Sphingomonas aurantiaca sp. nov., Sphingomonas aerolata sp. nov. and Sphingomonas faeni sp. nov., air- and dustborne and Antarctic, orange-pigmented, psychrotolerant bacteria, and emended description of the genus Sphingomonas

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

et al. 2009

A yellow-to orange-pigmented, Gram-negative, rod-shaped, motile and non-spore-forming bacterium, strain FSW06-204d T , was isolated from subsurface water of the acidic bog lake, Lake Grosse Fuchskuhle (Brandenburg, Germany). Optimum growth of this strain occurred over a pH range from 5.5 to 6.0 and the growth rate strongly decreased at pH values above 6.5. In addition, the strain exhibited a low tolerance towards NaCl and grew only at a NaCl concentration of up to 0.5 %. 16S rRNA gene sequence analysis of strain FSW06-204d T showed the highest sequence similarity to Novosphingobium hassiacum W-51 T (96.7 %) and formed a distinct cluster with Novosphingobium nitrogenifigens DSM 19370 T (96.4 %) within the genus Novosphingobium. Strain FSW06-204d T shared a 21 bp signature gap with the latter species, a feature that is absent in all other members of the family Sphingomonadaceae. DNA-DNA hybridization of strain FSW06-204d T and N. nitrogenifigens DSM 19370 T showed a low relatedness value of 24 % (reciprocal: 39 %). The major respiratory quinone was ubiquinone Q-10 (91 %) and the predominant fatty acid was C 18 : 1 v7c (43.3 %). Two characteristic 2-hydroxy fatty acids, C 14 : 0 2-OH (8.1 %) and C 15 : 0 2-OH (6.5 %), were abundant. Polar lipids consisted mainly of phosphatidyldimethylethanolamine and phosphatidylethanolamine; however, only moderate amounts of sphingoglycolipids were present and phosphatidylcholine was lacking. Characterization by 16S rRNA gene sequence, physiological features, pigment analysis and polyamine, ubiquinone, polar lipid and fatty acid contents revealed that strain FSW06-204d T represents a novel species of the genus Novosphingobium within the class Alphaproteobacteria. The name Novosphingobium acidiphilum sp. nov. is proposed for this acidophilic and saltsensitive species with the type strain FSW06-204d T (5DSM 19966 T 5CCM 7496 T 5CCUG 55538 T ).

supporting

confidence: 83%

Novosphingobium acidiphilum sp. nov., an acidophilic salt-sensitive bacterium isolated from the humic acid-rich Lake Grosse Fuchskuhle

Glaeser

Kämpfer

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

et al. 2009

“…Since the fatty acid profile of strain S8-3 T did not contain other branched fatty acids, which is in agreement with all species of the family Sphingomonadaceae, it is most likely that summed feature 3 is representing exclusively C 16 : 1 v7c and not iso-C 15 : 0 2-OH. The fatty acid profile of strain S8-3 T was in agreement with those of other members of the genus Sphingomonas (Busse et al, , 2003(Busse et al, , 2005Denner et al, 1999;Kämpfer et al, 2007;Ohta et al, 2004;Zhang et al, 2011).…”

supporting

confidence: 79%

“…So far, the nomenclature of Takeuchi et al (2001) is generally used (Busse et al, 2003). Strain S8-3 T was isolated from alpine soil collected in the Hohe Tauern/Grossglockner area (Piffalpe) on the north slope at 1500 m above sea level .…”

mentioning

confidence: 99%

Sphingomonas alpina sp. nov., a psychrophilic bacterium isolated from alpine soil

Margesin

Zhang

International Journal of Systematic and Evolutionary Microbiology

2012

Self Cite

An aerobic, Gram-negative-staining, motile, psychrophilic bacterium, designated strain S8-3 T , was isolated from alpine soil. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain S8-3 T was related to the genus Sphingomonas and had highest 16S rRNA gene sequence similarity with Sphingomonas oligophenolica S213 T (98.0 %). 16S RNA gene sequence similarity between strain S8-3 T and Sphingomonas paucimobilis ATCC 29837 T (the type species of the genus Sphingomonas) was 93.0 %. Strain S8-3 T contained Q-10 as the ubiquinone and C 18 : 1 v7c (65.0 %) and C 14 : 0 2-OH (13.4 %) as the dominant fatty acids (.10 %). The major polyamines were the triamine sym-homospermidine and spermidine. The polar lipid profile contained sphingoglycolipid, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylmonomethylethanolamine. The DNA G+C content was 64.1 mol%. Combined data from phenotypic, phylogenetic and DNA-DNA relatedness studies demonstrated that strain S8-3 T is a representative of a novel species of the genus Sphingomonas, for which the name Sphingomonas alpina sp. nov. is proposed. The type strain is S8-3 T (5DSM 22537 T 5LMG 26055 T ).The genus Sphingomonas was first proposed by Yabuuchi et al. (1990) and has been emended subsequently by Takeuchi et al. (1993Takeuchi et al. ( , 2001, Yabuuchi et al. (2002) and Busse et al. (2003) to accommodate aerobic, Gramnegative and non-spore-forming bacteria that are characterized chemotaxonomically by the absence of 3-hydroxy fatty acids and by the presence of 2-hydroxymyristic acid (C 14 : 0 2-OH), Q-10 as the respiratory quinone and symhomospermidine as the key polyamine. So far, the nomenclature of Takeuchi et al. (2001) is generally used (Busse et al., 2003). Strain S8-3 T was isolated from alpine soil collected in the Hohe Tauern/Grossglockner area (Piffalpe) on the north slope at 1500 m above sea level . The strain was isolated as previously described (Zhang et al., 2010). One of the pure cultures was yellow-pigmented and was designated S8-3 T . Strain S8-3 T was routinely cultured on R2A agar (containing 0.05 % yeast extract, 0.05 % peptone, 0.05 % Casamino acids, 0.05 % glucose, 0.05 % starch, 0.03 % sodium pyruvate, 0.03 % K 2 HPO 4 , 0.005 % MgSO 4 , 1.5 % agar; pH 7; Reasoner & Geldreich, 1985) at 20 u C, and stored as a suspension in skimmed milk (10 %, w/v) at 280 u C. Sphingomonas echinoides DSM 1805 T , Sphingomonas oligophenolica S213 T and Sphingomonas glacialis C16y T (5DSM 22294 T ; Zhang et al., 2011) were routinely grown on R2A agar at 20 u C and used as reference strains.DNA of strain S8-3 T was extracted and purified as described by Sambrook et al. (1989). The 16S rRNA gene was amplified by PCR (Margesin et al., 2012) with a pair of universal primers, 27F (59-AGAGTTTGATCCTGGCTC-AG-39) and 1541R (59-AAGGAGGTGATCCAGCCGCA-39). The amplification product was cloned into vector pGEM-T Easy (Promega), and the recombinant plasmid was propagated in Escherichia coli according to the manufacturer's instructions ...

“…( Busse et al, 2003) Sphingomonas faeni MA-olki T (96?2 %), Sphingomonas aurantiaca MA101b T (95?8 %) and Sphingomonas aerolata NW12 T (95?7 %) and to selected other species of the genus Sphingomonas (96?7-95?3 %). Strain C52 T shared the greatest levels of sequence similarity with Sphingomonas koreensis KCTC 2882 T (97?2 %), S. aquatilis KCTC 2881 T (97?1 %) and S. melonis DSM 14444 T (97?0 % sequence similarity).…”

mentioning

confidence: 99%

Description of two novel species, Sphingomonas abaci sp. nov. and Sphingomonas panni sp. nov.

International Journal of Systematic and Evolutionary Microbiology

Hauser

Kämpfer

2005

Self Cite

Description of two novel species, Sphingomonas abaci sp. nov. and Sphingomonas panni sp. nov. Two Gram-negative, rod-shaped, non-spore-forming bacterial strains designated C42 T and C52 T were isolated in the Medical Clinic for Small Animals and Ungulates at the University for Veterinary Medicine Vienna, Austria. On the basis of 16S rRNA gene sequence similarity, both strains were shown to belong to the genus Sphingomonas. Strain C42 T showed the greatest levels of sequence similarity with Sphingomonas melonis DSM 14444 T and Sphingomonas aquatilis KCTC 2881 T (both 97?7 %). Strain C52 T showed the greatest levels of sequence similarity with Sphingomonas koreensis KCTC 2882 T (97?2 %), Sphingomonas aquatilis KCTC 2881 T (97?1 %) and S. melonis DSM 14444 T (97?0 %). The presence of Q-10 as the main ubiquinone, the predominance of the compound sym-homospermidine in the polyamine patterns, the presence of a Sphingomonadaceae-specific sphingoglycolipid in the polar lipid patterns, the presence of the fatty acid 2-OH C 14 : 0 and the lack of 3-hydroxy fatty acids supported the identification of the two novel strains as members of the genus Sphingomonas sensu stricto. Unique physiological characteristics, protein patterns, quantitative differences in their fatty acid profiles and the results of genomic fingerprinting and DNA-DNA hybridizations differentiated strains C42 T and C52 T from closely related Sphingomonas species. Hence, the two strains are described as novel species of the genus Sphingomonas sensu stricto. The names Sphingomonas abaci sp. nov. (type strain C42 T =LMG 21978 T =DSM 15867 T ) and Sphingomonas panni sp. nov. (type strain C52 T =LMG 21979 T =DSM 15761 T ) are proposed.During investigations designed to evaluate hygiene at the Medical Clinic for Small Animals and Ungulates at the University for Veterinary Medicine Vienna, Austria, numerous micro-organisms were isolated. In order to identify significant groups, isolates showing obvious similarities in colony morphology and pigmentation were subjected to comparison of their protein patterns after SDS-PAGE (Altenburger et al., 1996). From protein-similarity groups consisting of at least three strains, a representative was characterized in more detail. On the basis of a preliminary classification, selected representatives of these protein-similarity groups were identified as members of the yeast genus Rhodotorula, the bacterial genera Pseudomonas (Hauser et al., 2004), Acinetobacter, Staphylococcus, Bacillus and Sphingomonas, and coliforms. Here we report on the taxonomic characterization of the orange-pigmented strain C42 T and the yellow-pigmented strain C52 T preliminarily identified as members of the genus Sphingomonas.Strain C42 T was isolated from a treatment table after inoculation on PYE agar (l 21 : 3?0 g peptone from casein, 3?0 g yeast extract, 15?0 g agar; pH 7?2). Strain C52 T was isolated from a wipe in the treatment room after cultivation on PYE agar. Single colonies were visible after cultivation at 28 uC for 48 h.The 16S rRNA gene was...