Functional and genomic diversity of methylotrophic Rhodocyclaceae: description of Methyloversatilis discipulorum sp. nov.

Smalley, Nicole E.; Taipale, Sami J.; Marco, Paolo De; Доронина, Н. В.; Kyrpides, Nikos C.; Shapiro, Nicole; Woyke, Tanja; Kalyuzhnaya, Marina G.

doi:10.1099/ijs.0.000190

Cited by 81 publications

(55 citation statements)

References 23 publications

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“…Methyloversatilis (Smalley et al, 2015) and bacteria degrading organic substances, such as Sphingopyxis (Tani, Somyoonsap, Minami, Kimbara, & Kawai, 2008), may contribute to degrading ingredients from SBM protein. Although these results provided basic knowledge on the impacts of dietary tributyrin supplementation alteration on the intestinal microbiota composition and diversity of juvenile yellow drum, putative involvement of bacteria in the metabolism and immunity merits further investigation.…”

Section: Discussionmentioning

confidence: 99%

Effect of tributyrin supplementation in high‐soya bean meal diet on growth performance, body composition, intestine morphology and microbiota of juvenile yellow drum (Nibea albiflora)

Tan

Zhu

et al. 2020

Aquac Res

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Six equal‐protein and equal‐lipid diets were formulated: the fish meal (FM) diet, the soya bean meal (SBM) diet with 40% of FM protein replaced by SBM protein and tributyrin (TB) diets with 0.05% (TB0.05), 0.10% (TB0.1), 0.20% (TB0.2) and 0.40% (TB0.4) tributyrin supplemented in the SBM‐based diet. Each kind of diet was randomly fed to triplicate tanks with 20 fish per tank. Fish were fed apparent satiation twice daily for 56 days. No significant difference in weight gain rate (WGR) and feed efficiency rate (FER) was observed between fish fed the FM, TB0.1 and TB0.2 diets (p > .05). Muscle histidine and arginine proportion of fish fed TB0.1 diet was significantly higher than that of fish fed the SBM diet (p < .05). Intestine morphology results indicated that the supplementation of 0.1% tributyrin significantly improved the mucosal fold height, microvilli length and microvilli density when compared with those of fish fed the SBM diet (p < .05). The supplementation of dietary tributyrin suppressed the pro‐inflammatory gene expression, which may be due to the improvement of physical barrier and modification of microbial communities, such as Acinetobacter, Rhodocyclaceae, Brevundimonas, Sphingopyxis, Hydrogenophaga, Methyloversatilis and Devosia. In conclusion, dietary 0.1% tributyrin supplementation in high‐soya bean meal diet improved growth performance, flesh quality and intestinal morphology structure integrity of yellow drum.

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Section: Discussionmentioning

confidence: 99%

Effect of tributyrin supplementation in high‐soya bean meal diet on growth performance, body composition, intestine morphology and microbiota of juvenile yellow drum (Nibea albiflora)

Tan

Zhu

et al. 2020

Aquac Res

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“…Finally, methano- and methylotrophs in both the PA and the FL fractions, e.g. Methylotenera [128], Methyloversatilis [129], Methylomonas [130], and Crenothrix [131], and the families Methyliphilaceae [132], and Methylococcaceae [133], as well as members of the unclassified LD19 family of Verrucomicrobia (Fig 7E), would metabolize C1 compounds, and cycle methane [101]. We emphasize that the model is preliminary, and requires validation by possibly metagenomics/metatranscriptomics studies.…”

Section: Discussionmentioning

confidence: 99%

Spatiotemporal analysis of microbial community dynamics during seasonal stratification events in a freshwater lake (Grand Lake, OK, USA)

Morrison

Baker

Zamor³

et al. 2017

PLoS ONE

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Many freshwater lakes undergo seasonal stratification, where the formation of phototrophic blooms in the epilimnion and subsequent sedimentation induces hypoxia/anoxia in the thermocline and hypolimnion. This autochthonously produced biomass represents a major seasonal organic input that impacts the entire ecosystem. While the limnological aspects of this process are fairly well documented, relatively little is known regarding the microbial community response to such events, especially in the deeper anoxic layers of the water column. Here, we conducted a spatiotemporal survey of the particle-associated and free-living microbial communities in a warm monomictic freshwater reservoir (Grand Lake O’ the Cherokees) in northeastern Oklahoma, USA. Pre-stratification samples (March) harbored a homogeneous community throughout the oxygenated water column dominated by typical oligotrophic aquatic lineages (acl clade within Actinobacteria, and Flavobacterium within the Bacteroidetes). The onset of phototrophic blooming in June induced the progression of this baseline community into two distinct trajectories. Within the oxic epilimnion, samples were characterized by the propagation of phototrophic (Prochlorococcus), and heterotrophic (Planctomycetes, Verrucomicrobia, and Beta-Proteobacteria) lineages. Within the oxygen-deficient thermocline and hypolimnion, the sedimentation of surface biomass induced the development of a highly diverse community, with the enrichment of Chloroflexi, “Latescibacteria”, Armatimonadetes, and Delta-Proteobacteria in the particle-associated fraction, and Gemmatimonadetes and “Omnitrophica” in the free-living fraction. Our work documents the development of multiple spatially and temporally distinct niches during lake stratification, and supports the enrichment of multiple yet-uncultured and poorly characterized lineages in the lake’s deeper oxygen-deficient layers, an ecologically relevant microbial niche that is often overlooked in lakes diversity surveys.

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“…P. aquaticus was first described as Methylibium aquaticum after its isolation from a eutrophic freshwater pond (52), but it was reclassified as P. aquaticus (53). M. discipulorum and the related species Methyloversatilis universalis have been isolated from lake sediment (54,55). Piscinibacter and Methyloversatilis are facultative methylotrophic bacteria that can utilize singlecarbon compounds but not methane (56).…”

Section: Discussionmentioning

confidence: 99%

Biofilm Composition and Threshold Concentration for Growth of Legionella pneumophila on Surfaces Exposed to Flowing Warm Tap Water without Disinfectant

Kooij

Bakker²,

Italiaander

et al. 2017

Appl Environ Microbiol

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Legionella pneumophila in potable water installations poses a potential health risk, but quantitative information about its replication in biofilms in relation to water quality is scarce. Therefore, biofilm formation on the surfaces of glass and chlorinated polyvinyl chloride (CPVC) in contact with tap water at 34 to 39°C was investigated under controlled hydraulic conditions in a model system inoculated with biofilm-grown L. pneumophila. The biofilm on glass (average steady-state concentration, 23 Ϯ 9 pg ATP cm Ϫ2 ) exposed to treated aerobic groundwater (0.3 mg C liter Ϫ1 ; 1 g assimilable organic carbon [AOC] liter Ϫ1 ) did not support growth of the organism, which also disappeared from the biofilm on CPVC (49 Ϯ 9 pg ATP cm Ϫ2 ) after initial growth. L. pneumophila attained a level of 4.3 log CFU cm Ϫ2 in the biofilms on glass (1,055 Ϯ 225 pg ATP cm Ϫ2 ) and CPVC (2,755 Ϯ 460 pg ATP cm Ϫ2 ) exposed to treated anaerobic groundwater (7.9 mg C liter Ϫ1 ; 10 g AOC liter Ϫ1 ). An elevated biofilm concentration and growth of L. pneumophila were also observed with tap water from the laboratory. The Betaproteobacteria Piscinibacter and Methyloversatilis and amoeba-resisting Alphaproteobacteria predominated in the clones and isolates retrieved from the biofilms. In the biofilms, the Legionella colony count correlated significantly with the total cell count (TCC), heterotrophic plate count, ATP concentration, and presence of Vermamoeba vermiformis. This amoeba was rarely detected at biofilm concentrations of Ͻ100 pg ATP cm Ϫ2 . A threshold concentration of approximately 50 pg ATP cm Ϫ2 (TCC ϭ 1 ϫ 10 6 to 2 ϫ 10 6 cells cm Ϫ2 ) was derived for growth of L. pneumophila in biofilms.IMPORTANCE Legionella pneumophila is the etiologic agent in more than 10,000 cases of Legionnaires' disease that are reported annually worldwide and in most of the drinking water-associated disease outbreaks reported in the United States. The organism proliferates in biofilms on surfaces exposed to warm water in engineered freshwater installations. An investigation with a test system supplied with different types of warm drinking water without disinfectant under controlled hydraulic conditions showed that treated aerobic groundwater (0.3 mg liter Ϫ1 of organic carbon) induced a low biofilm concentration that supported no or very limited growth of L. pneumophila. Elevated biofilm concentrations and L. pneumophila colony counts were observed on surfaces exposed to two types of extensively treated groundwater, containing 1.8 and 7.9 mg C liter Ϫ1 and complying with the microbial water quality criteria during distribution. Control measures in warm tap water installations are therefore essential for preventing growth of L. pneumophila.

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Functional and genomic diversity of methylotrophic Rhodocyclaceae: description of Methyloversatilis discipulorum sp. nov.

Abstract: Functional and genomic diversity of methylotrophic Rhodocyclaceae: description of Methyloversatilis discipulorum sp. nov.

Cited by 81 publications

References 23 publications

Effect of tributyrin supplementation in high‐soya bean meal diet on growth performance, body composition, intestine morphology and microbiota of juvenile yellow drum (Nibea albiflora)

Effect of tributyrin supplementation in high‐soya bean meal diet on growth performance, body composition, intestine morphology and microbiota of juvenile yellow drum (Nibea albiflora)

Spatiotemporal analysis of microbial community dynamics during seasonal stratification events in a freshwater lake (Grand Lake, OK, USA)

Biofilm Composition and Threshold Concentration for Growth of Legionella pneumophila on Surfaces Exposed to Flowing Warm Tap Water without Disinfectant

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