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Thalassiosira-Ruegeria Phycosphere Coculture

Community ID CommunityMech:000162
Ecological State ENGINEERED
Environment laboratory marine phytoplankton coculture
ENVO:01001405

A defined two-member marine phytoplankton-bacterium model community composed of the diatom Thalassiosira pseudonana CCMP1335 and the heterotrophic roseobacter Ruegeria pomeroyi DSS-3. The coculture is used to study bacterial recognition by a diatom, phytoplankton-derived metabolite transfer, and bacterial use of recent photosynthate in a controlled marine algal medium.

Taxonomy

Taxon Ontology ID Functional Roles Abundance
Thalassiosira pseudonana CCMP1335 NCBITaxon:296543
PRIMARY_PRODUCER CROSS_FEEDER
N/A
  • PMID:28631440 - SUPPORT (IN_VITRO)
    "diatom Thalassiosira pseudonana CCMP1335"
  • PMID:33097854 - SUPPORT (IN_VITRO)
    "T. pseudonana 1335 (National Center for Marine Algae) was grown axenically in organic carbon-free medium L1 +Si"
Ruegeria pomeroyi DSS-3 NCBITaxon:246200
CROSS_FEEDER
N/A
  • PMID:28631440 - SUPPORT (IN_VITRO)
    "Ruegeria pomeroyi DSS-3"
  • PMID:33097854 - SUPPORT (IN_VITRO)
    "bacteria pre-grown in YTSS medium were washed five times in sterile L1 medium and inoculated into three replicate diatom cultures"

Ecological Interactions

Ecological interaction network for Thalassiosira-Ruegeria Phycosphere Coculture 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

Diatom Recognition of Ruegeria

COLONIZATION_FACILITATION

Source Taxon: Ruegeria pomeroyi DSS-3

Target Taxon: Thalassiosira pseudonana CCMP1335

Biological Processes:

  • cell communication (GO:0007154)
  • biological process involved in interspecies interaction between organisms (GO:0044419)

Evidence

  • PMID:28631440 - SUPPORT (IN_VITRO)
    "Bacterium Ruegeria pomeroyi DSS-3 triggered differential expression of >80 genes in diatom Thalassiosira pseudonana CCMP1335"

Phytoplankton Metabolite Transfer to Ruegeria

CROSS_FEEDING

Source Taxon: Thalassiosira pseudonana CCMP1335

Target Taxon: Ruegeria pomeroyi DSS-3

Biological Processes:

  • photosynthesis (GO:0015979)
  • carbohydrate metabolic process (GO:0005975)
  • sulfur compound metabolic process (GO:0006790)
  • biological process involved in interspecies interaction between organisms (GO:0044419)

Evidence

  • PMID:28631440 - SUPPORT (IN_VITRO)
    "we hypothesize that nine diatom metabolites supported the majority of bacterial growth, among them sulfonates, sugar derivatives and organic nitrogen compounds"
  • PMID:33097854 - SUPPORT (IN_VITRO)
    "marine phytoplankter T. pseudonana CCMP1335 served as the sole carbon source for three bacterial strains"

Diatom Chitin and Lipid Response During Coculture

CROSS_FEEDING

Source Taxon: Ruegeria pomeroyi DSS-3

Target Taxon: Thalassiosira pseudonana CCMP1335

Biological Processes:

  • carbohydrate metabolic process (GO:0005975)
  • biological process involved in interspecies interaction between organisms (GO:0044419)

Evidence

  • PMID:28631440 - SUPPORT (IN_VITRO)
    "Co-cultured diatoms also downregulated lipid biosynthesis genes and upregulated chitin metabolism genes."

Associated Datasets

Dataset Type Repository Accession
Exact-composition publication - Thalassiosira-Ruegeria recognition cascade
Primary two-member model-system publication reporting T. pseudonana CCMP1335 responses to R. pomeroyi DSS-3 and inferred metabolite transfer. 		PHENOTYPE OTHER PMID:28631440
Exact-composition publication - pairwise diatom exometabolite use by Ruegeria
Follow-up pairwise coculture publication that includes T. pseudonana as the substrate source for R. pomeroyi DSS-3 and compares exometabolite use across bacterial partners. 		METABOLOMICS OTHER PMID:33097854
Diatom-bacterium coculture RNA-seq BioProject
Public RNA-seq data associated with pairwise T. pseudonana coculture experiments. 		METATRANSCRIPTOME NCBI_BIOPROJECT PRJNA448168
Diatom-bacterium coculture metabolomics data
MetaboLights datasets for intracellular and exometabolite measurements used in the pairwise diatom-bacterium coculture study. 		METABOLOMICS OTHER MTBLS1751; MTBLS1544

Environmental Factors

Factor Value Unit
organic carbon-free L1 +Si medium L1 +Si medium without added organic carbon N/A
  • PMID:33097854 - SUPPORT (IN_VITRO)
    "T. pseudonana 1335 (National Center for Marine Algae) was grown axenically in organic carbon-free medium L1 +Si"
diatom culture age at inoculation bacteria inoculated after 7 days of diatom growth N/A
  • PMID:33097854 - SUPPORT (IN_VITRO)
    "After the diatom cultures had been growing for 7 days, bacteria pre-grown in YTSS medium were washed"
marine photosynthate availability dissolved metabolites released by T. pseudonana N/A
  • PMID:33097854 - SUPPORT (IN_VITRO)
    "Exometabolite uptake pattern points to a key role for ecological resource partitioning in the assembly marine bacterial communities transforming recent photosynthate."

Growth Media

L1 +Si marine diatom coculture medium

Atmosphere AEROBIC

Preparation notes: T. pseudonana CCMP1335 was grown axenically in organic carbon-free L1 +Si medium; R. pomeroyi DSS-3 was pre-grown in YTSS, washed repeatedly in sterile L1 medium, and inoculated into replicate diatom cultures.

Evidence

PMID:33097854

"bacteria pre-grown in YTSS medium were washed five times in sterile L1 medium and inoculated into three replicate diatom cultures"