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Episymbiotic CPR Bacteria and DPANN Archaea Groundwater Community

Community ID CommunityMech:000237
Ecological State STABLE
Environment pristine and agricultural groundwater aquifer
ENVO:01001004

A groundwater microbial community framework combining genome-resolved metagenomics from one agricultural and seven pristine groundwater sites, yielding 746 Candidate Phyla Radiation (CPR) bacterial and DPANN archaeal genomes. Pristine sites, which serve as local sources of drinking water, contained up to 31 percent CPR bacteria and 4 percent DPANN archaea. Little species-level overlap of metagenome-assembled genomes was observed across the sites, indicating that CPR and DPANN communities are differentiated according to physicochemical conditions and host populations. Cryogenic transmission electron microscopy and genomic analysis identified CPR and DPANN lineages that reproducibly attach to host cells, with attachment apparently stimulating CPR bacterial growth.

Taxonomy

Taxon Ontology ID Functional Roles Abundance
groundwater CPR (Candidate Phyla Radiation) bacteria NCBITaxon:1783234
SYNTROPHIC_PARTNER
DOMINANT
  • PMID:33495623 - SUPPORT (IN_VIVO)
    "The pristine sites, which serve as local sources of drinking water, contained up to 31% CPR bacteria"
  • PMID:32252814 - SUPPORT (COMPUTATIONAL)
    "wells over time, we sequenced the 16S rRNA gene of 214 samples as well as the metagenomes of 12 representative wells to identify features unique to the Patescibacteria"
groundwater DPANN archaea NCBITaxon:1934217
SYNTROPHIC_PARTNER
ABUNDANT
groundwater CPR/DPANN host bacteria and archaea NCBITaxon:131567
PRIMARY_DEGRADER
N/A
  • PMID:33495623 - SUPPORT (IN_VIVO)
    "coexist with diverse hosts in groundwater aquifers"

Ecological Interactions

Ecological interaction network for Episymbiotic CPR Bacteria and DPANN Archaea Groundwater Community 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

CPR/DPANN Episymbiotic Attachment to Hosts

SYNTROPHY

Source Taxon: groundwater CPR (Candidate Phyla Radiation) bacteria

Target Taxon: groundwater CPR/DPANN host bacteria and archaea

Evidence

  • PMID:33495623 - SUPPORT (IN_VIVO)
    "CPR and DPANN lineages that reproducibly attach to host cells"
  • PMID:33495623 - SUPPORT (IN_VIVO)
    "the growth of CPR bacteria seems to be stimulated by attachment to host-cell surfaces"

Site-Specific CPR/DPANN Differentiation

NICHE_PARTITIONING

Evidence

  • PMID:33495623 - SUPPORT (IN_VIVO)
    "little species-level overlap of metagenome-assembled genomes (MAGs) across the groundwater sites"

External Resources

Name Repository Resource ID
Primary publication for the episymbiotic CPR/DPANN groundwater community
PubMed record for the He et al. 2021 Nature Microbiology paper. 		OTHER PMID:33495623
  • PMID:33495623 - SUPPORT (IN_VIVO)
    "site-specific diversity of CPR bacteria and DPANN archaea"
DOI landing page
DOI link to the Nature Microbiology paper. 		OTHER doi:10.1038/s41564-020-00840-5

Environmental Factors

Factor Value Unit
Site land use one agricultural and seven pristine groundwater sites N/A
  • PMID:33495623 - SUPPORT (IN_VIVO)
    "one agricultural and seven pristine groundwater microbial communities"