Patulibacter medicamentivorans sp. nov., isolated from activated sludge of a wastewater treatment plant

Abstract

A Gram-positive, aerobic, non-motile, non-endospore-forming rod-shaped bacterium with ibuprofen-degrading capacity, designated strain I11 T , was isolated from activated sludge from a wastewater treatment plant. The major respiratory quinone was demethylmenaquinone DMK-7, C 18 : 1 cis9 was the predominant fatty acid, phosphatidylglycerol was the predominant polar lipid, the cell wall contained meso-diaminopimelic acid as the diagnostic diamino acid and the G+C content of the genomic DNA was 74.1 mol%. On the basis of 16S rRNA gene sequence analysis, the closest phylogenetic neighbours of strain I11 T were Patulibacter ginsengiterrae CECT 7603 T (96.8 % similarity), Patulibacter minatonensis DSM 18081 T (96.6 %) and Patulibacter americanus DSM 16676 T (96.6 %). Phenotypic characterization supports the inclusion of strain I11 T within the genus Patulibacter (phylum Actinobacteria). However, distinctive features and 16S rRNA gene sequence analysis suggest that is represents a novel species, for which the name Patulibacter medicamentivorans sp. nov. is proposed. The type strain is I11 T (5DSM 25962 T 5CECT 8141 T ).

Parviterribacter kavangonensis gen. nov., sp. nov. and Parviterribacter multiflagellatus sp. nov., novel members of Parviterribacteraceae fam. nov. within the order Solirubrobacterales, and emended descriptions of the classes Thermoleophilia and Rubrobacteria and their orders and families

“…In addition, summed feature 6 (C 19 : 1 v9c and/or C 19 : 1 v11c) and 10-methyl C 17 : 0 occurred in significant amounts (8.6 and 7.2 %, respectively). The occurrence of 10-methyl C 17 : 0 as a major component is a trait that strain D16/0/H6 T shares with the Rubrobacterales (Albuquerque et al, 2014), while members of the order Solirubrobacterales contain this unusual fatty acid in small relative proportions at most (Almeida et al, 2013;Kim et al, 2012;Reddy & Garcia-Pichel, 2009;Sasser, 1990;Seki et al, 2012;Wei et al, 2014;Zhang et al, 2014). The large amounts of the methyl-branched fatty acid iso-C 16 : 0 and the presence of certain monounsaturated fatty acids of different lengths (C 18 : 1 v9c, C 17 : 1 v8c, C 17 : 1 v6c) in strains D16/0/H6 T and A22/0/F9_1 T are properties that are shared with different members of the Solirubrobacterales (Table 1).…”

“…The Conexibacteraceae contains the genus Conexibacter (Monciardini et al, 2003), with its two members Conexibacter woesei (Monciardini et al, 2003) and C. arvalis (Seki et al, 2012). The Patulibacteraceae comprises the genus Patulibacter (Takahashi et al, 2006), which so far includes the four species Patulibacter minatonensis (Takahashi et al, 2006), Patulibacter americanus (Reddy & Garcia-Pichel, 2009), Patulibacter ginsengiterrae (Kim et al, 2012) and Patulibacter medicamentivorans (Almeida et al, 2013). In addition, Bactoderma rosea (Tepper & Korshunova, 1973;Yarza et al, 2013), the 16S rRNA gene sequence of which was obtained only recently (Yarza et al, 2013), is affiliated phylogenetically to the genus Patulibacter (99.7 % sequence similarity to the type strain of Patulibacter minatonensis).…”

New genus-specific primers for PCR identification of Rubrobacter strains

“…83025EU710748Kim et al (2012) Patulibacter medicamentivorans DSM 25962 T DSMZ medium No. 83028AGUD01000068Almeida et al (2013) Patulibacter minatonensis NCIMB 14347 T NCIMB medium No. 28326AB193261Takahashi et al (2006) Solirubrobacter ginsenosidimutans JCM 19086 T JCM medium No.…”

Patulibacter brassicae sp. nov., isolated from rhizosphere soil of Chinese cabbage (Brassica campestris)

“…The temperature (4,10,15,20,25,27,30,34,37,39 and 42 C),salinity (1.5,2.5,3.0,3.5,4.0,5.0 and 6.0 %,w/v,NaCl) and pH (5.0,5.5,6.0,6.5,7.0,7.5,8.0,9.0,10.0,11.0 and 12.0) for growth were determined by measuring the turbidity (600 nm) of cultures grown in 150 ml flasks containing 100 ml TSB and incubated at 28 C. Catalase activity was determined by assessing bubble production in 3 % (v/v) H 2 O 2 , and oxidase activity was determined using 1 % (w/v) tetramethyl-p-phenylenediamine. The antibiotic susceptibility was tested according to the method described by Almeida et al (2013), with antibiotic discs containing the following: amikacin (30 µg), ampicillin (10 µg), aztreonam (30 µg), azithromycin (15 µg), ceftriaxone (30 µg), ciprofloxacin (5 µg), chloramphenicol (30 µg), gentamicin (10 µg), imipenem (10 µg), nalidixic acid (30 µg), norfloxacin (10 µg), polymyxin B (300 U), penicillin G (10 U), tobramycin (10 µg), tetracycline (30 µg) and vancomycin (30 µg). Additional physiological and biochemical characteristics were determined using the API 50CH, API 20NE and API ZYM systems (bioM erieux) and Biolog GEN III Microplate according to the manufacturers' instructions.…”

“…The genus Patulibacter, a member of the family Thermoleophilia, phylum Actinobacteria, was described by Takahashi et al (2006) and currently comprises four species, Patulibacter minatonensis (the type species of the genus) (Takahashi et al, 2006), Patulibacter americanus (Reddy & Garcia-Pichel, 2009), Patulibacter ginsengiterrae (Kim et al, 2012) and Patulibacter medicamentivorans (Almeida et al, 2013). During the screening of phthalate ester-degrading strains from rhizosphere soil of Chinese cabbage (Brassica campestris), a novel bacterial strain was isolated in 2015 and designated SD T .…”