scholarly journals Ochrobactrum haematophilum sp. nov. and Ochrobactrum pseudogrignonense sp. nov., isolated from human clinical specimens

2007 ◽  
Vol 57 (11) ◽  
pp. 2513-2518 ◽  
Author(s):  
Peter Kämpfer ◽  
Holger C. Scholz ◽  
Birgit Huber ◽  
Enevold Falsen ◽  
Hans-Jürgen Busse
Keyword(s):  
Type Strain ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
Clinical Specimens ◽  
Dna Reassociation ◽  
Spore Forming Bacteria ◽  
Physiological And Biochemical ◽  
Sequence Similarities ◽  
Ochrobactrum Pseudogrignonense

Three Gram-negative, rod-shaped, non-spore-forming bacteria were isolated from clinical specimens between 1992 and 2000. On the basis of 16S rRNA gene sequence similarities, these strains (CCUG 30717T, CCUG 43892 and CCUG 38531T) were shown to belong to the Alphaproteobacteria, most closely related to Ochrobactrum grignonense (99.0 and 98.2 % similarity to the type strain). Chemotaxonomic data (major ubiquinone Q-10; major polyamines spermidine, sym-homospermidine and putrescine; major polar lipids phosphatidylethanolamine, phosphatidylmonomethylethanolamine, phosphatidylglycerol and phosphatidylcholine; major fatty acids C18 : 1 ω7c and C19 : 0 cyclo ω8c) supported the affiliation of the isolates to the genus Ochrobactrum. The results of DNA–DNA hybridization and physiological and biochemical tests allowed genotypic and phenotypic differentiation of the isolates from described Ochrobactrum species. Isolates CCUG 30717T and CCUG 43892 were closely related on the basis of DNA–DNA reassociation experiments and therefore represent one novel species, for which the name Ochrobactrum pseudogrignonense sp. nov. is proposed, with the type strain CCUG 30717T (=CIP 109451T). Isolate CCUG 38531T was different from these strains and also from other Ochrobactrum species. For this strain, the name Ochrobactrum haematophilum sp. nov. is proposed, with the type strain CCUG 38531T (=CIP 109452T).

scholarly journals Citricoccus parietis sp. nov., isolated from a mould-colonized wall and emended description of Citricoccus alkalitolerans Li et al. 2005

2010 ◽  
Vol 60 (2) ◽  
pp. 271-274 ◽  
Author(s):  
Jenny Schäfer ◽  
Karin Martin ◽  
Peter Kämpfer
Keyword(s):  
Dna Hybridization ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Polar Lipid Profile ◽  
Phenotypic Differentiation ◽  
Emended Description ◽  
Diamino Acid ◽  
Physiological And Biochemical ◽  
Sequence Similarities

A Gram-positive, coccoid-shaped organism (strain 02-Je-010T), forming yellow-pigmented colonies was isolated from the wall of an indoor environment. On the basis of 16S rRNA gene sequence similarity studies, it was shown that strain 02-Je-010T belongs to the genus Citricoccus with sequence similarities of 98.9 % to Citricoccus alkalitolerans DSM 15665T and 98.6 % to Citricoccus muralis DSM 14442T. Cell-wall sugars were mannose and glucose. The diagnostic diamino acid of the peptidoglycan was lysine. The major menaquinones detected were MK-9(H2) and MK-8(H2). The polar lipid profile consisted of the major lipids diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol and moderate amounts of two unknown phospholipids and two unknown glycolipids. The fatty acid profile comprised major amounts of anteiso-C15 : 0, anteiso-C17 : 0 and iso-C15 : 0. All these data supported the affiliation of strain 02-Je-010T to the genus Citricoccus. The results of DNA–DNA hybridization and physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain 02-Je-010T from the two recognized Citricoccus species. For these reasons, strain 02-Je-010T represents a novel species, for which the name Citricoccus parietis sp. nov. is proposed, with the type strain 02-Je-010T (=CCUG 57388T=CCM 7609T).

scholarly journals Devosia limi sp. nov., isolated from a nitrifying inoculum

2005 ◽  
Vol 55 (5) ◽  
pp. 1997-2000 ◽  
Author(s):  
Bram Vanparys ◽  
Kim Heylen ◽  
Liesbeth Lebbe ◽  
Paul De Vos
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
Sds Page ◽  
Spore Forming Bacteria ◽  
Physiological And Biochemical

A Gram-negative, rod-shaped, non-spore-forming bacteria was isolated from a nitrifying inoculum. On the basis of 16S rRNA gene sequence similarity, this strain, designated LMG 22951T, was shown to belong to the ‘Alphaproteobacteria’ and to be related to Devosia neptuniae (97·4 %) and Devosia riboflavina (97·0 %). The results of DNA–DNA hybridization, analysis of fatty acid composition, SDS-PAGE, physiological and biochemical tests allowed genotypic and phenotypic differentiation of LMG 22951T from the two recognized Devosia species. LMG 22951T therefore represents a novel species within this genus, for which the name Devosia limi is proposed. The type strain is LMG 22951T (=DSM 17137T).

scholarly journals Chitinophaga ginsengisegetis sp. nov. and Chitinophaga ginsengisoli sp. nov., isolated from soil of a ginseng field in South Korea

2007 ◽  
Vol 57 (7) ◽  
pp. 1396-1401 ◽  
Author(s):  
Hyung-Gwan Lee ◽  
Dong-Shan An ◽  
Wan-Taek Im ◽  
Qing-Mei Liu ◽  
Ju-Ryun Na ◽  
...  
Keyword(s):  
South Korea ◽  
Type Strain ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
Type Strains ◽  
Sequence Similarities

Two novel strains belonging to the phylum Bacteroidetes [formerly the Cytophaga–Flexibacter–Bacteroides (CFB) group], designated Gsoil 040T and Gsoil 052T, were isolated from the soil of a ginseng field in Pocheon province, South Korea. A polyphasic approach was used to characterize the taxonomic position of the novel strains. Both strains were Gram-negative, aerobic, non-motile, non-spore-forming and rod-shaped. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the novel isolates belong to the genus Chitinophaga but are clearly separated from the recognized species of this genus; gene sequence similarities between the novel isolates and type strains of recognized species ranged from 91.2 to 96.5 %. One exception was found; strain Gsoil 052T and the type strain of Chitinophaga filiformis had a gene sequence similarity of 99.6 % but had a DNA–DNA relatedness value of 38 %. Phenotypic and chemotaxonomic data (major menaquinone, MK-7; major fatty acids, iso-C15 : 0 and C16 : 1 ω5c; major hydroxy fatty acid, iso-C17 : 0 3-OH and major polyamine, homospermidine) supported the affiliation of both strains Gsoil 040T and Gsoil 052T to the genus Chitinophaga. The results of physiological and biochemical tests enabled the genotypic and phenotypic differentiation of the novel strains from the other recognized species of the genus Chitinophaga. Therefore, it is suggested that the new isolates represent two novel species, for which the names Chitinophaga ginsengisegetis sp. nov. [type strain Gsoil 040T (=KCTC 12654T=DSM 18108T)] and Chitinophaga ginsengisoli sp. nov. [type strain Gsoil 052T (=KCTC 12592T=DSM 18017T)] are proposed.

scholarly journals Brevundimonas halotolerans sp. nov., Brevundimonas poindexterae sp. nov. and Brevundimonas staleyi sp. nov., prosthecate bacteria from aquatic habitats

2010 ◽  
Vol 60 (8) ◽  
pp. 1837-1843 ◽  
Author(s):  
Wolf-Rainer Abraham ◽  
Andréia B. Estrela ◽  
Dennis I. Nikitin ◽  
John Smit ◽  
Marc Vancanneyt
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Rrna Gene ◽  
Aquatic Habitats ◽  
16S Rrna Gene Sequences ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
Gram Negative ◽  
Prosthecate Bacteria ◽  
Physiological And Biochemical

Eight strains of Gram-negative, bacteroid-shaped, prosthecate bacteria, isolated from brackish water (MCS24T, MCS17 and MCS35), the marine environment (CM260, CM272 and CM282) and activated sludge (FWC40T and FWC43T), were characterized using a polyphasic approach. Analysis of 16S rRNA gene sequences determined that all strains were affiliated to the alphaproteobacterial genus Brevundimonas, forming three distinct phyletic lineages within the genus. The strains grew best with 5–30 g NaCl l−1 at 20–30 °C. DNA G+C contents for strains MCS24T, FWC40T and FWC43T were between 65 and 67 mol%, in accordance with values reported previously for other species of the genus. Moreover, chemotaxonomic data and physiological and biochemical tests allowed the phenotypic differentiation of three novel species within the genus Brevundimonas, for which the names Brevundimonas halotolerans sp. nov. (type strain MCS24T =LMG 25346T =CCUG 58273T), Brevundimonas poindexterae sp. nov. (type strain FWC40T =LMG 25261T =CCUG 57883T) and Brevundimonas staleyi sp. nov. (type strain FWC43T =LMG 25262T =CCUG 57884T) are proposed.

scholarly journals Polaromonas aquatica sp. nov., isolated from tap water

2006 ◽  
Vol 56 (3) ◽  
pp. 605-608 ◽  
Author(s):  
Peter Kämpfer ◽  
Hans-Jürgen Busse ◽  
Enevold Falsen
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Tap Water ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
Spore Forming Bacteria ◽  
Physiological And Biochemical

Two Gram-negative, rod-shaped, non-spore-forming bacteria (CCUG 39402T and CCUG 39797), isolated from different water sources, were investigated in a polyphasic study. The two isolates shared 100 % 16S rRNA gene sequence similarity and it was shown that they belonged to the Betaproteobacteria, most closely related to Polaromonas vacuolata (97·8 %) and Polaromonas naphthalenivorans (97·8 %). A polyamine pattern with 2-hydroxyputrescine and putrescine, as well as ubiquinone Q-8, were in agreement with characteristics of Betaproteobacteria. The presence of diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine, and major fatty acids C16 : 1 ω7c, C16 : 0 and C17 : 0 cyclo supported the affiliation of the two strains to the genus Polaromonas. The results of DNA–DNA hybridization and physiological and biochemical tests allowed genotypic and phenotypic differentiation of the two isolates from the two Polaromonas species with validly published names. They therefore represent a novel species, for which the name Polaromonas aquatica sp. nov. is proposed, with the type strain CCUG 39402T (=CIP 108776T).

Microlunatus ginsengisoli sp. nov., isolated from soil of a ginseng field

2007 ◽  
Vol 57 (4) ◽  
pp. 713-716 ◽  
Author(s):  
Ying-Shun Cui ◽  
Wan-Taek Im ◽  
Cheng-Ri Yin ◽  
Deok-Chun Yang ◽  
Sung-Taik Lee
Keyword(s):  
Gene Sequence ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
The Novel ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
The Family ◽  
Physiological And Biochemical ◽  
Sequence Similarities

A Gram-positive, aerobic, coccus-shaped, non-endospore-forming bacterium (Gsoil 633T) was isolated from soil from a ginseng field in Pocheon province in South Korea. The novel isolate was characterized in order to determine its taxonomic position. On the basis of 16S rRNA gene sequence similarities, strain Gsoil 633T was shown to belong to the family Propionibacteriaceae. The closest phylogenetic relative was Microlunatus phosphovorus DSM 19555T, with 96.1 % sequence similarity; the sequence similarity to other members of the family was less than 95.4 %. The isolate was characterized chemotaxonomically as having ll-2,6-diaminopimelic acid in the cell-wall peptidoglycan, MK-9(H4) as the predominant menaquinone and anteiso-C15 : 0, iso-C15 : 0 and iso-C16 : 0 as the major fatty acids. The G+C content of the genomic DNA was 69.8 mol%. The morphological and chemotaxonomic properties of the isolate were consistent with those of M. phosphovorus, but the results of physiological and biochemical tests allowed the phenotypic differentiation of strain Gsoil 633T from this species. Therefore, strain Gsoil 633T represents a novel species, for which the name Microlunatus ginsengisoli sp. nov. is proposed. The type strain is Gsoil 633T (=KCTC 13940T=DSM 17942T).

scholarly journals Actinophytocola burenkhanensis sp. nov., isolated from Mongolian soil

2011 ◽  
Vol 61 (5) ◽  
pp. 1033-1038 ◽  
Author(s):  
Ismet Ara ◽  
Baljinova Tsetseg ◽  
Damdinsuren Daram ◽  
Manabu Suto ◽  
Katsuhiko Ando
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Sequence Similarity ◽  
Aerial Mycelium ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Closely Related Species ◽  
Phenotypic Differentiation ◽  
Actinomycete Strain ◽  
Physiological And Biochemical

A Gram-positive, aerobic, non-motile actinomycete, strain MN08-A0203T, that formed pale yellow to orange-brown colonies and non-fragmented branched substrate mycelium is described. The strain, which produced very scanty aerial mycelium-like structures and scanty formation of spherical bodies on the aerial mycelium on Bennett’s agar medium, was studied in detail to determine its taxonomic position. On the basis of 16S rRNA gene sequence similarity studies, strain MN08-A0203T grouped with the genus Actinophytocola, being most closely related to the type strain of Actinophytocola oryzae (97.8 %). Chemotaxonomic data [menaquinone MK-9(H4); iso-C16 : 0 (27 %), iso-C15 : 0 (18 %), C16 : 1 H (8 %), C16 : 0 9-methyl (8 %) as major fatty acids; glucose, galactose, ribose, arabinose, mannose, rhamnose and xylose (trace) as whole cell sugars; diphosphatidylglycerol, phosphatidylethanolamine, hydroxyphosphatidylethanolamine and ninhydrin-positive phosphoglycolipids as polar phospholipids] supported allocation of the strain to the genus Actinophytocola. Furthermore, the results of DNA–DNA hybridization of strain MN08-A0203T with the type strain of Actinophytocola oryzae revealed that the two strains were genetically distinct from each other. Moreover, physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain MN08-A0203T from closely related species. Thus, MN08-A0203T represents a novel species of the genus Actinophytocola, for which the name Actinophytocola burenkhanensis sp. nov. is proposed, with MN08-A0203T ( = NBRC 105883T  = VTCC D9-23T) as the type strain.

scholarly journals Enterorhabdus caecimuris sp. nov., a member of the family Coriobacteriaceae isolated from a mouse model of spontaneous colitis, and emended description of the genus Enterorhabdus Clavel et al. 2009

2010 ◽  
Vol 60 (7) ◽  
pp. 1527-1531 ◽  
Author(s):  
Thomas Clavel ◽  
Wayne Duck ◽  
Cédric Charrier ◽  
Mareike Wenning ◽  
Charles Elson ◽  
...  
Keyword(s):  
Mouse Model ◽  
Type Strain ◽  
Intestinal Inflammation ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Physiological And Biochemical

The C3H/HeJBir mouse model of intestinal inflammation was used for isolation of a Gram-positive, rod-shaped, non-spore-forming bacterium (B7T) from caecal suspensions. On the basis of partial 16S rRNA gene sequence analysis, strain B7T was a member of the class Actinobacteria, family Coriobacteriaceae, and was related closely to Enterorhabdus mucosicola Mt1B8T (97.6 %). The major fatty acid of strain B7T was C16 : 0 (19.1 %) and the respiratory quinones were mono- and dimethylated. Cells were aerotolerant, but grew only under anoxic conditions. Strain B7T did not convert the isoflavone daidzein and was resistant to cefotaxime. The results of DNA–DNA hybridization experiments and additional physiological and biochemical tests allowed the genotypic and phenotypic differentiation of strain B7T from the type strain of E. mucosicola. Therefore, strain B7T represents a novel species, for which the name Enterorhabdus caecimuris sp. nov. is proposed. The type strain is B7T (=DSM 21839T =CCUG 56815T).

scholarly journals Rhodovulum visakhapatnamense sp. nov.

2007 ◽  
Vol 57 (8) ◽  
pp. 1762-1764 ◽  
Author(s):  
T. N. R. Srinivas ◽  
P. Anil Kumar ◽  
Ch. Sasikala ◽  
Ch. V. Ramana ◽  
J. F. Imhoff
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
Rhodovulum Sulfidophilum ◽  
Physiological And Biochemical

A Gram-negative, rod-shaped, phototrophic bacterium (JA181T) was isolated from a tidal water sample. On the basis of 16S rRNA gene sequence similarity, strain JA181T was shown to belong to the class Alphaproteobacteria, most closely related to Rhodovulum sulfidophilum (97.8 % similarity to the type strain), Rhodovulum adriaticum (93 %), Rhodovulum robiginosum (93 %), Rhodovulum iodosum (94 %), Rhodovulum imhoffii (94 %), Rhodovulum strictum (95 %), Rhodovulum euryhalinum (94.6 %) and Rhodovulum marinum (94.6 %). DNA–DNA hybridization with Rdv. sulfidophilum DSM 1374T (relatedness of 39 % with strain JA181T) and physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain JA181T from the eight Rhodovulum species with validly published names. Strain JA181T therefore represents a novel species, for which the name Rhodovulum visakhapatnamense sp. nov. is proposed (type strain JA181T =JCM 13531T =ATCC BAA-1274T =DSM 17937T).

scholarly journals Pantoea theicola sp. nov., isolated from black tea

2015 ◽  
Vol 65 (Pt_10) ◽  
pp. 3313-3319 ◽  
Author(s):  
Yuko Kato Tanaka ◽  
Nobuhiro Horie ◽  
Kaoru Mochida ◽  
Yoshihiro Yoshida ◽  
Eri Okugawa ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Black Tea ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
Type Strains ◽  
Physiological And Biochemical ◽  
Sequence Similarities

A Gram-negative, facultatively anaerobic strain was isolated from black tea. On the basis of 16S rRNA gene sequence similarity comparisons, strain QC88-366T was grouped into the genus Pantoea, being related most closely to the type strains of Pantoea gaviniae (98.5 %) and Pantoea calida (98.3 %); sequence similarities were ≤ 97.0 % to the type strains of other species of the genus Pantoea. Multilocus sequence analysis based on partial sequences of the gyrB, rpoB, infB and atpD genes also revealed P. gaviniae and P. calida as the closest phylogenetic relatives. The fatty acid profile showed the major fatty acids of strain QC88-366T were C16 : 0, C16 : 1 and C18 : 1, the same as those of its closest related species. However, the ratio of C16 : 1, C17 : 0 cyclo, C18 : 1 and C18 : 2 differed slightly compared with those of the related neighbours. In addition, the results of physiological and biochemical tests also allowed the phenotypic differentiation of strain QC88-366T from its closest phylogenetic neighbours. The G+C content of the DNA was 57.2 mol%. Strain QC88-366T therefore represents a novel species of the genus Pantoea, for which the name Pantoea theicola sp. nov. is proposed. The type strain is QC88-366T ( = DSM 29212T = NBRC 110557T).

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