITaxon:382
PRIMARY_DEGRADER
N/A
Rhodococcus sp. MSC1_016 NCBITaxon:1827
PRIMARY_DEGRADER
N/A

Ecological Interactions

Ecological interaction network for Model Soil Consortium-2 (MSC-2) Bipartite graph where circle nodes represent taxa and colored rectangles represent ecological interactions (cross-feeding, mutualism, syntrophy, competition, commensalism).
Taxon
Cross-feeding
Mutualism
Syntrophy
Competition
Commensalism
Niche partitioning
Colonization facilitation
Strain competition
Predation

Chitin Breakdown Product Sharing

CROSS_FEEDING

Metabolites: chitin (CHEBI:18246)

Downstream Effects:
→ Community growth on chitin decomposition products

Evidence

  • PMID:36154140 - SUPPORT (IN_VITRO)
    "the most abundant members of MSC-2 were not those that were able to metabolize chitin itself, but rather those that were able to take full advantage of interspecies interactions to grow on chitin decomposition products"

Community-Responsive Streptomyces Chitin Phenotype

NICHE_PARTITIONING

Source Taxon: Streptomyces sp. MSC1_001

Downstream Effects:
→ Distinct functional roles during chitin degradation

Evidence

  • PMID:36154140 - SUPPORT (IN_VITRO)
    "Emergent properties of both species and the community were found, including changes in the chitin degradation potential of Streptomyces species and organization of all species into distinct roles in the chitin degradation process."

Associated Datasets

Dataset Type Repository Accession
MSC-2 isolate genomes
BioProject containing the eight isolate genome assemblies used for MSC-2. 		GENOME NCBI_BIOPROJECT PRJNA788902
MSC-2 bacterial isolate genomes (PNNL DataHub)
PNNL DataHub record linking the MSC-2 isolate genome assemblies and accessions. 		GENOME OTHER 10.25584/PNNLDH/1986536
MSC-2 16S growth dataset
16S rRNA gene data from MSC-2 growth experiments. 		AMPLICON_16S OTHER PNNLDH:33231
MSC-2 metatranscriptomic dataset
Metatranscriptomic data from MSC-2 chitin growth assays. 		METATRANSCRIPTOME OTHER PNNLDH:33232
MSC-2 primary publication
Primary publication describing MSC-2 assembly, multiomics, and community interaction results. 		OTHER OTHER PMID:36154140

External Resources

Name Repository Resource ID
KBase Soil Microbiome SFA collaboration page
KBase Soil Microbiome SFA page describing OMEGGA and MSC-2 use in ModelSEED2 workflows. 		KBASE hofmockel-sfa