The Family Comamonadaceae

Willems, Anne

doi:10.1007/978-3-642-30197-1_238

Cited by 133 publications

(97 citation statements)

References 193 publications

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“…This abundance distribution pattern is commonly seen in microbial ecology (Nemergut et al, 2013) in which only a few taxa are present in abundance; the majority of the taxa present are rare. Higher phylogenetic/taxonomic groups (phyla, classes) were shared across sites, consisting mainly of members of the phenotypically diverse Betaproteobacterial families Comamonadaceae (Willems, 2014) and Rhodocyclaceae (Oren, 2014). The OTUs detected across the boreholes were most closely related to uncultivated taxa; however, the closest cultivated representatives are capable of metabolism as diverse as oxic, microoxic, and anoxic growth through chemoorganoheterotrophy, oxidation of iron, sulfur, and hydrogen, and the reduction of nitrate, iron and manganese, and even N-fixation.…”

Section: Discussionmentioning

confidence: 99%

Local and Regional Diversity Reveals Dispersal Limitation and Drift as Drivers for Groundwater Bacterial Communities from a Fractured Granite Formation

et al. 2016

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Microorganisms found in terrestrial subsurface environments make up a large proportion of the Earth’s biomass. Biogeochemical cycles catalyzed by subsurface microbes have the potential to influence the speciation and transport of radionuclides managed in geological repositories. To gain insight on factors that constrain microbial processes within a formation with restricted groundwater flow we performed a meta-community analysis on groundwater collected from multiple discrete fractures underlying the Chalk River Laboratories site (located in Ontario, Canada). Bacterial taxa were numerically dominant in the groundwater. Although these were mainly uncultured, the closest cultivated representatives were from the phenotypically diverse Betaproteobacteria, Deltaproteobacteria, Bacteroidetes, Actinobacteria, Nitrospirae, and Firmicutes. Hundreds of taxa were identified but only a few were found in abundance (>1%) across all assemblages. The remainder of the taxa were low abundance. Within an ecological framework of selection, dispersal and drift, the local and regional diversity revealed fewer taxa within each assemblage relative to the meta-community, but the taxa that were present were more related than predicted by chance. The combination of dispersion at one phylogenetic depth and clustering at another phylogenetic depth suggest both niche (dispersion) and filtering (clustering) as drivers of local assembly. Distance decay of similarity reveals apparent biogeography of 1.5 km. Beta diversity revealed greater influence of selection at shallow sampling locations while the influences of dispersal limitation and randomness were greater at deeper sampling locations. Although selection has shaped each assemblage, the spatial scale of groundwater sampling favored detection of neutral processes over selective processes. Dispersal limitation between assemblages combined with local selection means the meta-community is subject to drift, and therefore, likely reflects the differential historical events that have influenced the current bacterial composition. Categorizing the study site into smaller regions of interest of more closely spaced fractures, or of potentially hydraulically connected fractures, might improve the resolution of an analysis to reveal environmental influences that have shaped these bacterial communities.

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Section: Discussionmentioning

confidence: 99%

Local and Regional Diversity Reveals Dispersal Limitation and Drift as Drivers for Groundwater Bacterial Communities from a Fractured Granite Formation

et al. 2016

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“…The cultivated lineage most closely related to the abundant iron mat OTU is the iron-reducing bacterium Rhodoferax ferrireducens (23). However, the genus Rhodoferax is metabolically diverse, consisting of species that carry out anoxygenic photosynthesis and chemotrophy (24); furthermore, members of the family Comamonadaceae, which includes Leptothrix species, exhibit a wide range of physiologies (25). Thus, the metabolic function(s) of these prevalent Comamonadaceae OTUs is unclear, and given the diversity of different oligotypes, it is possible there are different strains with different metabolisms.…”

Section: Discussionmentioning

confidence: 99%

Microbial Iron Oxidation in the Arctic Tundra and Its Implications for Biogeochemical Cycling

Emerson

Scott

Beneš

et al. 2015

Appl Environ Microbiol

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The role that neutrophilic iron-oxidizing bacteria play in the Arctic tundra is unknown. This study surveyed chemosynthetic iron-oxidizing communities at the North Slope of Alaska near Toolik Field Station (TFS) at Toolik Lake (lat 68.63, long ؊149.60). Microbial iron mats were common in submerged habitats with stationary or slowly flowing water, and their greatest areal extent is in coating plant stems and sediments in wet sedge meadows. Some Fe-oxidizing bacteria (FeOB) produce easily recognized sheath or stalk morphotypes that were present and dominant in all the mats we observed. The cool water temperatures (9 to 11°C) and reduced pH (5.0 to 6.6) at all sites kinetically favor microbial iron oxidation. A microbial survey of five sites based on 16S rRNA genes found a predominance of Proteobacteria, with Betaproteobacteria and members of the family Comamonadaceae being the most prevalent operational taxonomic units (OTUs). In relative abundance, clades of lithotrophic FeOB composed 5 to 10% of the communities. OTUs related to cyanobacteria and chloroplasts accounted for 3 to 25% of the communities. Oxygen profiles showed evidence for oxygenic photosynthesis at the surface of some mats, indicating the coexistence of photosynthetic and FeOB populations. The relative abundance of OTUs belonging to putative Fe-reducing bacteria (FeRB) averaged around 11% in the sampled iron mats. Mats incubated anaerobically with 10 mM acetate rapidly initiated Fe reduction, indicating that active iron cycling is likely. The prevalence of iron mats on the tundra might impact the carbon cycle through lithoautotrophic chemosynthesis, anaerobic respiration of organic carbon coupled to iron reduction, and the suppression of methanogenesis, and it potentially influences phosphorus dynamics through the adsorption of phosphorus to iron oxides. The Arctic tundra biome is fascinating in its own right and has the potential to be heavily affected by changes in climate associated with increased atmospheric CO 2 concentrations and global warming. One of the most dramatic impacts is likely to be a change in the dynamics of permanently frozen soils (permafrost) as overall temperatures rise and the shoulder seasons of thaw and freeze-up expand (1-3). Understanding the biogeochemical implications of climate change in the Arctic is important, in part because relative to its total landmass area, permafrost stores an outsized fraction of organic carbon (4). The fate of that carbon, especially the portion that is mineralized to CO 2 and/or methane, has the potential to impact further climate change through the release of greenhouse gases. Understanding the range of biogeochemical processes in the Arctic and how they impact the carbon cycle, either directly or indirectly, is thus of vital importance.In general, the microbial iron cycle in the Arctic tundra is poorly understood. Only in the past few years have studies started to investigate the reductive aspects of the iron cycle, which have shown that Fe-reducing bacteria can account for a large fracti...

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“…The Ectothiorhodospiraceae are facultative, photoheterotrophic and chemoheterotrophic bacteria which is related to sulfate assimilation and petroleum organic utilization (Imhoff, 2006). The Methylococcaceae are methanotrophs capable of cometabolically degrading aromatic hydrocarbons and their halogenated derivatives under aerobic conditions (Wendlandt et al, 2010) while the Comamonadaceae is a bacteria family which contains diverse organotrophs (Willems, 2014). For the ozonated OSPW biofilm, the most abundant genus was Acidobacteriaceae (14.5%), followed by an unidentified family under Gammaproteobacteria (13.0%), Comamonadaceae (11.7%), Ectothiorhodospiraceae (10.8%), and Bradyrhizobiaceae (5.1%) (Fig.…”

Section: Tablementioning

confidence: 99%

Mechanistic investigation of industrial wastewater naphthenic acids removal using granular activated carbon (GAC) biofilm based processes

Islam

Zhang

McPhedran

et al. 2016

Science of The Total Environment

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The Family Comamonadaceae

Cited by 133 publications

References 193 publications

Local and Regional Diversity Reveals Dispersal Limitation and Drift as Drivers for Groundwater Bacterial Communities from a Fractured Granite Formation

Local and Regional Diversity Reveals Dispersal Limitation and Drift as Drivers for Groundwater Bacterial Communities from a Fractured Granite Formation

Microbial Iron Oxidation in the Arctic Tundra and Its Implications for Biogeochemical Cycling

Mechanistic investigation of industrial wastewater naphthenic acids removal using granular activated carbon (GAC) biofilm based processes

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