The Family Methylophilaceae

Доронина, Н. В.; Капаруллина, Е. Н.; Trotsenko, Yu. A.

doi:10.1007/978-3-642-30197-1_243

Cited by 52 publications

(37 citation statements)

References 32 publications

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“…Very likely, this phylotype had a lower competitiveness compared with the main bacterial methanol utilizers – i.e., Beijerinckiaceae . Although Methylophilaceae have been reported to be trophically versatile (Doronina et al, 2013), we did not detect this phylotype in any multi-carbon substrate treatment, which supports the hypothesis that this phylotype thrived in situ under unfavorable conditions.…”

Section: Discussionsupporting

confidence: 79%

“…Among the Actinobacteria , strains of Leifsonia are methanol utilizers (Hung et al, 2011). The detected Betaproteobacteria- affiliated phylotype was weakly labeled at neutral pH, but was affiliated to the well-known methylotrophic Methylophilaceae , of which isolates are neutro- to alcaliphilic (Doronina et al, 2013). Very likely, this phylotype had a lower competitiveness compared with the main bacterial methanol utilizers – i.e., Beijerinckiaceae .…”

Section: Discussionmentioning

confidence: 99%

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Acidotolerant Bacteria and Fungi as a Sink of Methanol-Derived Carbon in a Deciduous Forest Soil

Morawe¹,

Hoeke²,

Wissenbach³

et al. 2017

Front. Microbiol.

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Methanol is an abundant atmospheric volatile organic compound that is released from both living and decaying plant material. In forest and other aerated soils, methanol can be consumed by methanol-utilizing microorganisms that constitute a known terrestrial sink. However, the environmental factors that drive the biodiversity of such methanol-utilizers have been hardly resolved. Soil-derived isolates of methanol-utilizers can also often assimilate multicarbon compounds as alternative substrates. Here, we conducted a comparative DNA stable isotope probing experiment under methylotrophic (only [13C1]-methanol was supplemented) and combined substrate conditions ([12C1]-methanol and alternative multi-carbon [13Cu]-substrates were simultaneously supplemented) to (i) identify methanol-utilizing microorganisms of a deciduous forest soil (European beech dominated temperate forest in Germany), (ii) assess their substrate range in the soil environment, and (iii) evaluate their trophic links to other soil microorganisms. The applied multi-carbon substrates represented typical intermediates of organic matter degradation, such as acetate, plant-derived sugars (xylose and glucose), and a lignin-derived aromatic compound (vanillic acid). An experimentally induced pH shift was associated with substantial changes of the diversity of active methanol-utilizers suggesting that soil pH was a niche-defining factor of these microorganisms. The main bacterial methanol-utilizers were members of the Beijerinckiaceae (Bacteria) that played a central role in a detected methanol-based food web. A clear preference for methanol or multi-carbon substrates as carbon source of different Beijerinckiaceae-affiliated phylotypes was observed suggesting a restricted substrate range of the methylotrophic representatives. Apart from Bacteria, we also identified the yeasts Cryptococcus and Trichosporon as methanol-derived carbon-utilizing fungi suggesting that further research is needed to exclude or prove methylotrophy of these fungi.

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Section: Discussionsupporting

confidence: 79%

Section: Discussionmentioning

confidence: 99%

Acidotolerant Bacteria and Fungi as a Sink of Methanol-Derived Carbon in a Deciduous Forest Soil

Morawe¹,

Hoeke²,

Wissenbach³

et al. 2017

Front. Microbiol.

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“…Among the bacteria favoured by humic matter (Fig. b), genera involved in nitrogen fixation ( Bradyrhizobium , Rhizobacter , unclassified Rhizobiales ) (Kuykendall, ; Goto, ), organic pollutants degraders Rhodococcus (Bell et al ., ), unclassified Sphingomonadales and methylotrophs [uncultured strain PRD01a011B from Methylophilaceae (Doronina et al ., )] were detected. To a large extent the same bacterial genera were favoured by humic matter regardless whether zooplankton carcasses were present.…”

Section: Discussionmentioning

confidence: 99%

Effects of zooplankton carcasses degradation on freshwater bacterial community composition and implications for carbon cycling

Kolmakova

Gladyshev

Fonvielle

et al. 2018

Environmental Microbiology

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Summary Non‐predatory mortality of zooplankton provides an abundant, yet, little studied source of high quality labile organic matter (LOM) in aquatic ecosystems. Using laboratory microcosms, we followed the decomposition of organic carbon of fresh 13C‐labelled Daphnia carcasses by natural bacterioplankton. The experimental setup comprised blank microcosms, that is, artificial lake water without any organic matter additions (B), and microcosms either amended with natural humic matter (H), fresh Daphnia carcasses (D) or both, that is, humic matter and Daphnia carcasses (HD). Most of the carcass carbon was consumed and respired by the bacterial community within 15 days of incubation. A shift in the bacterial community composition shaped by labile carcass carbon and by humic matter was observed. Nevertheless, we did not observe a quantitative change in humic matter degradation by heterotrophic bacteria in the presence of LOM derived from carcasses. However, carcasses were the main factor driving the bacterial community composition suggesting that the presence of large quantities of dead zooplankton might affect the carbon cycling in aquatic ecosystems. Our results imply that organic matter derived from zooplankton carcasses is efficiently remineralized by a highly specific bacterial community, but does not interfere with the bacterial turnover of more refractory humic matter.

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“…Methylophilaceae, a family within the order Methylophilales, embraces the genera Methylophilus (type genus), Methylobacillus, Methylovorus and Methylotenera [1]. Betaproteobacterial obligate and restricted facultative methylotrophs are capable of utilizing methanol or methylamine as a sole source of carbon and energy via the ribulose monophosphate (RuMP) cycle.…”

mentioning

confidence: 99%

“…Because of similar morphology and metabolic organization, the main criteria used to clarify obligate methylobacteria into separate genera and species are their genomic and phylogenetic characteristics. On the other hand, members of the family are defined by some chemotaxonomic and biochemical properties, such as specific phospholipids and enzymes, which are used for the delineation of genera [1]. The genus Methylobacillus comprises five recognized species: Methylobacillus glycogenes [2,3], Methylobacillus flagellatus [4], Methylobacillus pratensis [5], Methylobacillus arboreus and Methylobacillus gramineus [6].…”

mentioning

confidence: 99%

Methylobacillus methanolivorans sp. nov., a novel non-pigmented obligately methylotrophic bacterium

Капаруллина

Trotsenko

Доронина

2017

International Journal of Systematic and Evolutionary Microbiology

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Three strains of obligately methylotrophic Betaproteobacteria (Z T , SP and M3) with the ribulose monophosphate pathway of C 1 assimilation are described. The isolates were strictly aerobic, Gram-stain-negative, asporogenous, motile (strains Z T and M3) or non-motile (strain SP) rods that multiplied by binary fisson, and were mesophilic and neutrophilic. All three strains utilized methanol but only strains SP and M3 utilized methylamine as carbon and energy sources. The prevailing cellular fatty acids were straight-chain saturated C 16 : 0 and unsaturated C 16 : 1 !7c acids. The major ubiquinone was Q-8. The predominant phospholipids were phosphatidylethanolamine, phosphatidylglycerol and cardiolipin. Ammonia was assimilated by glutamate dehydrogenase. The DNA G+C contents of strains Z T , SP and M3 were 51.0, 52.0 and 52.0 mol% (T m ), respectively. Levels of 16S rRNA gene sequence similarity between the three strains were very high (99.9-100 %), and they shared high levels of DNA-DNA relatedness (88-98 %). Based on 16S rRNA gene sequence analysis and DNA-DNA relatedness (19-30 %) with the type strains of the genus Methylobacillus, the novel isolates Z T , SP and M3 are classified as representing a novel species of this genus, for which the name Methylobacillus methanolivorans sp. nov. is proposed. The type strain is Z T (=VKM B-3037 T =JCM 31401 T =CCUG 68999 T ).Methylophilaceae, a family within the order Methylophilales, embraces the genera Methylophilus (type genus), Methylobacillus, Methylovorus and Methylotenera [1]. Betaproteobacterial obligate and restricted facultative methylotrophs are capable of utilizing methanol or methylamine as a sole source of carbon and energy via the ribulose monophosphate (RuMP) cycle. Because of similar morphology and metabolic organization, the main criteria used to clarify obligate methylobacteria into separate genera and species are their genomic and phylogenetic characteristics. On the other hand, members of the family are defined by some chemotaxonomic and biochemical properties, such as specific phospholipids and enzymes, which are used for the delineation of genera . In addition, another species of the genus, 'Methylobacillus rhizosphaerae', has not been validly published at the time of writing [7]. Here, we describe three novel betaproteobacterial methylotrophic strains, Z T , SP and M3, and show that they represent a novel species of the genus Methylobacillus.The novel strains were isolated from activated sludge of a drainage system of the Baikal paper mill (Irkutskaya oblast, Russia) (strain Z T ), from soil collected in St. Petersburg (Russia) (strain SP) and from municipal sewage water in Moscow (strain M3). All the strains were grown in liquid mineral medium 'K' containing (g l À1 ): KH 2 PO 4 -2.0; (NH 4 ) 2 SO 4 -2.0; MgSO 4 Á7H 2 O -0.025; NaCl -0.5; FeSO 4 Á7H 2 O -0.002, pH 7.2 and 0.5 % (v/v) CH 3 OH. The pH value was adjusted to 7.2 by adding 5 M NaOH. Solidified medium 'K' was prepared by adding 2.0 % (w/v) agar (Difco). The activated sludge (1 g...

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The Family Methylophilaceae

Cited by 52 publications

References 32 publications

Acidotolerant Bacteria and Fungi as a Sink of Methanol-Derived Carbon in a Deciduous Forest Soil

Acidotolerant Bacteria and Fungi as a Sink of Methanol-Derived Carbon in a Deciduous Forest Soil

Effects of zooplankton carcasses degradation on freshwater bacterial community composition and implications for carbon cycling

Methylobacillus methanolivorans sp. nov., a novel non-pigmented obligately methylotrophic bacterium

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