Hydrogenophaga, a New Genus of Hydrogen-Oxidizing Bacteria That Includes Hydrogenophaga flava comb. nov. (Formerly Pseudomonas flava), Hydrogenophaga palleronii (Formerly Pseudomonas palleronii), Hydrogenophaga pseudoflava (Formerly Pseudomonas pseudoflava and "Pseudomonas carboxydoflava"), and Hydrogenophaga taeniospiralis (Formerly Pseudomonas taeniospiralis)

Willems, Anne; Busse, Jürgen; Goor, M.; Pot, Bruno; Falsen, Enevold; Jantzen, Erik; Hoste, Bart; Gillis, Monique; Kersters, Karel; Auling, Georg; Ley, J. De

doi:10.1099/00207713-39-3-319

Cited by 273 publications

(135 citation statements)

References 34 publications

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“…The d 13 C values also correlated with some betaproteobacterial OTUs. For example, the betaproteobacterial OTU 3013 was 99% identical to several species within the genus Hydrogenophaga, and family Comamonadaceae that are characterized by the ability to oxidize hydrogen and can also grow aerobically or reduce nitrate using a number of organic compounds, mainly organic acids (Willems et al, 1989). Indeed, we found substantial amounts of Betaproteobacteria sequences within this and the Rhodocyclaceae family, mostly within the genus Dechloromonas.…”

Section: Discussionmentioning

confidence: 79%

River organic matter shapes microbial communities in the sediment of the Rhône prodelta

et al. 2014

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Microbial-driven organic matter (OM) degradation is a cornerstone of benthic community functioning, but little is known about the relation between OM and community composition. Here we use Rhô ne prodelta sediments to test the hypothesis that OM quality and source are fundamental structuring factors for bacterial communities in benthic environments. Sampling was performed on four occasions corresponding to contrasting river-flow regimes, and bacterial communities from seven different depths were analyzed by pyrosequencing of 16S rRNA gene amplicons. The sediment matrix was characterized using over 20 environmental variables including bulk parameters (for example, total nitrogen, carbon, OM, porosity and particle size), as well as parameters describing the OM quality and source (for example, pigments, total lipids and amino acids and d 13 C), and molecular-level biomarkers like fatty acids. Our results show that the variance of the microbial community was best explained by d 13 C values, indicative of the OM source, and the proportion of saturated or polyunsaturated fatty acids, describing OM lability. These parameters were traced back to seasonal differences in the river flow, delivering OM of different quality and origin, and were directly associated with several frequent bacterial operational taxonomic units. However, the contextual parameters, which explained at most 17% of the variance, were not always the key for understanding the community assembly. Co-occurrence and phylogenetic diversity analysis indicated that bacteria-bacteria interactions were also significant. In conclusion, the drivers structuring the microbial community changed with time but remain closely linked with the river OM input.

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Section: Discussionmentioning

confidence: 79%

River organic matter shapes microbial communities in the sediment of the Rhône prodelta

et al. 2014

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“…There was a good correlation between rRNA groups I to V and groups 1 to 5 based on cellular fatty acids and quinone systems. In the past two decades Pseudomonas species belonging to rRNA groups I1 to V or fatty acid and quinone groups 2 to 9 have been transferred to other genera (10,13,14,16,17,19,20). At this time, the genus Pseudomonas is restricted to Palleroni rRNA group I, and only the group I strains belong to the genus Pseudomonas sensu stricto.…”

Section: Resultsmentioning

confidence: 99%

The Phylogeny of the Genera Chryseomonas, Flavimonas, and Pseudomonas Supports Synonymy of These Three Genera

Anzai

Kudo

Oyaizu

1997

International Journal of Systematic Bacteriology

273

153

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The 16s rRNA sequences of Chryseomonas Zuteola, the type species of the genus Chryseomonas, and Flavimonas oryzihabitans, the type species of the genus Flavimonas, were determined. These sequences were compared with the sequences of 27 representative strains of the genus Pseudomonus. C. Zuteola and F. oryzihabitans were located in the cluster that contains Pseudomonas aemginosa, the type species of genus Pseudomonas Migula 1894, and the levels of 16s rRNA sequence homology between P. aemginosa and the other two species were more than 93.9%. All of the strains of the genus Pseudomonas sensu stricto whose sequences have been determined were included in the P. aemginosa cluster. These results suggested that Chryseomonas, Flavimonas, and Pseudomonas are synonymous, and we concluded that Chryseomonas and Flavimonas are junior subjective synonyms of Pseudomonas.

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“…Previously published DNA-rRNA hybridization data (12,58) We isolated two stable colony types from the original culture and labeled them t l and t2. Since both types produced almost identical protein electrophoretic patterns, we only used colony type t l .…”

Section: Resultsmentioning

confidence: 99%

Transfer of Several Phytopathogenic Pseudomonas Species to Acidovorax as Acidovorax avenae subsp. avenae subsp. nov., comb. nov., Acidovorax avenae subsp. citrulli, Acidovorax avenae subsp. cattleyae, and Acidovorax konjaci

Willems

Goor

Thielemans

et al. 1992

International Journal of Systematic Bacteriology

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226

104

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Cited by 273 publications

References 34 publications

River organic matter shapes microbial communities in the sediment of the Rhône prodelta

River organic matter shapes microbial communities in the sediment of the Rhône prodelta

The Phylogeny of the Genera Chryseomonas, Flavimonas, and Pseudomonas Supports Synonymy of These Three Genera

Transfer of Several Phytopathogenic Pseudomonas Species to Acidovorax as Acidovorax avenae subsp. avenae subsp. nov., comb. nov., Acidovorax avenae subsp. citrulli, Acidovorax avenae subsp. cattleyae, and Acidovorax konjaci

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