Usitatibacter rugosus gen. nov., sp. nov. and Usitatibacter palustris sp. nov., novel members of Usitatibacteraceae fam. nov. within the order Nitrosomonadales isolated from soil

Abstract

Members of the metabolically diverse order Nitrosomonadales inhabit a wide range of environments. Two strains affiliated with this order were isolated from soils in Germany and characterized by a polyphasic approach. Cells of strains 0125_3T and Swamp67T are Gram-negative rods, non-motile, non-spore-forming, non-capsulated and divide by binary fission. They tested catalase-negative, but positive for cytochrome c-oxidase. Both strains form small white colonies on agar plates and grow aerobically and chemoorganotrophically on SSE/HD 1 : 10 medium, preferably utilizing organic acids and proteinaceous substrates. Strains 0125_3T and Swamp67T are mesophilic and grow optimally without NaCl addition at slightly alkaline conditions. Major fatty acids are C16 : 1 ω7c, C16 : 0 and C14 : 0. The major polar lipids are diphosphatidylglycerol, phosphatidylethanolamine and phosphatidyglycerol. The predominant respiratory quinone is Q-8. The G+C content for 0125_3T and Swamp67T was 67 and 66.1 %, respectively. The 16S rRNA gene analysis indicated that the closest relatives (<91 % sequence similarity) of strain 0125_3T were Nitrosospira multiformis ATCC 25196T, Methyloversatilis universalis FAM5T and Denitratisoma oestradiolicum AcBE2-1T, while Nitrosospira multiformis ATCC 25196T, Nitrosospira tenuis Nv1T and Nitrosospira lacus APG3T were closest to strain Swamp67T. The two novel strains shared 97.4 % 16S rRNA gene sequence similarity with one another and show low average nucleotide identity of their genomes (83.8 %). Based on the phenotypic, chemotaxonomic, genomic and phylogenetic analysis, we propose the two novel species Usitatibacter rugosus sp. nov (type strain 0125_3T=DSM 104443T=LMG 29998T=CECT 9241T) and Usitatibacter palustris sp. nov. (type strain Swamp67T=DSM 104440T=LMG 29997T=CECT 9242T) of the novel genus Usitatibacter gen. nov., within the novel family Usitatibacteraceae fam. nov.

Aquirufa lenticrescens sp. nov. and Aquirufa aurantiipilula sp. nov.: two new species of a lineage of widespread freshwater bacteria

“…For the whole-cell fatty acid composition, an Agilent Technologies 6890 N instrument and the Microbial Identification System (MIDI) Sherlock version 6.1 (method: TSBA6 database) were used as described by Sasser (Sasser 1990 ). The same extract was further analyzed by GC/MS to confirm peak identity and resolve summed features (Vieira et al 2021 ). Double bond positions were analyzed by further derivatization to dimethyl disulfide adducts and subsequent GC/MS analysis (Moss and Lambert-Fair 1989 ).…”

“…Total lipid material was detected using dodecamolybdophosphoric acid (Dmp) and specific functional groups by α-naphthol, ninhydrin, and molybdenum blue. Respiratory quinones were extracted by solid-phase extraction and analyzed by reversed-phase HPLC coupled to a diode array detector as described previously (Vieira et al 2021 ).…”

Rhodococcus pseudokoreensis sp. nov. isolated from the rhizosphere of young M26 apple rootstocks

“…FAMEs were separated by gas chromatography on an Agilent Technologies 6890N instrument and detected by a flame ionization detector using the Sherlock Microbial identification System (MIDI; version 6.1, TSBA40 database). Identity of fatty acids was validated by mass spectrometry (Vieira et al 2021 ).…”

“…Respiratory quinones were extracted from freeze-dried material and purified via solid-phase extraction as described previously (Vieira et al 2021 ). Chromatographic separation and identification of peaks was performed by HPLC coupled to a DAD and a high-resolution mass spectrometer as described previously (Schumann et al 2021 ).…”

Staphylococcus ratti sp. nov. Isolated from a Lab Rat

“…Respiratory quinones were extracted and analyzed as described previously [57]. Their identity was confirmed by mass spectrometry as described previously [55].…”