Herminiimonas arsenicoxydans sp. nov., a metalloresistant bacterium

Müller, Daniel; Simeonova, Diliana D.; Riegel, Philippe; Mangenot, Sophie; Koechler, Sandrine; Lièvremont, Didier; Bertin, Philippe; Lett, Marie‐Claire

doi:10.1099/ijs.0.64308-0

Cited by 81 publications

(65 citation statements)

References 20 publications

(17 reference statements)

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“…Urease was weakly positive after 6 days of incubation at 28 u C. Only a few carbon sources, mainly organic acids, could be used as sole sources of carbon. (99.6-99.8 %) show significant phenotypic and also genotypic differences sufficient for them to be classified as separate species, thus confirming the results of previous studies on bacteria of this genus (Kämpfer et al, 2006;Muller et al, 2006;Lang et al, 2007;Loveland-Curtze et al, 2009;Sahin et al, 2010). On the basis of these results as well as the phenotypic traits, we describe a novel species, for which the name Herminiimonas contaminans sp.…”

supporting

confidence: 90%

Herminiimonas contaminans sp. nov., isolated as a contaminant of biopharmaceuticals

Kämpfer

Glaeser

Lodders

et al. 2013

International Journal of Systematic and Evolutionary Microbiology

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A Gram-staining-negative, rod-shaped, non-spore-forming bacterium isolated as a contaminant from a biopharmaceutical process (strain CCUG 53591 T ) was studied for its taxonomic allocation. On the basis of 16S rRNA gene sequence similarity data, this strain was clearly allocated to the genus Herminiimonas. Herminiimonas saxobsidens was shown to be the most closely related species on the basis of 16S rRNA gene sequence similarity (99.9 %), followed by Herminiimonas glaciei (99.6 %) and Herminiimonas arsenicoxydans (98.8 %). Strain ND5, previously reported as H. glaciei, but showing 100 % 16S rRNA gene sequence similarity to strain CCUG 53591T , was included in the comparative study. Similarities to all other species of the genus Herminiimonas were below 98.0 %. Chemotaxonomic data (major ubiquinone, Q-8; major polar lipids, phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol; and major fatty acids, C 17 : 0 cyclo, C 19 : 0 cyclo v8c and C 16 : 0, with C 10 : 0 3-OH as hydroxylated fatty acid) supported the affiliation of the isolate to the genus Herminiimonas.

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supporting

confidence: 90%

Herminiimonas contaminans sp. nov., isolated as a contaminant of biopharmaceuticals

Kämpfer

Glaeser

Lodders

et al. 2013

International Journal of Systematic and Evolutionary Microbiology

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“…None of the carbohydrates offered in the API 20NE or API 50 CH strips was utilized. The enzyme reactions found for strain NS11 T with API ZYM strips as given in the species description below are in good agreement with those reported for strains of H. fonticola (Muller et al, 2006). These characteristics of strain NS11 T are generally in accordance with those described for the three recognized Herminiimonas species and differentiate these species from members of the closely related genus Janthinobacterium, which utilize carbohydrates (Lincoln et al, 1999).…”

supporting

confidence: 85%

“…Although some components differed slightly only in quantity, a significant deviation was the absence of C 17 : 1 v6c in H. aquatilis DSM 18803 T , which is described to be present in H. aquatilis CCUG 36956 T by Kämpfer et al (2006). C 17 : 1 v6c is absent in four H. fonticola strains (Fernandes et al, 2005) and in H. arsenicoxydans ULPAs1 T (Muller et al, 2006). Possibly, the choice of the growth medium and age of cells used has influenced the fatty-acid composition.…”

mentioning

confidence: 99%

Herminiimonas saxobsidens sp. nov., isolated from a lichen-colonized rock

Lang

Swiderski

Stackebrandt

et al. 2007

International Journal of Systematic and Evolutionary Microbiology

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A Gram-negative, rod-shaped, non-spore-forming bacterium (strain NS11 T ) was isolated from a lichen-colonized rock surface. On the basis of 16S rRNA gene sequence similarity, strain NS11 T was shown to belong to the Betaproteobacteria, and was most closely related to Herminiimonas arsenicoxydans ULPAs1 T (98.8 %), Herminiimonas aquatilis CCUG 36956 T (98.0 %) and Herminiimonas fonticola S-94 T (98.0 %). Major whole-cell fatty acids were C 16 : 0 , C 17 : 0 cyclo and C 16 : 1 v7c. Strain NS11 T also contained high proportions of C 10 : 0 3-OH and C 18 : 1 v7c. This pattern is typical for members of the genus Herminiimonas. The results of DNA-DNA hybridization experiments and physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain NS11 T from the three recognized Herminiimonas species. It is therefore concluded that strain NS11 T represents a novel species of the genus Herminiimonas, for which the name Herminiimonas saxobsidens sp. nov. is proposed. The type strain is NS11 T (5DSM 18748 T 5CCM 7436 T ).

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“…The vertices within the communities are connected by 2383 edegs, of which 2341 (98%) are within the same taxonomic group, and 42 (2%) are between species from different groups. The top recipient in this module is Herminiimonas arsenicoxydans, a heterotrophic b-proteobacterium that was isolated from heavy metal contaminated sludge from an industrial watertreatment plant (Muller et al 2006). The donors connected to H. arsenicoxydans are Parvibaculum lavamentivorans, an a-proteobacterium isolated from urban sewage treatment plants (Schleheck et al 2000), and Xanthomonas campestris str.…”

Section: Community Structure In the Directed Network Of Recent Lgtmentioning

confidence: 99%

Directed networks reveal genomic barriers and DNA repair bypasses to lateral gene transfer among prokaryotes

Popa

Hazkani‐Covo²,

Landan³

et al. 2011

Genome Res.

224

204

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Lateral gene transfer (LGT) plays a major role in prokaryote evolution with only a few genes that are resistant to it; yet the nature and magnitude of barriers to lateral transfer are still debated. Here, we implement directed networks to investigate donor-recipient events of recent lateral gene transfer among 657 sequenced prokaryote genomes. For 2,129,548 genes investigated, we detected 446,854 recent lateral gene transfer events through nucleotide pattern analysis. Among these, donor-recipient relationships could be specified through phylogenetic reconstruction for 7% of the pairs, yielding 32,028 polarized recent gene acquisition events, which constitute the edges of our directed networks. We find that the frequency of recent LGT is linearly correlated both with genome sequence similarity and with proteome similarity of donor-recipient pairs. Genome sequence similarity accounts for 25% of the variation in gene-transfer frequency, with proteome similarity adding only 1% to the variability explained. The range of donor-recipient GC content similarity within the network is extremely narrow, with 86% of the LGTs occurring between donor-recipient pairs having #5% difference in GC content. Hence, genome sequence similarity and GC content similarity are strong barriers to LGT in prokaryotes. But they are not insurmountable, as we detected 1530 recent transfers between distantly related genomes. The directed network revealed that recipient genomes of distant transfers encode proteins of nonhomologous end-joining (NHEJ; a DNA repair mechanism) far more frequently than the recipient lacking that mechanism. This implicates NHEJ in genes spread across distantly related prokaryotes through bypassing the donor-recipient sequence similarity barrier.

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Herminiimonas arsenicoxydans sp. nov., a metalloresistant bacterium

Cited by 81 publications

References 20 publications

Herminiimonas contaminans sp. nov., isolated as a contaminant of biopharmaceuticals

Herminiimonas contaminans sp. nov., isolated as a contaminant of biopharmaceuticals

Herminiimonas saxobsidens sp. nov., isolated from a lichen-colonized rock

Directed networks reveal genomic barriers and DNA repair bypasses to lateral gene transfer among prokaryotes

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