Sphingopyxis fribergensis sp. nov., a soil bacterium with the ability to degrade styrene and phenylacetic acid

Abstract

T is an aerobic, Gram-negative soil bacterium that was isolated in Freiberg, Saxony,Germany. The cells were motile and rod-shaped. Optimal growth was observed at 20-30 8C.The fatty acids of strain Kp5.2 T comprised mainly C 18 : 1 v7c and summed feature 3 (C 16 : 1 v7c/iso-C 15 : 0 2-OH). The major respiratory quinone was Q-10. et al., 2003). In this study, we report on a novel isolate of the genus Sphingopyxis that was designated strain Kp5.2 T . This strain was identified as being able to degrade styrene via the metabolic intermediate phenylacetic acid (Oelschlägel et al., 2015) (see Fig. S1, available in the online Supplementary Material). To the best of our knowledge, utilization of styrene or phenylacetic acid has not been reported before for a member of the genus Sphingopyxis. Strain Kp5.2 T was isolated from soil as described by Oelschlägel et al. (2014). The genome of the isolate was subsequently sequenced. For this purpose, biomass of a phenylacetic acid-grown culture of strain Kp5.2 T [200 ml mineral medium in a 500 ml baffled flask; in total 3 mmol (515 mM) phenylacetic acid added in 1 mmol portions (55 mM) over 7 days] was harvested by centrifugation (16 100 g, 5 min, 4 8C). Genomic DNA was extracted and purified by phenol/chloroform extraction by a modification of the method of Wilson (2001). A sample of the DNA obtained was checked by gel electrophoresis (0.7 % agarose, 90 V) and stained with ethidium bromide. Genomic DNA Abbreviation: SEM, scanning electron microscopy.The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of strain Kp5.2 T is CP009122.1 (positions 159052-160528). The accession numbers for the sequences of the chromosome (genome), plasmid pSfKp5.2 (genome) and the FadJ protein in the paa-gene cluster of strain Kp5.2 T are CP009122, CP009123 and AJA07148.1.Six supplementary figures are available with the online Supplementary Material.

Spatial Changes in Microbial Communities along Different Functional Zones of a Free-Water Surface Wetland

“…Representatives of the genus Sphingobium are capable of decomposing aromatic (including chlorine−containing) compounds, phenols (e.g., nonylphenol and pentachlorophenol), herbicides and polycyclic aromatic hydrocarbons [ 60 ]. Representatives of the genus Sphingopyxis are able to utilize chlorophenol, styrene, and phenylacetic acid [ 61 , 62 ], while Novosphingobium utilizes phenol, nitrophenol, aniline, phenanthrene, respectively [ 63 ]. Porphyrobacter is able to decompose biphenyl and dibenzofuran [ 64 ].…”

Genomic Analysis of γ-Hexachlorocyclohexane-Degrading Sphingopyxis lindanitolerans WS5A3p Strain in the Context of the Pangenome of Sphingopyxis

“…The similarity of the sequenced genome of S. lindanitolerans WS5A3p to other public genomes of closely related Sphingopyxis species [8,23,35,36,37,38,39,40,41,42,43,44] was determined based on the average nucleotide identity using both BLASTn (ANIb) and MUMer (ANIm) algorithms with the help of the pyani Python module [45] and average amino acid identity (AAI), which was calculated using CompareM (available at: ).…”

Biochemical Characterization of Phenylacetaldehyde Dehydrogenases from Styrene-degrading Soil Bacteria

“…The styrene-degrading bacterium Sphingopyxis fribergensis Kp5.2 (DSM 28731, accession number SAMN02872841) [28] was cultivated with mineral media (Brunner, DSMZ medium 462) at pH 6.9 with 100 mM glucose at 30°C. The cloning strain Escherichia coli NEB5α (New England Biolabs) and the expression strain Escherichia coli BL21 (DE3) pLysS were cultivated with LB media at pH 7.1 and with 100 μg mL -1 ampicillin (E. coli NEB5α) or with 100 μg mL -1 ampicillin together with additionally added 35 μg mL -1 chloramphenicol (E. coli BL21 (DE3) pLysS) for 14-18 h at 37°C.…”

“…A phenylacetaldehyde dehydrogenase from Pseudomonas putida S12 [2] was used as start to genome mining approach for styD or feaB genes in well-known styrene degrading bacteria [8,11,28,[36][37][38]. As candidate strains, we had chosen R. opacus 1CP, S. fribergensis Kp5.2, and G. rubripertincta CWB2 as those have been determined to provide different organizations in their styrene-degrading properties.…”