2021
DOI: 10.1038/s41564-020-00840-5
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Genome-resolved metagenomics reveals site-specific diversity of episymbiotic CPR bacteria and DPANN archaea in groundwater ecosystems

Abstract: Candidate phyla radiation (CPR) bacteria and DPANN archaea are unisolated, small-celled symbionts that are often detected in groundwater. The effects of groundwater geochemistry on the abundance, distribution, taxonomic diversity and host association of CPR bacteria and DPANN archaea has not been studied. Here, we performed genome-resolved metagenomic analysis of one agricultural and seven pristine groundwater microbial communities and recovered 746 CPR and DPANN genomes in total. The pristine sites, which ser… Show more

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Cited by 146 publications
(196 citation statements)
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References 88 publications
(145 reference statements)
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“…Patescibacteria with an average relative abundance of 50% across all wells and a maximum of 79% in the 0.1 µm filter fraction. Compared to other groundwater communities dominated by CPR bacteria ranging from 2-28% [16], 3-40% [18], 10-28% [7] and 36-65% [15], the exceptionally high abundance of CPR bacteria discovered in this study is distributed over distinct geochemical zones spanning oxic and anoxic conditions [17,33].…”
Section: Discussionmentioning
confidence: 49%
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“…Patescibacteria with an average relative abundance of 50% across all wells and a maximum of 79% in the 0.1 µm filter fraction. Compared to other groundwater communities dominated by CPR bacteria ranging from 2-28% [16], 3-40% [18], 10-28% [7] and 36-65% [15], the exceptionally high abundance of CPR bacteria discovered in this study is distributed over distinct geochemical zones spanning oxic and anoxic conditions [17,33].…”
Section: Discussionmentioning
confidence: 49%
“…with Paramecium bursaria, a ciliated protist in freshwater [26], or with Actinobacteria (Actinomyces odontolyticus, Propionibacterium propionicus, Schaalia meyeri) in the human oral cavity [12,[27][28][29]. Similarly, CPR bacteria attach as episymbionts to putative bacterial hosts through pilin-like appendages in pristine groundwater [18].…”
Section: Introductionmentioning
confidence: 99%
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“…One hundred eighty-eight genomes were obtained from groundwater samples from Genasci Dairy Farm, located in Modesto, CA, United States (He et al, 2021). Over 400 L of groundwater were filtered from monitoring well 5 on Genasci Dairy Farm over a period ranging from March 2017 to June 2018.…”
Section: Genome Collectionmentioning
confidence: 99%
“…Two other large clusters are also prominent: one contains mostly Betaproteobacteria ( Burkholderiales and Neisseriales ), and another contains Bacteroidetes ( Figure 2 ). Finally, a distinct set of Chloroflexi sequences is also observed, including the genes from Litorilinea aerophila (GenBank ID OUC06986.1, unpublished), Caldilinea aerophila [ 104 ], and Aggregatilinea lenta [ 105 ], as well as numerous genes belonging to anaerobic ammonium oxidation (anammox) bacterial community members [ 106 , 107 , 108 , 109 , 110 , 111 , 112 , 113 , 114 , 115 ] such as Candidatus Denitrolinea symbiosum [ 116 ].…”
Section: Natural Diversity Of Nitrate- and Nitrite-sensing Histidine Kinasesmentioning
confidence: 99%