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

Abstract

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 ).

Singlet oxygen, a neglected but important environmental factor: short‐term and long‐term effects on bacterioplankton composition in a humic lake

“…Novosphingobium acidiphilum was frequently found in 16S rRNA gene clone libraries of surface water samples from the SW basin (Glöckner et al ., 2000; Burkert et al ., 2003; Allgaier and Grossart, 2006b). Strains of N. acidiphilum were isolated from highest positive dilutions of MPN‐dilution series from C‐L and RB‐L incubations of both in situ and laboratory experiments in 2006 (data not shown, Glaeser et al ., 2009) and even after addition of phenol to water samples (Hutalle‐Schmelzer et al ., 2010). Resistance of N. acidiphilum to moderately increased [ 1 O 2 ] SS is most likely caused by cellular carotenoids (Glaeser et al ., 2009), which quench 1 O 2 and thereby provide efficient protection from photo‐oxidation (Tatsuzawa et al ., 1998; Glaeser and Klug, 2005).…”

Novosphingobium oryzae sp. nov., a potential plant-promoting endophytic bacterium isolated from rice roots

“…html). Strains assigned to the genus Novosphingobium have been isolated from diverse habitats including freshwater, soil, sea sediments, wastewater treatment plants, bioremediation reactor of contaminated ground water and hexachlorocyclohexane-contaminated soil (Yabuuchi et al, 1990;Takeuchi et al, 1995Takeuchi et al, , 2001Balkwill et al, 1997;Kämpfer et al, 2002Kämpfer et al, , 2011Fujii et al, 2003;Sohn et al, 2004;Liu et al, 2005;Tiirola et al, 2005;Addison et al, 2007;Lim et al, 2007;Suzuki & Hiraishi, 2007;Glaeser et al, 2009Glaeser et al, , 2013Gupta et al, 2009;the study of long-term manure rotation effects on the rice endophytic microbial communities, more than 200 strains were isolated from rice roots (Zhang et al, 2013). Among those strains, ZYY112 T was identified as representing a potentially novel species of the genus Novosphingobium.…”

Contrasting Effects of Singlet Oxygen and Hydrogen Peroxide on Bacterial Community Composition in a Humic Lake

“…Our data and previously published clone libraries [29], [30], [31] indicate the persistence of N. acidiphilum in the humic matter rich SW basin. Its relative abundance strongly increased during 1 O 2 exposure suggesting a high 1 O 2 resistance which can be explained by a high cellular carotenoid content [40]. In addition, Sphingomonadaceae are known to degrade aromatic compounds and N. acidiphilum was favoured by the addition of phenol that represents an important fraction of leached DOM [41].…”