Lysobacter defluvii sp. nov., isolated from municipal solid waste

Yassin, Atteyet-Alla Fetouh; Chen, Wen-Ming; Hupfer, H.; Siering, Carsten; Kroppenstedt, Reiner M.; Arun, A. B.; Lai, Wei-An; Shen, Fo-Ting; Rekha, P. D.; Young, C. C.

doi:10.1099/ijs.0.64966-0

Cited by 71 publications

(50 citation statements)

References 17 publications

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“…S1 (available in IJSEM Online). The fatty acid profile of strain KMM 329 T was characterized by the predominance of branched fatty acids 16 : 0 iso (32.5 %), 15 : 0 iso (23.0 %), 11 : 0 iso 3-OH (15.5 %) and 17 : 1 iso (13.2 %), which corresponds with the profiles reported for recognized species of the genus Lysobacter (Bae et al, 2005;Weon et al, 2006Weon et al, , 2007Yassin et al, 2007). No significant distinctive features were found in the fatty acid profile of strain KMM 329 T in comparison with the profiles of Lysobacter species, except for the presence of a somewhat larger amount of 11 : 0 iso 3-OH (15.5 %).…”

supporting

confidence: 49%

“…Differential phenotypic properties, together with the phylogenetic distinctiveness of KMM 329 T , demonstrated that this strain differed from the recognized Lysobacter species. Strain KMM 329 T possessed the proteolytic, haemolytic and bacteriolytic activities that have been reported for Lysobacter species (Bae et al, 2005;Yassin et al, 2007). On the basis of the phenotypic and molecular data obtained, strain KMM 329 T represents a novel species of the genus Lysobacter.…”

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confidence: 97%

“…Subsequently, seven more species were added to the genus: Lysobacter concretionis (Bae et al, 2005), L. koreensis (Lee et al, 2006), L. daejeonensis, L. yangpyeongensis (Weon et al, 2006), L. niabensis, L. niastensis (Weon et al, 2007) and L. defluvii (Yassin et al, 2007). At the time of writing, the natural occurrence of members of the genus Lysobacter is known to be restricted to terrestrial habitats.…”

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confidence: 99%

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Lysobacter spongiicola sp. nov., isolated from a deep-sea sponge

Romanenko¹,

Uchino²,

Tanaka³

et al. 2008

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

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An aerobic, Gram-negative bacterium, strain KMM 329 T , was isolated from a deep-sea sponge specimen from the Philippine Sea and subjected to a polyphasic taxonomic investigation. Comparative 16S rRNA gene sequence analysis showed that strain KMM 329 T clustered with the species of the genus Lysobacter. The highest level of 16S rRNA gene sequence similarity (97.0 %) was found with respect to Lysobacter concretionis KCTC 12205 T ; lower values (96.4-95.2 %) were obtained with respect to the other recognized Lysobacter species. The value for DNA-DNA relatedness between strain KMM 329 T and L. concretionis KCTC 12205 T was 47 %. Branched fatty acids 16 : 0 iso, 15 : 0 iso, 11 : 0 iso 3-OH and 17 : 1 iso were found to be predominant. Strain KMM 329 T had a DNA G+C content of 69.0 mol%. On the basis of the phenotypic, chemotaxonomic, DNA-DNA hybridization and phylogenetic data, strain KMM 329 T represents a novel species of the genus Lysobacter, for which the name Lysobacter spongiicola sp. nov. is proposed. The type strain is KMM 329 T (5NRIC 0728 T 5JCM 14760 T ).

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confidence: 97%

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confidence: 99%

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Lysobacter spongiicola sp. nov., isolated from a deep-sea sponge

Romanenko¹,

Uchino²,

Tanaka³

et al. 2008

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

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“…Biomass for chemotaxonomic studies was derived from a 7-day-old BHI broth shake culture incubated at 37 u C, harvested by centrifugation and washed with distilled water. Standard procedures were used to determine the isomeric form of diaminopimelic acid (Becker et al, 1964), whole-cell sugars (Lechevalier, 1968), nonhydroxylated fatty acids (Minnikin et al, 1980;Yassin et al, 2007), polar lipids (Yassin et al, 1993b) and isoprenoid quinones (Collins et al, 1977;Yassin & Hupfer, 2006). Genomic DNA extraction and PCR-mediated amplification of the 16S rRNA gene sequence were carried out using established procedures (Rainey et al, 1996).…”

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confidence: 99%

Nocardiopsis potens sp. nov., isolated from household waste

Yassin

Spröer

Hupfer

et al. 2009

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

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The taxonomic position of an actinomycete, designated strain IMMIB L-21 T , was determined using a polyphasic taxonomic approach. The organism, which had phenotypic properties consistent with its classification in the genus Nocardiopsis, formed a distinct clade in the 16S rRNA gene sequence tree together with the type strain of Nocardiopsis composta, but was readily distinguished from this species using DNA-DNA relatedness and phenotypic data. The genotypic and phenotypic data show that the organism represents a novel species of the genus Nocardiopsis, for which the name Nocardiopsis potens sp. nov. is proposed. The type strain is IMMIB L-21 T (5DSM 45234 T 5CCUG 56587 T ).The genus Nocardiopsis was proposed by Meyer (1976) on the basis of chemotaxonomic and morphological characteristics. At the time of writing, the taxon encompasses 28 recognized species and 4 subspecies, which form a distinct clade within the evolutionary radiation occupied by members of the family Nocardiopsaceae (Rainey et al., 1996). Nocardiopsis strains are frequently isolated from saline soils (Yassin et al., 1993a;Li et al., , 2006, but they have also been recovered from an alkaline slag dump (Schippers et al., 2002), indoor environments (Peltola et al., 2001), the atmosphere of a composting facility (Kämpfer et al., 2002) and clinical material (Bernatchez & Lebreux, 1991;Yassin et al., 1997). In the present polyphasic study, an actinomycete isolated from household waste was shown to represent a novel species of the genus Nocardiopsis.Strain IMMIB L-21 T was isolated from a household dustbin on Brain Heart Infusion (BHI; BD) agar, glucose-yeast extract-malt extract agar (GYM; medium 65; DSMZ) and Columbia agar (BD) supplemented with 5 % sheep blood. The organism was grown on yeast extract-malt extract agar (ISP 2), oatmeal agar (ISP 3) and inorganic salts-starch agar (ISP 4) as described by Shirling & Gottlieb (1966) and examined for pigmentation and colour of aerial and substrate mycelia. Gram and ZiehlNeelsen stains were applied to hyphae grown on Columbia agar. Growth at different temperatures was determined at 10, 20, 27, 37 and 42 u C and a range of phenotypic characteristics was examined using standard procedures (Gordon, 1966(Gordon, , 1967Gordon & Mihm, 1957;Yassin et al., 1995). Tolerance to NaCl (0-16 %) was tested in GYM broth. Biomass for chemotaxonomic studies was derived from a 7-day-old BHI broth shake culture incubated at 37 u C, harvested by centrifugation and washed with distilled water. Standard procedures were used to determine the isomeric form of diaminopimelic acid (Becker et al., 1964), whole-cell sugars (Lechevalier, 1968), nonhydroxylated fatty acids (Minnikin et al., 1980;Yassin et al., 2007), polar lipids (Yassin et al., 1993b) and isoprenoid quinones (Collins et al., 1977;Yassin & Hupfer, 2006). Genomic DNA extraction and PCR-mediated amplification of the 16S rRNA gene sequence were carried out using established procedures (Rainey et al., 1996). The purified PCR products were sequenced using a Taq DyeDeoxy...

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“…Lipids were extracted by acid methanolysis as described by Minnikin et al (1980). Fatty acids were analysed as described recently by Yassin et al (2007).…”

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Sphingobium olei sp. nov., isolated from oil-contaminated soil

Young

Arun

et al. 2007

International Journal of Systematic and Evolutionary Microbiology

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The taxonomic status of a yellow-coloured bacterial isolate from an oil-contaminated soil sample was determined using a polyphasic taxonomic approach. Comparative analysis of 16S rRNA gene sequences showed that the novel isolate formed a distinct phyletic line within the genus Sphingobium. The generic assignment was confirmed by chemotaxonomic data, which revealed: a fatty acid profile that is characteristic of the genus Sphingobium consisting of straight-chain saturated and unsaturated as well as 2-OH fatty acids; a ubiquinone with ten isoprene units (Q-10) as the predominant respiratory quinone; a polar lipid pattern consisting of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine, phosphatidylcholine and sphingoglycolipid, and spermidine as the major polyamine component. Genotypic and phenotypic data show that the new isolate merits classification as a representative of a novel species of the genus Sphingobium, for which the name Sphingobium olei sp. nov. is proposed. The type strain is IMMIB HF-1 T (5DSM 18999 T 5CCUG 54329 T ).The genus Sphingobium Takeuchi et al. (2001) accommodates strictly aerobic, chemo-organotrophic, yellow-to whitish-brown-pigmented, Gram-negative, rod-shaped bacteria. Members of the genus can be characterized chemotaxonomically by having a fatty acid profile that contains C 18 : 1 v7c as the major fatty acid and C 14 : 0 2-OH as the main hydroxylated fatty acid. They contain ubiquinone Q-10 as the main respiratory quinone and spermidine as the major polyamine. The polar lipid pattern consists of diphosphatidylglycerol, phosphatidylglycerol, sphingoglycolipid, phosphatidylethanolamine, phosphatidyldimethylethanolamine and phosphatidylcholine (Busse et al., 1999;Stolz et al., 2000;Pal et al., 2005;Prakash & Lal, 2006;Wittich et al., 2007). Members of the genus Sphingobium represent environmental isolates that play an important role in the bioremediation and biodegradation of pollutants. At the time of writing, the genus Sphingobium comprised 12 recognized species. In this paper, the taxonomic characterization of a yellow-pigmented isolate, IMMIB HF-1 T , preliminarily identified as a member of the genus Sphingobium, is presented.Strain IMMIB HF-1 T was isolated on nutrient agar (NA) from oil-contaminated soil near the oil refinery located in Kaohsiung County, Taiwan. The isolate was subsequently cultivated on brain-heart infusion (BHI) agar (Becton Dickinson no. 237100) and tryptone soy agar (TSA; Oxoid CM 131) to determine its morphological characteristics. Fermentation and enzymic tests were performed using the API Coryne, API 20 Strep and API 20E systems and assimilation tests were performed using the API 20NE and API 50CH systems according to the manufacturer's instructions (bioMérieux), except for the time of incubation. All strips were read after 7 days incubation at 37 u C. Salt tolerance was determined by cultivating the organism in tryptone soy broth supplemented with NaCl at final concentrations of 0.0-12.0 %.The chemot...

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Lysobacter defluvii sp. nov., isolated from municipal solid waste

Cited by 71 publications

References 17 publications

Lysobacter spongiicola sp. nov., isolated from a deep-sea sponge

Lysobacter spongiicola sp. nov., isolated from a deep-sea sponge

Nocardiopsis potens sp. nov., isolated from household waste

Sphingobium olei sp. nov., isolated from oil-contaminated soil

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