scholarly journals Microlunatus soli sp. nov., isolated from soil

2010 ◽  
Vol 60 (4) ◽  
pp. 824-827 ◽  
Author(s):  
P. Kämpfer ◽  
Chiu-Chung Young ◽  
H.-J. Busse ◽  
Jiunn-Nan Chu ◽  
P. Schumann ◽  
...  
Keyword(s):  
Edible Mushroom ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Glycine Residue ◽  
Gene Sequence Analysis ◽  
Peptidoglycan Structure ◽  
Unknown Phospholipid ◽  
Type Strains ◽  
Physiological And Biochemical

A Gram-stain-positive, coccoid, non-endospore-forming actinobacterium (strain CC-12602T) was isolated from a spawn used for growing the edible mushroom Agaricus brasiliensis in the laboratory. On the basis of 16S rRNA gene sequence analysis, strain CC-12602T was shown to belong to the genus Microlunatus and was related most closely to the type strains of Microlunatus ginsengisoli (96.1 % similarity), M. phosphovorus (95.9 %), M. panaciterrae (95.8 %) and M. aurantiacus (95.5 %). The quinone system comprised menaquinone MK-9(H4) as the major component and the polyamine pattern consisted of spermidine and spermine as major compounds. The predominant polar lipids were phosphatidylglycerol and unknown phospholipid PL3. Moderate amounts of diphosphatidylglycerol, an unknown glycolipid and three unknown phospholipids and minor amounts of an unknown phospholipid and a polar lipid were detected. The peptidoglycan type was A3γ′, based on ll-2,6-diaminopimelic acid with an interpeptide bridge consisting of a single glycine residue and a second glycine residue at position 1 of the peptide subunit. Peptidoglycan structure and major fatty acids (anteiso-C15 : 0, iso-C16 : 0 and iso-C15 : 0) supported the affiliation of strain CC-12602T to the genus Microlunatus. The results of physiological and biochemical tests allowed strain CC-12602T to be differentiated phenotypically from recognized Microlunatus species. Strain CC-12602T is therefore considered to represent a novel species of the genus Microlunatus, for which the name Microlunatus soli sp. nov. is proposed. The type strain is CC-12602T (=DSM 21800T =CCM 7685T).

scholarly journals Streptomyces qinglanensis sp. nov., isolated from mangrove sediment

2012 ◽  
Vol 62 (Pt_3) ◽  
pp. 596-600 ◽  
Author(s):  
Huo Hu ◽  
Hai-Peng Lin ◽  
Qingyi Xie ◽  
Lei Li ◽  
Xin-Qiang Xie ◽  
...  
Keyword(s):  
Aerial Mycelium ◽  
Diaminopimelic Acid ◽  
Mangrove Sediment ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Phenotypic Data ◽  
Phenotypic Differentiation ◽  
Mangrove Soil ◽  
Type Strains ◽  
Physiological And Biochemical

A Streptomyces-like strain, 172205T, was obtained from mangrove soil collected at Qinglan Harbour, Wenchang, Hainan, China. The strain was characterized by white aerial mycelium and long spore chains. Comparison of 16S rRNA gene sequences indicated that the strain represents a novel member of the genus Streptomyces, exhibiting highest levels of similarity (<98.29 %) to the type strains of members of the genus Streptomyces. However, DNA–DNA relatedness and phenotypic data readily distinguished strain 172205T from phylogenetically related type strains. The predominant menaquinones were MK-9(H6) and MK-9(H8). The major fatty acids were iso-C15 : 0 (10.31 %), anteiso-C15 : 0 (35.19 %), iso-C16 : 0 (20.24 %) and anteiso-C17 : 0 (10.05 %). The diagnostic phospholipid was phosphatidylethanolamine. The cell wall contained ll-diaminopimelic acid and meso-diaminopimelic acid and whole-cell hydrolysates contained ribose, galactose and glucose. The results of DNA–DNA hybridization, physiological and biochemical tests allowed the genotypic and phenotypic differentiation of strain 172205T from phylogenetically related type strains. Therefore, strain 172205T is considered to represent a novel species of the genus Streptomyces, for which the name Streptomyces qinglanensis sp. nov. is proposed. The type strain is 172205T ( = CGMCC 4.6825T  = DSM 42035T).

scholarly journals Stenotrophomonas terrae sp. nov. and Stenotrophomonas humi sp. nov., two nitrate-reducing bacteria isolated from soil

2007 ◽  
Vol 57 (9) ◽  
pp. 2056-2061 ◽  
Author(s):  
Kim Heylen ◽  
Bram Vanparys ◽  
Filip Peirsegaele ◽  
Liesbeth Lebbe ◽  
Paul De Vos
Keyword(s):  
Soil Analysis ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Gene Sequence Analysis ◽  
Species Analysis ◽  
Different Strains ◽  
Reducing Bacteria ◽  
Nitrate Reducing Bacteria ◽  
Type Strains ◽  
Physiological And Biochemical

Three Gram-negative, rod-shaped, non-spore-forming, nitrate-reducing isolates (R-32746, R-32768T and R-32729T) were obtained from soil. Analysis of repetitive sequence-based PCR showed that the three isolates represented two different strains. 16S rRNA gene sequence analysis and DNA–DNA hybridization placed them within the genus Stenotrophomonas and revealed that they were genotypically different from each other and from all recognized Stenotrophomonas species. Analysis of the fatty acid composition and physiological and biochemical tests allowed differentiation from their closest phylogenetic neighbours. They are therefore considered to represent two novel species, for which the names Stenotrophomonas terrae sp. nov. and Stenotrophomonas humi sp. nov. are proposed, with strains R-32768T (=LMG 23958T=DSM 18941T) and R-32729T (=LMG 23959T=DSM 18929T), respectively, as the type strains.

scholarly journals Virgibacillus soli sp. nov., isolated from mountain soil

2011 ◽  
Vol 61 (2) ◽  
pp. 275-280 ◽  
Author(s):  
P. Kämpfer ◽  
A. B. Arun ◽  
H.-J. Busse ◽  
S. Langer ◽  
C.-C. Young ◽  
...  
Keyword(s):  
Rrna Gene ◽  
Positive Bacterium ◽  
Biochemical Tests ◽  
Unidentified Phospholipid ◽  
Polar Lipid Profile ◽  
Phenotypic Differentiation ◽  
Gene Sequence Analysis ◽  
Bacterium Strain ◽  
Type Strains ◽  
Physiological And Biochemical

A Gram-positive bacterium (strain CC-YMP-6T) was isolated from soil samples collected from Yang-Ming Mountain, Taiwan. On the basis of 16S rRNA gene sequence analysis, strain CC-YMP-6T clearly belonged to the genus Virgibacillus and was most closely related to the type strains of Virgibacillus halophilus (96.2 % similarity) and Virgibacillus kekensis (96.3 %). The predominant isoprenoid quinone was menaquinone MK-7 and the polar lipid profile was composed of the major components diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and one unidentified phospholipid plus moderate amounts of two unidentified aminophospholipids and a phospholipid. The polyamine pattern comprised spermidine as the single major component with spermine and putrescine present in minor amounts. The major fatty acids of strain CC-YMP-6T were iso-C15 : 0 and anteiso-C15 : 0. The results of physiological and biochemical tests allowed the clear phenotypic differentiation of strain CC-YMP-6T from all recognized species of the genus Virgibacillus. Strain CC-YMP-6T is therefore considered to represent a novel species of the genus Virgibacillus, for which the name Virgibacillus soli sp. nov. is proposed. The type strain is CC-YMP-6T (=DSM 22952T=CCM 7714T).

Pseudomonas peli sp. nov. and Pseudomonas borbori sp. nov., isolated from a nitrifying inoculum

2006 ◽  
Vol 56 (8) ◽  
pp. 1875-1881 ◽  
Author(s):  
Bram Vanparys ◽  
Kim Heylen ◽  
Liesbeth Lebbe ◽  
Paul De Vos
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Banding Patterns ◽  
Gene Sequence Analysis ◽  
Species Analysis ◽  
Sds Page ◽  
Type Strains ◽  
Physiological And Biochemical

Sixteen Gram-negative, rod-shaped, non-spore-forming isolates were obtained from a nitrifying inoculum. Analysis of repetitive sequence-based PCR and SDS-PAGE banding patterns, 16S rRNA gene sequence analysis and DNA–DNA hybridizations showed that the isolates belonged to various groups within the genus Pseudomonas. One group of isolates could be assigned to Pseudomonas migulae and a second to Pseudomonas veronii. Two groups could be differentiated genotypically from each other and from all other currently known Pseudomonas species. Analysis of the fatty acid composition and physiological and biochemical tests allowed differentiation of these groups from their closest phylogenetic neighbours and they therefore represent two novel species within the genus Pseudomonas, for which the names Pseudomonas peli sp. nov. and Pseudomonas borbori sp. nov. are proposed, with strains LMG 23201T (=DSM 17833T=R-20805T) and LMG 23199T (=DSM 17834T=R-20821T), respectively, as the type strains.

scholarly journals Arthrobacter livingstonensis sp. nov. and Arthrobacter cryotolerans sp. nov., salt-tolerant and psychrotolerant species from Antarctic soil

2011 ◽  
Vol 61 (4) ◽  
pp. 979-984 ◽  
Author(s):  
Lars Ganzert ◽  
Felizitas Bajerski ◽  
Kai Mangelsdorf ◽  
André Lipski ◽  
Dirk Wagner
Keyword(s):  
Type Strain ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Biochemical Tests ◽  
Gene Sequence Analysis ◽  
Cold Tolerant ◽  
Respective Type ◽  
Ph Range ◽  
Type Strains ◽  
Physiological And Biochemical

Two novel cold-tolerant, Gram-stain-positive, motile, facultatively anaerobic bacterial strains, LI2T and LI3T, were isolated from moss-covered soil from Livingston Island, Antarctica, near the Bulgarian station St Kliment Ohridski. A rod–coccus cycle was observed for both strains. 16S rRNA gene sequence analysis revealed an affiliation to the genus Arthrobacter, with the highest similarity to Arthrobacter stackebrandtii and Arthrobacter psychrochitiniphilus for strain LI2T (97.8 and 97.7 % similarity to the respective type strains) and to Arthrobacter kerguelensis and Arthrobacter psychrophenolicus for strain LI3T (97.4 and 97.3 % similarity to the respective type strains). The growth temperature range was −6 to 28 °C for LI2T and −6 to 24 °C for LI3T, with an optimum at 16 °C for both strains. Growth occurred at 0–10 % (w/v) NaCl, with optimum growth at 0–1 % (w/v) for LI2T and 0.5–3 % (w/v) for LI3T. The pH range for growth was pH 4–9.5 with an optimum of pH 8 for LI2T and pH 6.5 for LI3T. The predominant fatty acids were anteiso-C15 : 0, C18 : 0 and anteiso-C17 : 0 for LI2T and anteiso-C15 : 0 and C18 : 0 for LI3T. Physiological and biochemical tests clearly differentiated strain LI2T from A. stackebrandtii and A. psychrochitiniphilus and strain LI3T from A. kerguelensis and A. psychrophenolicus. Therefore, two novel species within the genus Arthrobacter are proposed: Arthrobacter livingstonensis sp. nov. (type strain LI2T  = DSM 22825T  = NCCB 100314T) and Arthrobacter cryotolerans sp. nov. (type strain LI3T  = DSM 22826T  = NCCB 100315T).

scholarly journals Alkalibacillus filiformis sp. nov., isolated from a mineral pool in Campania, Italy

2005 ◽  
Vol 55 (6) ◽  
pp. 2395-2399 ◽  
Author(s):  
Ida Romano ◽  
Licia Lama ◽  
Barbara Nicolaus ◽  
Agata Gambacorta ◽  
Assunta Giordano
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Compatible Solutes ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Phylogenetic Distance ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
Gene Sequence Analysis ◽  
Physiological And Biochemical

A halo-alkaliphilic, Gram-positive, non-motile bacterium, designated strain 4AGT, was isolated from a mineral pool located in Malvizza, Campania, southern Italy. On the basis of 16S rRNA gene sequence analysis, strain 4AGT was shown to belong to the genus Alkalibacillus within the phylum Firmicutes; its phylogenetic distance from recognized Alkalibacillus species was <95·0 %. Chemotaxonomic data (MK-7 as the major menaquinone; directly cross-linked meso-diaminopimelic acid in the cell wall; phosphatidylglycerol and diphosphatidylglycerol as major polar lipids; iso-C15 : 0, anteiso-C15 : 0 and iso-C17 : 0 as major fatty acids; and glycine betaine and glutamate as major compatible solutes) supported the affiliation of the strain to the genus Alkalibacillus. The results of DNA–DNA hybridization and physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain 4AGT from the two recognized Alkalibacillus species. Strain 4AGT therefore represents a novel species, for which the name Alkalibacillus filiformis sp. nov. is proposed. The type strain is 4AGT (=DSM 15448T=ATCC BAA-956T).

scholarly journals Microbacterium arthrosphaerae sp. nov., isolated from the faeces of the pill millipede Arthrosphaera magna Attems

2011 ◽  
Vol 61 (6) ◽  
pp. 1334-1337 ◽  
Author(s):  
P. Kämpfer ◽  
P. D. Rekha ◽  
P. Schumann ◽  
A. B. Arun ◽  
Chiu-Chung Young ◽  
...  
Keyword(s):  
Fatty Acid ◽  
Glutamic Acid ◽  
Molar Ratio ◽  
Rrna Gene ◽  
Genotypic Differences ◽  
Biochemical Tests ◽  
Closely Related Species ◽  
Unknown Phospholipid ◽  
Physiological And Biochemical ◽  
Sequence Similarities

A Gram-reaction-positive, rod-shaped bacterium, designated strain CC-VM-YT, was isolated from the faeces of the pill millipede Arthrosphaera magna Attems from India and was subsequently studied to determine its taxonomic position. Based on16S rRNA gene sequence similarities, the isolate clearly grouped with members of the genus Microbacterium. On the basis of pairwise comparisons of the 16S rRNA gene sequences, strain CC-VM-YT was most closely related to Microbacterium insulae DS-66T (98 %), Microbacterium hydrocarbonoxydans DSM 160809T (97.8 %) and Microbacterium hominis NBRC 15708T (97.9 %). The peptidoglycan contained the amino acids ornithine (Orn), alanine (Ala), glycine (Gly), homoserine (Hsr) and glutamic acid (Glu) in an approximate molar ratio of 1.0 : 0.8 : 2.2 : 0.8 : 0.3. In addition, substantial amounts of threo-3-hydroxy glutamic acid (Hyg) were detected, which is characteristic of peptidoglycan type B2β. The acyl type of the peptidoglycan was glycolyl. The menaquinones of strain CC-VM-YT were MK-13 (72 %), MK-12 (25 %) and MK-11 (3 %). The polar lipids consisted of phosphatidylglycerol, diphosphatidylglycerol, one unknown phospholipid and one unknown glycolipid. The fatty acid profile comprised anteiso-C15 : 0, iso-C16 : 0 and anteiso-C17 : 0 as the major fatty acids, which was congruent with fatty acid profiles of other members of the genus Microbacterium. The results of physiological and biochemical tests as well as DNA–DNA hybridizations with the most closely related species, M. insulae, M. hydrocarbonoxydans and M. hominis, revealed clear phenotypic and genotypic differences between strain CC-VM-YT and other members of the genus Microbacterium. Based on these results, strain CC-VM-YT ( = DSM 22421T  = CCM 7681T) represents a new species of the genus Microbacterium, for which the name Microbacterium arthrosphaerae sp. nov. is proposed.

Terrabacter carboxydivorans sp. nov., a carbon monoxide-oxidizing actinomycete

2011 ◽  
Vol 61 (3) ◽  
pp. 482-486 ◽  
Author(s):  
Sung M. Kim ◽  
Sae W. Park ◽  
Sang T. Park ◽  
Young M. Kim
Keyword(s):  
Carbon Monoxide ◽  
Dna Hybridization ◽  
Gene Sequence ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Gene Sequence Analysis ◽  
Diamino Acid ◽  
Type Strains

A bacterial strain, PY2T, capable of oxidizing carbon monoxide, was isolated from a soil sample collected from a roadside at Yonsei University, Seoul, Korea. On the basis of 16S rRNA gene sequence analysis, strain PY2T was shown to belong to the genus Terrabacter and was most closely related to Terrabacter lapilli LR-26T (99.1 % similarity). Strain PY2T was characterized chemotaxonomically as having iso-C15 : 0 as the predominant fatty acid, MK-8(H4) as the major menaquinone, ll-diaminopimelic acid as the diagnostic diamino acid of the cell wall, as possessing a polar lipid profile that included diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol and unknown amino-containing phosphoglycolipids, and having a DNA G+C content of 75.6 mol%. DNA–DNA relatedness values between strain PY2T and the type strains of T. lapilli, Terrabacter tumescens, Terrabacter terrae and Terrabacter aerolatus were 20.0 %, 22.9 %, 35.9 % and 64.5 %, respectively. Based on the combined evidence from the phylogenetic analyses, chemotaxonomic data and DNA–DNA hybridization experiments, it is proposed that strain PY2T represents a novel species for which the name Terrabacter carboxydivorans sp. nov. is proposed. The type strain is PY2T (=KCCM 42922T=JCM 16259T).

scholarly journals Streptomyces fenghuangensis sp. nov., isolated from seawater

2011 ◽  
Vol 61 (12) ◽  
pp. 2811-2815 ◽  
Author(s):  
Honghui Zhu ◽  
Shumei Jiang ◽  
Qing Yao ◽  
Yonghong Wang ◽  
Meibiao Chen ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Sequence Similarity ◽  
Aerial Mycelium ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Substrate Mycelium ◽  
Physiological And Biochemical Characteristics ◽  
Type Strains ◽  
Physiological And Biochemical ◽  
The 16S Rrna Gene

An actinomycete, designated strain GIMN4.003T, was isolated from seawater collected in Sanya, China. It produced white aerial mycelium and yellow substrate mycelium on Gause’s synthetic agar medium no. 1. The substrate mycelium colour was not sensitive to pH. Scanning electron microscopy observations revealed that GIMN4.003T produced straight to flexuous spore chains of rough to warty spores. ll-Diaminopimelic acid was present in the cell-wall hydrolysate. Based on chemotaxonomy and morphological features, strain GIMN4.003T was identified as a member of the genus Streptomyces. Melanin was not produced. No antimicrobial activity was detected against Escherichia coli, Pseudomonas aeruginosa, Bacillus subtilis, Penicillium citrinum or Candida albicans. Analysis of the 16S rRNA gene sequence revealed that the highest sequence similarity was to Streptomyces radiopugnans R97T (99.0 %). However, DNA relatedness between GIMN4.003T and S. radiopugnans DSM 41901T was low (41.24±1.47 %). Furthermore, the morphological, physiological and biochemical characteristics of strain GIMN4.003T were different from those of S. radiopugnans DSM 41901T and the type strains of other closely related Streptomyces species. On the basis of its physiological and molecular properties, it is evident that strain GIMN4.003T ( = CCTCCM 208215T  = NRRL B-24801T) represents the type strain of a novel species within the genus Streptomyces, for which the name Streptomyces fenghuangensis sp. nov. is proposed.

scholarly journals Bacillus encimensis sp. nov. isolated from marine sediment

2015 ◽  
Vol 65 (Pt_5) ◽  
pp. 1421-1425 ◽  
Author(s):  
Syed G. Dastager ◽  
Rahul Mawlankar ◽  
Poonam Mual ◽  
Ashish Verma ◽  
Srinivasan Krishnamurthi ◽  
...  
Keyword(s):  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Diamino Acid ◽  
Type Strains ◽  
The 16S Rrna Gene

A Gram-stain-positive, rod-shaped, endospore-forming, aerobic bacterium designated SGD-V-25T was isolated from Veraval sediment sample, India. Strain SGD-V-25T was capable of growing at 25–50 °C (optimum 37 °C), pH 6–12 (optimum pH 7.0) and with 0–5 % (w/v) NaCl. The taxonomic position of this strain was deduced using a polyphasic approach and the 16S rRNA gene sequence analysis showed that the isolate belongs to the phylum Firmicutes , forming the cluster with Bacillus badius MTCC 1548T, with which it shares highest similarity of 99.1 % with 13 nt differences. Other type strains of the genus Bacillus showed less than 96 % similarity. The cell wall contained meso-diaminopimelic acid as the diagnostic diamino acid. The polar lipid profile of strain SGD-V-25T showed the presence of diphosphatidylglycerol, phosphatidylglycerol, phsophoglycolipid and two aminophospholipids. The predominant isoprenoid quinone was MK-7. The major cellular fatty acids were iso-C15 : 0, anteiso-C15 : 0, anteiso-C17 : 0, iso-C16 : 0, C16 : 1ω11c and C16 : 0. The genomic DNA G+C content of strain SGD-V-25T was 37.6 mol%. On the basis of phenotypic characteristics, phylogenetic analysis and DNA–DNA hybridization, strain SGD-V-25T could be clearly distinguished from closely related members of the genus Bacillus , and the name Bacillus encimensis sp. nov., is proposed to accommodate this strain. The type strain is SGD-V-25T ( = NCIM 5513T = DSM 28241T).

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