scholarly journals Chryseobacterium shigense sp. nov., a yellow-pigmented, aerobic bacterium isolated from a lactic acid beverage

2005 ◽  
Vol 55 (5) ◽  
pp. 1903-1906 ◽  
Author(s):  
Kengo Shimomura ◽  
Shigeo Kaji ◽  
Akira Hiraishi
Keyword(s):  
Lactic Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
The Novel ◽  
Phenotypic Properties ◽  
Sequence Comparisons ◽  
Novel Bacterium ◽  
Low Levels ◽  
Established Species

A yellow-pigmented bacterium designated strain GUM-KajiT was isolated from a lactic acid beverage. The strain had Gram-negative, non-motile, rod-shaped cells. It was strictly aerobic and chemo-organotrophic and grew at 5–30 °C and at pH 5–8. The major components of the non-polar and 3-hydroxy fatty acids were C15 : 0 iso and 3-OH-C17 : 0 iso, respectively. Menaquinone MK-6 was detected as the sole quinone. 16S rRNA gene sequence comparisons revealed that strain GUM-KajiT is affiliated to the genus Chryseobacterium, with Chryseobacterium joostei as its phylogenetic neighbour, but there were low levels of similarity (<96 %) to any established species of the genus. The G+C content of the genomic DNA was 36·6 mol%. The novel bacterium differed from any known species of Chryseobacterium in terms of a number of phenotypic properties. Thus, the name Chryseobacterium shigense sp. nov. is proposed for this novel bacterium. The type strain is strain GUM-KajiT (=BAMY 1001T=NCIMB 14047T=DSM 17126T).

Chryseobacterium solincola sp. nov., isolated from soil

2010 ◽  
Vol 60 (8) ◽  
pp. 1876-1880 ◽  
Author(s):  
Yam Benmalek ◽  
Jean-Luc Cayol ◽  
Nabila A. Bouanane ◽  
Hocine Hacene ◽  
Guy Fauque ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
The Novel ◽  
Phenotypic Properties ◽  
Gram Staining ◽  
Gene Sequence Analysis ◽  
Western Algeria ◽  
Distinct Lineage

A Gram-staining-negative, yellow-pigmented, strictly aerobic bacterium, designated strain 1YB-R12T, was isolated from a soil sample in western Algeria. The novel isolate was heterotrophic, chemoorganotrophic, halotolerant and psychrotolerant. The temperature and pH optima for growth were 28–30 °C and pH 7.3–8. The bacterium tolerated up to 6 % (w/v) NaCl. Cells were non-motile, non-gliding and non-spore-forming, and were characterized by a variable morphological cycle. Flexirubin-type pigments were not detected. 16S rRNA gene sequence analysis showed that strain 1YB-R12T occupied a distinct lineage within the genus Chryseobacterium and shared highest sequence similarity with Chryseobacterium haifense LMG 24029T (96.5 %). The DNA G+C content of strain 1YB-R12T was 40.9 mol%. The predominant cellular fatty acids were anteiso-C15 : 0 (41.4 %) and iso-C15 : 0 (14.4 %). On the basis of phenotypic properties and phylogenetic distinctiveness, strain 1YB-R12T is considered to represent a novel species of the genus Chryseobacterium, for which the name Chryseobacterium solincola sp. nov. is proposed. The type strain is 1YB-R12T (=DSM 22468T=CCUG 55604T).

scholarly journals Aeromicrobium panaciterrae sp. nov., isolated from soil of a ginseng field in South Korea

2007 ◽  
Vol 57 (4) ◽  
pp. 687-691 ◽  
Author(s):  
Ying-Shun Cui ◽  
Wan-Taek Im ◽  
Cheng-Ri Yin ◽  
Jung-Sook Lee ◽  
Keun Chul Lee ◽  
...  
Keyword(s):  
South Korea ◽  
Type Strain ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
The Novel ◽  
Biochemical Tests ◽  
The Family

A Gram-positive, rod-shaped, non-spore-forming and strictly aerobic bacterium (Gsoil 161T) was isolated from soil of a ginseng field in Pocheon Province, South Korea. The novel isolate was characterized using a polyphasic approach in order to determine its taxonomic position. On the basis of 16S rRNA gene sequence similarity, strain Gsoil 161T was shown to belong to the family Nocardioidaceae and was related to Aeromicrobium marinum (98.0 % similarity to the type strain), Aeromicrobium alkaliterrae (97.6 %), Aeromicrobium fastidiosum (97.0 %) and Aeromicrobium erythreum (96.7 %); the sequence similarity with other species within the family was less than 94.4 %. It was characterized chemotaxonomically as having ll-2,6-diaminopimelic acid in the cell-wall peptidoglycan, MK-9(H4) as the predominant menaquinone and C16 : 0, 10-methyl C18 : 0 (tuberculostearic acid), C16 : 0 2-OH, 10-methyl C17 : 0 and 10-methyl-C16 : 0 as the major fatty acids. The G+C content of the genomic DNA was 65.5 mol%. These chemotaxonomic properties and phenotypic characteristics support the affiliation of strain Gsoil 161T to the genus Aeromicrobium. Results of physiological and biochemical tests enabled strain Gsoil 161T to be differentiated genotypically and phenotypically from currently known Aeromicrobium species. Therefore, strain Gsoil 161T represents a novel species, for which the name Aeromicrobium panaciterrae sp. nov. is proposed. The type strain is strain Gsoil 161T (=KCTC 19131T=DSM 17939T=CCUG 52476T).

scholarly journals Microbacterium natoriense sp. nov., a novel d-aminoacylase-producing bacterium isolated from soil in Natori, Japan

2005 ◽  
Vol 55 (2) ◽  
pp. 661-665 ◽  
Author(s):  
Jian Liu ◽  
Toru Nakayama ◽  
Hisashi Hemmi ◽  
Yu Asano ◽  
Naoki Tsuruoka ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Positive Bacterium ◽  
Ph Optimum ◽  
Bacterium Strain ◽  
Low Levels ◽  
Type Strains ◽  
The 16S Rrna Gene

A rod-shaped, Gram-positive bacterium, strain TNJL143-2T, having N-acyl-d-amino acid amidohydrolase (d-aminoacylase) activity, was isolated from a soil sample from Natori, Japan. It was a non-spore-forming, strictly aerobic bacterium without motility, showing a temperature optimum for growth of 30 °C and a pH optimum for growth of 5–7. The 16S rRNA gene sequence of the strain showed the highest similarities to members of the genus Microbacterium, in particular, Microbacterium aerolatum, Microbacterium foliorum and Microbacterium phyllosphaerae. The chemotaxonomic characteristics, including the compositions of cellular menaquinones, cellular fatty acids and cell-wall amino acids, were consistent with those described for the genus Microbacterium. The G+C content of the genomic DNA was determined as 69·1 mol%. DNA–DNA hybridization studies using type strains of M. aerolatum, M. foliorum and M. phyllosphaerae showed only low levels of relatedness (11–12 %). On the basis of these phenotypic and genotypic results, a novel species, Microbacterium natoriense sp. nov., is proposed, with TNJL143-2T (=JCM 12611T=ATCC BAA-1032T) as the type strain.

Roseivirga echinicomitans sp. nov., a novel marine bacterium isolated from the sea urchin Strongylocentrotus intermedius, and emended description of the genus Roseivirga

2005 ◽  
Vol 55 (5) ◽  
pp. 1797-1800 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Anatoly M. Lysenko ◽  
Myung Soo Park ◽  
Valery V. Mikhailov ◽  
...  
Keyword(s):  
Sea Urchin ◽  
Marine Bacterium ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Strongylocentrotus Intermedius ◽  
16S Rrna Gene Sequences ◽  
Novel Bacterium ◽  
Emended Description ◽  
Taxonomic Approach

A novel strictly aerobic, heterotrophic, pink-pigmented, non-motile, Gram-negative, oxidase-, catalase-, β-galactosidase- and alkaline phosphatase-positive marine bacterium, designated strain KMM 6058T, was isolated from the sea urchin Strongylocentrotus intermedius and studied using a polyphasic taxonomic approach. The G+C content of the DNA of the isolate was 41·3 mol%. The predominant fatty acids were i15 : 1, i15 : 0, a15 : 0 and i17 : 0 3-OH. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain KMM 6058T formed a monophyletic clade with Roseivirga ehrenbergii, with 99 % similarity. On the basis of phenotypic, chemotaxonomic, genotypic and phylogenetic characteristics, the novel bacterium should be assigned to the genus Roseivirga as Roseivirga echinicomitans sp. nov. The type strain is KMM 6058T (=KCTC 12370T=LMG 22587T).

scholarly journals Robiginitomaculum antarcticum gen. nov., sp. nov., a member of the family Hyphomonadaceae, from Antarctic seawater

2007 ◽  
Vol 57 (11) ◽  
pp. 2595-2599 ◽  
Author(s):  
Kiyoung Lee ◽  
Hong Kum Lee ◽  
Tae-Hwan Choi ◽  
Jang-Cheon Cho
Keyword(s):  
New Genus ◽  
Phylogenetic Analyses ◽  
Fatty Acid Content ◽  
Salinity Range ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Sequence Comparisons ◽  
The Family ◽  
The Antarctic

A seawater bacterium, designated IMCC3195T, was isolated from the Antarctic coast. Cells of the novel strain were Gram-negative, rusty-coloured, strictly aerobic, chemoheterotrophic, non-budding and non-motile rods or vibrioids that possessed a thin prostheca. Based on 16S rRNA gene sequence comparisons, the novel strain was most closely related to the genera Hyphomonas (89.4–90.9 %), Maricaulis (90.1–90.4 %), Hirschia (89.0 %) and Oceanicaulis (87.9 %) of the family Hyphomonadaceae. Phylogenetic analyses also showed the Antarctic isolate to be only distantly related to the genera of stalked bacteria of marine origin in the family Hyphomonadaceae. The DNA G+C content of the novel strain was 60.3 mol% and the predominant cellular fatty acids were C18 : 1 ω7c (41.9 %), C17 : 1 ω8c (21.4 %) and C17 : 0 (14.3 %). The major quinone was Q-10. Several phenotypic and chemotaxonomic characteristics, including optimum temperature and salinity range for growth, cell morphology, pigmentation and fatty acid content, differentiated the novel strain from other related genera in the family Hyphomonadaceae. From the taxonomic evidence collected in this study, it is suggested that strain IMCC3195T (=KCCM 42687T=NBRC 103098T) represents a new genus and novel species in the family Hyphomonadaceae, for which the name Robiginitomaculum antarcticum gen. nov., sp. nov. is proposed.

scholarly journals Chelativorans multitrophicus gen. nov., sp. nov. and Chelativorans oligotrophicus sp. nov., aerobic EDTA-degrading bacteria

2010 ◽  
Vol 60 (5) ◽  
pp. 1044-1051 ◽  
Author(s):  
Nina V. Doronina ◽  
Elena N. Kaparullina ◽  
Yuri A. Trotsenko ◽  
Bernd Nörtemann ◽  
Margarete Bucheli-Witschel ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Phenotypic Properties ◽  
Mesorhizobium Loti ◽  
Degrading Bacteria

Two previously isolated strains (DSM 9103T and LPM-4T) able to grow with EDTA (facultatively and obligately, respectively) as the source of carbon, nitrogen and energy were investigated in order to clarify their taxonomic positions. The strains were strictly aerobic, Gram-negative, asporogenous and non-motile rods that required biotin for growth. Reproduction occurred by binary fission. The strains were mesophilic and neutrophilic. Their major fatty acids were summed feature 7 (consisting of C18 : 1 ω7c, C18 : 1 ω9t and/or C18 : 1 ω12t) and C19 : 0 cyclo ω8c. The polyamine pattern revealed homospermidine as a major polyamine. Predominant polar lipids were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, phosphatidyldimethylethanolamine, phosphatidylmonomethylethanolamine and diphosphatidylglycerol. Mesorhizobium-specific ornithine lipid was absent. The predominant isoprenoid quinone was Q-10. The DNA G+C values were 60.8 and 63.1 mol% (T m) for strains LPM-4T and DSM 9103T, respectively. The level of 16S rRNA gene sequence similarity between these EDTA-utilizers was 99.3 % while the DNA–DNA hybridization value was only 37 %. Both strains were phylogenetically related to members of the genera Aminobacter and Mesorhizobium (95–97 % sequence similarity). However, DNA–DNA hybridization values between the novel EDTA-degrading strains and Aminobacter aminovorans DSM 7048T and Mesorhizobium loti DSM 2626T were low (10–11 %). Based on their genomic and phenotypic properties, the new alphaproteobacterial strains are assigned to a novel genus, Chelativorans gen. nov., with the names Chelativorans multitrophicus sp. nov. (type strain DSM 9103T=VKM B-2394T) and Chelativorans oligotrophicus sp. nov. (type strain LPM-4T=VKM B-2395T=DSM 19276T).

scholarly journals Devosia yakushimensis sp. nov., isolated from root nodules of Pueraria lobata (Willd.) Ohwi

2010 ◽  
Vol 60 (3) ◽  
pp. 627-632 ◽  
Author(s):  
Vernans V. Bautista ◽  
Rosario G. Monsalud ◽  
Akira Yokota
Keyword(s):  
Root Nodules ◽  
Leguminous Plant ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Pueraria Lobata ◽  
Aerobic Bacterium ◽  
The Novel ◽  
Yakushima Island ◽  
Kagoshima Prefecture ◽  
Nodulation Test

A Gram-negative, strictly aerobic bacterium, comprising non-endospore-forming motile rods (1.2–2.0 μm × 0.4–0.6 μm) with polar flagellae was isolated from root nodules of the leguminous plant Pueraria lobata (Willd.) Ohwi growing on the coast of Yakushima Island, Kagoshima Prefecture, Japan. The novel strain, designated Yak96BT, grew at an optimum pH of 7.0 and an optimum temperature of 28 °C. Phylogenetic analysis based on the 16S rRNA gene sequences revealed that the new strain was closely related to Devosia neptuniae J1T and Devosia chinhatensis IPL18T, with sequence similarities of 98.1 % and 97.8 %, respectively. However, the DNA–DNA relatedness values of strain Yak96BT with D. neptuniae LMG 21357T and D. chinhatensis CCM 7426T were 53.6 % and 34 %, respectively. The DNA G+C content of strain Yak96BT was 65.3 mol%, the predominant isoprenoid quinone was Q10 (85 %) and the polar lipids were phosphatidylglycerol and diphosphatidylglycerol. The major fatty acids (>5 %) were 11-methyl C18 : 1 ω7c (35.0 %), C16 : 0 (22.4 %), C18 : 1 ω7c (21.8 %), C19 : 0 cyclo ω8c (6.8 %) and C18 : 0 (5.4 %). The infection/nodulation test was negative and nifH and nodD genes were not detected. Based on its chemotaxonomic and physiological characteristics, strain Yak96BT represents a novel species of the genus Devosia, for which the name Devosia yakushimensis sp. nov. is proposed. The type strain is Yak96BT (=KCTC 22147T=NBRC 103855T=LMG 24299T).

Bacillus pocheonensis sp. nov., a moderately halotolerant, aerobic bacterium isolated from soil of a ginseng field

2007 ◽  
Vol 57 (11) ◽  
pp. 2532-2537 ◽  
Author(s):  
Leonid N. Ten ◽  
Sang-Hun Baek ◽  
Wan-Taek Im ◽  
Liudmila L. Larina ◽  
Jung-Sook Lee ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Rrna Gene Sequence ◽  
Phenotypic Properties

A Gram-positive, non-motile, endospore-forming bacterial strain, designated Gsoil 420T, was isolated from soil of a ginseng field in Pocheon Province, South Korea, and was characterized, using a polyphasic approach, in order to determine its taxonomic position. The novel isolate consisted of strictly aerobic, rod-shaped cells and was able to grow in medium supplemented with up to 12 % NaCl at 25 °C and pH 6.5–7.0. Comparative 16S rRNA gene sequence analysis showed that strain Gsoil 420T fell within the radiation of the cluster comprising Bacillus species and formed a coherent cluster with Bacillus niacini (16S rRNA gene sequence similarity, 98.6 %), Bacillus bataviensis (98.6 %), Bacillus soli (98.3 %), Bacillus drentensis (98.0 %), Bacillus novalis (98.0 %), Bacillus vireti (97.9 %), Bacillus foraminis (97.6 %), Bacillus fumarioli (97.4 %) and Bacillus jeotgali (97.0 %). The levels of 16S rRNA gene sequence similarity with respect to other Bacillus species with validly published names were less than 96.8 %. Strain Gsoil 420T had a genomic DNA G+C content of 44.9 mol% and the predominant respiratory quinone was MK-7. The major fatty acids were anteiso-C15 : 0 (33.9 %), iso-C15 : 0 (24.5 %) and iso-C14 : 0 (19.9 %). These chemotaxonomic results supported the affiliation of strain Gsoil 420T to the genus Bacillus. However, low DNA–DNA relatedness values and distinguishing phenotypic characteristics allowed genotypic and phenotypic differentiation of strain Gsoil 420T from recognized Bacillus species. On the basis of its phenotypic properties and phylogenetic distinctiveness, strain Gsoil 420T represents a novel species of the genus Bacillus, for which the name Bacillus pocheonensis sp. nov. is proposed. The type strain is Gsoil 420T (=KCTC 13943T=DSM 18135T).

Lactococcus fujiensis sp. nov., a lactic acid bacterium isolated from vegetable matter

2011 ◽  
Vol 61 (7) ◽  
pp. 1590-1594 ◽  
Author(s):  
Yimin Cai ◽  
Jinsong Yang ◽  
Huili Pang ◽  
Maki Kitahara
Keyword(s):  
Lactic Acid ◽  
Sequence Similarity ◽  
Single Species ◽  
Rrna Gene ◽  
The Novel ◽  
Closely Related Species ◽  
Dna Relatedness ◽  
Low Levels ◽  
Reference Strains ◽  
Type Strains

Three strains of lactic acid bacteria, designated NJ 317T, NJ 414 and NJ 415, were isolated from the outer leaves of Chinese cabbages (Brassica rapa L. var. glabra Regel) and characterized taxonomically. The strains were Gram-reaction-positive, catalase-negative, facultatively anaerobic cocci that did not produce gas from glucose and formed l-lactic acid. The major fatty acids were C18 : 1ω9c, C16 : 0, C14 : 0 and summed feature 10. Morphological, physiological and phylogenetic data indicated that the strains belonged to the genus Lactococcus. These strains shared similar phenotypic characteristics and exhibited DNA relatedness values >96.6 % to each other, indicating that they represent a single species. The DNA G+C contents of the three strains were 42.1–42.5 mol%. 16S rRNA gene sequences of the novel strains were determined and aligned with those of other species of the genus Lactococcus. On the basis of phylogenetic analysis the three strains grouped with other members of the genus Lactococcus. Lactococcus lactis and Lactococcus garvieae were the most closely related species, sharing a sequence similarity value of 94.4 % with the three strains. Ribotyping patterns, however, revealed that these strains were well-separated from reference strains of species of the genus Lactococcus and DNA–DNA hybridization studies indicated that the novel strains had low levels (<20.2 %) of DNA relatedness with reference strains of L. lactis, L. garvieae and other type strains of previously described species, showing that they represent a different species. Based on this evidence, strains NJ 317T, NJ 414 and NJ 415 represent a novel species of the genus Lactococcus, for which the name Lactococcus fujiensis sp. nov. is proposed. The type strain is NJ 317T ( = JCM16395T  = CGMCC 1.10453T).

scholarly journals Sphingomonas kaistensis sp. nov., a novel alphaproteobacterium containing pufLM genes

2007 ◽  
Vol 57 (7) ◽  
pp. 1527-1534 ◽  
Author(s):  
Myung Kyum Kim ◽  
Karin Schubert ◽  
Wan-Taek Im ◽  
Kyung-Ho Kim ◽  
Sung-Taik Lee ◽  
...  
Keyword(s):  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Reaction Centre ◽  
The Novel ◽  
Phenotypic Properties ◽  
Separate Species ◽  
Dominant Fatty Acid ◽  
Photosynthetic Type ◽  
Established Species ◽  
Sequence Similarities

Three Gram-negative, non-motile, non-spore-forming short rods (strains PB56T, PB180, PB229) were isolated from soil in South Korea. Cells were orange–red in colour. Strains PB180 and PB229 contained small amounts of bacteriochlorophyll a, which was not detected in strain PB56T. However, all three isolates contained the genes for the photosynthetic type II reaction centre, pufLM. They contained Q-10 as the dominant quinone and C18 : 1 as the dominant fatty acid. The highest 16S rRNA gene sequence similarities were found to Sphingomonas oligophenolica JCM 12082T (95.8 %), Sphingomonas koreensis KCTC 2882T (95.1 %), Sphingomonas mali IFO 15500T (95.1 %), Sphingomonas faeni DSM 14747T (94.8 %), Sphingomonas pruni IFO 15498T (94.7 %) and Sphingomonas aquatilis KCTC 2881T (94.6 %), as well as to Sphingosinicella microcystinivorans Y2T and Sphingosinicella xenopeptidilytica 3-2W4T (95.0–95.2 %). Phylogenetic analyses supported the assignment of strains PB56T, PB180, PB229 to the genus Sphingomonas. The novel isolates differ from all established species of the genus Sphingomonas by their higher G+C content and the absence of straight-chain 2-hydroxy fatty acids. Based on the phylogenetic distances from species with validly published names and their phenotypic properties, the strains constitute a separate species, for which the name Sphingomonas kaistensis sp. nov. is proposed. The type strain is PB56T (=KCTC 12334T=DSM 16846T).

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