Nocardioides sediminis sp. nov., isolated from a sediment sample

Dastager, Syed G.; Lee, Jae-Chan; Ju, Yoon-Jung; Park, Dong-Jin; Kim, Chang‐Jin

doi:10.1099/ijs.0.002162-0

Cited by 41 publications

(11 citation statements)

References 24 publications

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“…Neither mycelium nor filaments were observed in the tested media. In older cultures, globose bodies significantly exceeding the remaining cells in diameter, which were similar to those reported in Nocardioides tritolerans (Dastager et al , 2008) and Nocardioides sediminis (Dastager et al , 2009), were occasionally observed. Good growth was observed on ISP 2 medium, whereas poor growth occurred on NA, R2A and TSA.…”

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confidence: 85%

Nocardioides opuntiae sp. nov., isolated from soil of a cactus

Lee

Seong

2014

International Journal of Systematic and Evolutionary Microbiology

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A novel high G+C actinobacterium, designated strain OS1-21 T , was isolated from the rhizosphere soil of a cactus (Opuntia fiscus-indica var. sanboten) and the taxonomic status was investigated using a polyphasic approach. Cells of strain OS1-21 T were aerobic, Gram-stainpositive, non-endospore-forming, non-motile rods; colonies of the cells were circular, translucent, smooth and moderate yellow in colour. LL-Diaminopimelic acid was the diagnostic diamino acid in cell-wall peptidoglycan. The predominant menaquinone was MK-8(H 4 ). The major fatty acids were iso-C 16 : 0 , iso-C 16 : 0 2-OH, 10-methyl C 17 : 0 , 10-methyl C 18 : 0 and C 17 : 1 cis9. The polar lipids contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and two unknown phospholipids. The DNA G+C content was 73.7 mol%. Based on 16S rRNA gene sequence analysis, the closest phylogenetic neighbours were Nocardioides panacihumi Gsoil 616 T (98.7 % sequence similarity) and Nocardioides terrae VA15 T (97.8 %), followed by Nocardioides marinus CL-DD14 T (97.1 %). DNA-DNA relatedness values of strain OS1-21 T with the type strains of the closest phylogenetic neighbours were low (,16.0 %). Combined data of polyphasic taxonomic analyses revealed that the organism could be assigned to a novel species of the genus Nocardioides, for which the name Nocardioides opuntiae sp. nov. is proposed. The type strain is OS1-21 T (5KCTC 19804 T 5NBRC 107915 T ).The genus Nocardioides was first erected by Prauser (1976) with the description of Nocardioides albus as the type species and encompasses nocardioform actinobacteria that have LLdiaminopimelic acid as the diamino acid in the peptidoglycan and MK-8(H 4 ) as the major menaquinone. At the time of writing, the genus Nocardioides comprises 68 recognized species (http://www.bacterio.net). Among them, two species have been isolated from rhizosphere soil collected from a cliff of Mara Island, Republic of Korea: Nocardioides ultimimeridianus and Nocardioides maradonensis (Lee et al., 2011). In this study, another Nocardioides strain was isolated from the rhizosphere soil of a cactus collected at a different region from the same island and the classification of this isolate, designated OS1-21 T , is described by a polyphasic approach, based on phenotypic, phylogenetic and DNA-DNA hybridization analyses. 2)] and the agar plates were incubated for 14 days at 30 u C. The isolates were repeatedly subcultured onto International Streptomyces Project (ISP) 2 medium (Shirling & Gottlieb, 1966) and the pure culture was stored in a 20 % (v/v) glycerol solution at 220 u C and 280 u C. For phenotypic comparisons and DNA-DNA hybridization experiments, Nocardioides panacihumi KCTC 19187 T and Nocardioides terrae NBRC 104259 T were grown on ISP 2 medium at 30 u C and used as reference strains.Growth of strain OS1-21 T was tested on ISP 2 medium, nutrient agar (NA; Difco), R2A agar (Difco) and trypticase soy agar (TSA; Difco). The morphological and cultural characteristics of the organisms were examined using cells gro...

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confidence: 85%

Nocardioides opuntiae sp. nov., isolated from soil of a cactus

Lee

Seong

2014

International Journal of Systematic and Evolutionary Microbiology

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“…At the time of preparing this paper, the genus contained 73 species with validly published names (http://www.bacterio.net/nocardioides.html; Euzéby, 1997). Some of the 73 species were isolated from saline–alkaline environments; for instance, four type strains were isolated from alkaline soils (Yoon et al , 2005a, b, c, 2006), nine type strains were isolated from marine sediments (Yi & Chun, 2004a, b; Lee et al , 2007; Lee, 2007; Park et al , 2008; Dastager et al , 2009; Kim et al , 2009; Fan et al ; 2014, Zhang et al , 2014), one species was isolated from a salt lake (Lawson et al , 2000) and three species were isolated from seawater (Choi et al , 2007; Cho et al , 2013a, b).…”

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confidence: 99%

Nocardioides deserti sp. nov., an actinobacterium isolated from desert soil

Dong

Habden

et al. 2015

International Journal of Systematic and Evolutionary Microbiology

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A rod-or coccus-shaped, non-spore-forming actinobacterium, designated strain SC8A-24 T , was isolated from a soil sample collected from the rhizosphere of Alhagi sparsifolia on the southern edge of the Taklimakan desert, Xinjiang, China, and examined by a polyphasic approach to clarify its taxonomic position. This actinobacterium was Gram-staining-positive and aerobic. Substrate and aerial mycelia were not observed, and no diffusible pigments were observed on the media tested. Strain SC8A-24 T grew optimally without NaCl at 28-30 6C and pH 7.0-8.0.Phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain SC8A-24 T belonged to the genus Nocardioides and shared the highest 16S rRNA gene sequence similarity with Nocardioides salarius CL-Z59 T (96.51 %), N. pyridinolyticus OS4 T (96.43 %) and N.ginsengagri BX5-10 T (96.37 %). The DNA G+C content of strain SC8A-24 T was 71 mol%. The cell-wall peptidoglycan contained LL-2,6-diaminopimelic acid, and MK-8(H 4 ) was the predominant menaquinone. The major polar lipids were phosphatidylglycerol, diphosphatidylglycerol, an unidentified glycolipid and an unidentified phospholipid. The major fatty acids were C 17 : 1 v8c, 10-methyl C 17 : 0 and C 18 : 1 v9c. On the basis of phylogenetic analysis and phenotypic and chemotaxonomic characteristics, strain SC8A-24 T represents a novel species of the genus Nocardioides, for which the name Nocardioides deserti sp. nov. is proposed. The type strain is SC8A-24 T (5DSM 26045 T 5CGMCC 4.7183 T ).

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“…Members of this genus are Gramstaining positive, non-acid-fast, aerobic and motile or non motile actinomycetes (Evtushenko et al 2015). The genus Nocardioides is versatile, being isolated not only from soil (Prauser 1976;Ahn et al 2014), but also from sea water (Kim et al 2008), volcanic ash (Lee and Lee 2014), sea food samples (Lin et al 2015), desert (Tuo et al 2015), ground water (Yoon et al 2004), beach sand (Lee et al 2007) and sediment sample (Dastager et al 2009). Different species of the genus Nocardioides have the ability to grow from psychrophilic to mesophilic (Dastager et al 2010) and thermophilic growth conditions.…”

Section: Introductionmentioning

confidence: 98%

Nocardioides pakistanensis sp. nov., isolated from a hot water spring of Tatta Pani in Pakistan

Amin

Ahmed

Habib

et al. 2016

Antonie van Leeuwenhoek

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A Gram-staining positive, non-spore forming, non-pigmented and non-motile bacterium, designated as NCCP-1340(T), was isolated from a hot water spring, Tatta Pani, Pakistan. Cells of strain NCCP-1340(T) were observed to be aerobic, rod shaped, catalase and urease positive but H2S production and oxidase negative. Growth was observed at pH 6.0-8.0 (optimum pH 7.0) and at 20-40 °C (optimum 37 °C). The strain could tolerate 0-8 % NaCl (optimum 2 %, w/v). Phylogenetic analysis based on 16S rRNA gene sequence comparisons revealed that strain NCCP-1340(T) belongs to the genus Nocardioides and is closely related to Nocardioides iriomotensis JCM 17985(T) (96.8 %), Nocardioides daedukensis KCTC 19601(T) (96.6 %), Nocardioides jensenii KCTC 9134(T) (96.1 %) and Nocardioides daejeonensis KCTC 19772(T) (96.1 %). The DNA-DNA relatedness values of strain NCCP-1340(T) with N. iriomotensis JCM 17985(T), N. daedukensis KCTC 19601(T) and N. jensenii KCTC 9134(T) were found to be less than 53 %. The DNA G+C content of strain NCCP-1340(T) was determined to be 71.8 mol %. The affiliation of strain NCCP-1340(T) to the genus Nocardioides was further supported by chemotaxonomic data which showed the presence of MK-8(H4) as major menaquinone system; iso-C16:0, C17:0, C16:0 10-methyl, iso-C15:0 and C 15:0 as major cellular fatty acids; and diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and unidentified glycolipids and polar lipids in the polar lipids profile. The cell wall peptidoglycan contained LL-diaminopimelic acid as the diagnostic amino acid. On the basis of physiological and biochemical characteristics and the phylogenetic analyses, strain NCCP-1340(T) can be distinguished from the closely related taxa and thus represents a novel species of the genus Nocardioides, for which the name Nocardioides pakistanensis sp. nov. is proposed with the type strain NCCP-1340(T) (= DSM 29942(T) = JCM 30630(T)).

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Nocardioides sediminis sp. nov., isolated from a sediment sample

Cited by 41 publications

References 24 publications

Nocardioides opuntiae sp. nov., isolated from soil of a cactus

Nocardioides opuntiae sp. nov., isolated from soil of a cactus

Nocardioides deserti sp. nov., an actinobacterium isolated from desert soil

Nocardioides pakistanensis sp. nov., isolated from a hot water spring of Tatta Pani in Pakistan

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