Ralstonia taiwanensis sp. nov., isolated from root nodules of Mimosa species and sputum of a cystic fibrosis patient.

Chen, W M; Laevens, Severine; Lee, T M; Coenye, Tom; Vos, Paul De; Mergeay, M.; Vandamme, Peter

doi:10.1099/00207713-51-5-1729

Cited by 497 publications

(321 citation statements)

References 23 publications

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“…While traditionally, rhizobia belonged to the genera, Azorhizobium, Bradyrhizobium, Ensifer, Mesorhizobium and Rhizobium (Sawada et al, 2003), in recent years nitrogen fixing root nodule bacteria have also been described in other Alphaproteobacterial genera, including Ochrobactrum (Trujillo et al, 2005), Methylobacterium (Sy et al, 2001), Microvirga (Ardley et al, 2012;Radl et al, 2014), Devosia (Rivas et al, 2003) and Phyllobacterium . Furthermore, so-called Betarhizobia have in the last ten years been described in the Betaproteobacterial genera Burkholderia and Cupriavidus (Chen et al, 2001;Moulin et al, 2001;De Meyer et al, 2013a;De Meyer et al, 2013b;De Meyer et al, 2014). In addition to strains that can elicit nodules and belong to documented rhizobial species, several other bacterial species have been reported from legume nodules without a clear indication of their role within the host.…”

Section: Introductionmentioning

confidence: 99%

A large diversity of non-rhizobial endophytes found in legume root nodules in Flanders (Belgium)

Meyer

Beuf

Vekeman

et al. 2015

Soil Biology and Biochemistry

118

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Statistical analysis grouped the investigated plant species into six clusters according to the presence of particular NRE. However, no correlations could be found within these six clusters towards plant tribes or ecoregions the plants had been sampled from. Cluster analysis of the ecoregions according to the presence of NRE, revealed correlations between bacterial genera and those areas. However, groups present in the ecoregions did not correlate with the groups present in the different plant clusters. When combining our previous study on rhizobial diversity recovered from the same sampling campaign (De Meyer et al., 2011) with the current study, 84.1% of the isolates belonged to the traditional rhizobia groups and only 15.9% were NRE. The Loamy ecoregion yielded the lowest number of culturable NRE (8.04%) and the Campine ecoregion the highest number (24.19%). The present study highlights the frequent presence of these NRE in root nodules. The occurrence of certain rhizobia was correlated with the presence of particular NRE, suggesting their presence may not be accidental, however their functions remain unclear at this point.

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Section: Introductionmentioning

confidence: 99%

A large diversity of non-rhizobial endophytes found in legume root nodules in Flanders (Belgium)

Meyer

Beuf

Vekeman

et al. 2015

Soil Biology and Biochemistry

118

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“…The partial 16S rRNA gene sequence of strain yH16 T obtained was a continuous stretch of 1460 bp. The 16S rRNA gene sequence was analysed as described by Chen et al (2001). Sequence data were analysed using the software packages BioEdit (Hall, 1999) and MEGA version 5.05 (Tamura et al, 2011) following multiple alignments of the data by the BioEdit sequence alignment editor.…”

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confidence: 99%

Pseudogulbenkiania gefcensis sp. nov., isolated from soil

Lee¹,

Kang³

et al. 2013

International Journal of Systematic and Evolutionary Microbiology

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A novel strain, yH16, was isolated on nutrient agar from soil samples collected at KyungHee University, Suwon City, Republic of Korea. Cells of strain yH16 T were short rods, Gram-negativestaining, motile and non-spore-forming, with a polar flagellum. Biochemical and molecular characterization revealed that this strain was most similar to Pseudogulbenkiania subflava BP-5 T . Further 16S rRNA gene sequencing studies revealed that the new strain clustered with Pseudogulbenkiania subflava BP-5 T (95.9 % similarity), Paludibacterium yongneupense 5YN8-15 T (95.2 % similarity), Gulbenkiania mobilis E4FC31-5 T (94.6 % similarity) and Chromobacterium aquaticum CC-SE-YA-1 T (93.9 % similarity). The isolate was able to grow at 25-40 6C, 0.3-2 % NaCl and pH 5.5-7. The DNA G+C content was 65.9±1.0 mol%. The predominant fatty acids were summed feature 3 (C 16 : 1 v7c and/or iso-C 15 : 0 2-OH) and C 16:0 . Ubiquinone 8 was the major respiratory quinone. It was evident from the data obtained that the strain should be classified as a novel species of the genus Pseudogulbenkiania. The name proposed for this taxon is Pseudogulbenkiania gefcensis sp. nov., and the type strain is yH16 T (5KCCM 90100 T 5JCM 17850 T ).The genus Pseudogulbenkiania, which is a member of the family Neisseriaceae, was first described on the basis of the single species Pseudogulbenkiania subflava (Lin et al., 2008). We characterized strain yH16 T , which was obtained from soil samples collected at KyungHee University, Suwon City, Republic of Korea. The pH of the soil sample was 5.1 and the moisture content was 50.6 %. The original sample had a total aerobic microbial cell count of 2.4610 5 c.f.u. (g soil) 21 . Soil samples were inoculated on a nutrient agar plate (BD Difco) and incubated, at 25 u C for three days, in order to isolate the strain. The colonies of strain yH16 T were small (0.5-1 mm), white and round. In this paper, we report on the investigation of the taxonomic position of this novel strain.A Gram stain set S kit (BD Difco) was used to assess the Gram-staining reaction. Cells of isolate yH16 T were Gramnegative-staining, motile and non-spore-forming short rods, and formed white colonies on solid culture media. The cell morphology was ascertained by light microscopy, using a CHT microscope (Olympus) at 61000 magnification. Flagellar staining was performed using a spot test flagella stain (BD Difco). A motility test was carried out on nutrient medium, which contained 0.5 % agar. The strain was isolated and maintained on nutrient agar (BD Difco) after incubation at 32 u C. On this medium, the strain grew at 25-40 u C, but not at 20 u C or 45 u C. The morphology of the cells is detailed in the species description. The pH range for growth was determined by measuring the optical densities of cultures grown on the nutrient broth (BD Difco), which was adjusted to various pH values (pH 4-10 at intervals of 1.0 pH units). The pH of the nutrient broth was adjusted by adding 1 M NaOH or 1 M HCl (Qu & Yuan, 2008). Bacterial growth at various NaCl conce...

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“…The nucleoside mixture obtained was then separated by using HPLC. The DNA G+C content of strain RIB1-20 T was 70.3 mol%.The 16S rRNA gene sequence was analysed as described previously Chen et al (2001). Analysis of the sequence data was performed by using BioEdit (Hall, 1999) and MEGA,…”

mentioning

confidence: 99%

“…The 16S rRNA gene sequence was analysed as described previously Chen et al (2001). Analysis of the sequence data was performed by using BioEdit (Hall, 1999) and MEGA,…”

mentioning

confidence: 99%

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Luteimonas aquatica sp. nov., isolated from fresh water from Southern Taiwan

Chou

Cho

Arun

et al. 2008

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

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A yellow-pigmented bacterial strain, designated RIB1-20 T , isolated from fresh water was investigated by means of a polyphasic taxonomic approach. The cells were Gram-negative, rodshaped and non-spore-forming. Phylogenetic analyses with the 16S rRNA gene sequence showed that the strain formed a monophyletic branch towards the periphery of the evolutionary radiation occupied by the genus Luteimonas, its two closest neighbours being Luteimonas composti CC-YY255 T (96.1 % sequence similarity) and Luteimonas mephitis B1953/27.1 T (95.8 %). Strain RIB1-20 T was clearly distinguished from both of those type strains using phylogenetic analysis, DNA-DNA hybridization, fatty acid composition data and a range of physiological and biochemical characteristics. It is evident from the genotypic and phenotypic data that strain RIB1-20 T represents a novel species of the genus Luteimonas, for which the name Luteimonas aquatica sp. nov. is proposed. The type strain is RIB1-20 T (5BCRC 17731 T 5LMG 24212 T ).During the characterization of micro-organisms in water samples collected from a freshwater spring located in Kaohsiung County, Taiwan, a yellow-coloured strain, designated RIB1-20 T , was isolated and maintained on R2A agar (BD Difco) plates after incubation at 25 u C for 3 days. Subcultivation was performed on R2A agar at 25 uC for between 48 and 72 h. On this medium, strain RIBI-20 T was able to grow at 15-37 u C, but not at 10 or 40 u C. The organism was able to grow on R2A, nutrient agar (BD Difco) and tryptic soy agar (BD Difco).Cells were observed with phase-contrast microscopy (DM 2000; Leica) in the lag, exponential and stationary phases of growth to ascertain their morphology. Motility was tested by means of the hanging-drop method. The Gram stain set S kit (BD Difco) and the Ryu non-staining KOH method (Powers, 1995) were used to test the Gram-staining reaction. Accumulation of poly-b-hydroxybutyrate granules was investigated using light microscopy after staining of the cells with Sudan black. Colony morphology was observed on R2A agar, using a stereoscopic microscope (SMZ 800; Nikon). Details of the morphology are given in the species description.The pH range for growth was determined by measuring the OD 600 of cultures grown on nutrient broth (BD Difco) adjusted to various pH values (pH 4-10, in increments of 1.0 pH unit), prior to sterilization, using appropriate biological buffers (Chung et al., 1995). To investigate NaCl tolerance, nutrient broth was prepared according to the formula of the BD Difco medium, while NaCl concentrations were varied (0 , 0.5 and 1.0-10.0 %, w/v, in increments of 1.0 %). Growth under anaerobic conditions was determined after incubating strain RIB1-20 T in an Oxoid AnaeroGen system. Strain RIB1-20 T was examined for a broad range of phenotypic properties. Catalase, oxidase, DNase, arginine dihydrolase, urease and lipase activities and hydrolysis of starch, casein and Tweens 20, 40, 60 and 80 were determined using standard methods (Gerhardt et al., 1994; Lányí, 1987;MacFaddin, 2000)....

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Ralstonia taiwanensis sp. nov., isolated from root nodules of Mimosa species and sputum of a cystic fibrosis patient.

Cited by 497 publications

References 23 publications

A large diversity of non-rhizobial endophytes found in legume root nodules in Flanders (Belgium)

A large diversity of non-rhizobial endophytes found in legume root nodules in Flanders (Belgium)

Pseudogulbenkiania gefcensis sp. nov., isolated from soil

Luteimonas aquatica sp. nov., isolated from fresh water from Southern Taiwan

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