Three novel species of the genus Catellatospora, Catellatospora chokoriensis sp. nov., Catellatospora coxensis sp. nov. and Catellatospora bangladeshensis sp. nov., and transfer of Catellatospora citrea subsp. methionotrophica Asano and Kawamoto 1988 to Catellatospora methionotrophica sp. nov., comb. nov.

2006 ◽  
Vol 56 (2) ◽  
pp. 393-400 ◽  
Author(s):  
Ismet Ara ◽  
Takuji Kudo
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Novel Species ◽  
Physiological Data ◽  
Rrna Gene ◽  
The Novel ◽  
Biochemical Tests ◽  
Separate Species ◽  
Nearest Neighbours ◽  
Agar Media

Three Gram-positive, aerobic, non-motile, mesophilic strains, designated 2-25(1)T, 2-29(17)T and 2-70(23)T, were isolated from sandy soil from Chokoria, Cox's Bazar, Bangladesh. The organisms produce short chains of non-motile spores that emerge singly or in tufts from vegetative hyphae on the surface of agar media. A comparative phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolates formed a distinct clade within the evolutionary radiation of the family Micromonosporaceae and clustered with members of the genus Catellatospora. The nearest neighbours were Catellatospora citrea subsp. citrea and C. citrea subsp. methionotrophica. Chemotaxonomic data, such as the presence of meso- and 3-hydroxy-diaminopimelic acids, N-glycolyl type muramic acid, arabinose and xylose and glucose in whole-cell hydrolysates, phosphatidylethanolamine as a diagnostic phospholipid, a tetrahydrogenated menaquinone with 9 isoprene units as a major menaquinone and fatty acid profiles predominated by iso-branched hexadecanoic acid and iso-branched pentadecanoic acid, supported the affiliation of the novel isolates to the genus Catellatospora. The results of DNA–DNA hybridization and physiological and biochemical tests allowed the novel isolates to be differentiated genotypically and phenotypically from the three recognized Catellatospora species. The three isolates therefore represent novel species for which the names Catellatospora chokoriensis sp. nov. [type strain 2-25(1)T=JCM 12950T=DSM 44900T], Catellatospora coxensis sp. nov. [type strain 2-29(17)T=JCM 12951T=DSM 44901T] and Catellatospora bangladeshensis sp. nov. [type strain 2-70(23)T=JCM 12949T=DSM 44899T], are proposed. DNA–DNA hybridization tests with C. citrea subsp. citrea and C. citrea subsp. methionotrophica, in combination with chemotaxonomic and physiological data, demonstrated that C. citrea subsp. methionotrophica should be elevated to a separate species for which the name Catellatospora methionotrophica sp. nov., comb. nov. is proposed (type strain JCM 7543T=DSM 44098T).

Microbulbifer chitinilyticus sp. nov. and Microbulbifer okinawensis sp. nov., chitin-degrading bacteria isolated from mangrove forests

2011 ◽  
Vol 61 (9) ◽  
pp. 2215-2220 ◽  
Author(s):  
Atsushi Baba ◽  
Masayuki Miyazaki ◽  
Takahiko Nagahama ◽  
Yuichi Nogi
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Threshold Level ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Mangrove Forests ◽  
The Novel ◽  
Separate Species ◽  
Gene Sequence Analysis ◽  
Degrading Bacteria

Three chitin-degrading strains representing two novel species were isolated from mangrove forests in Okinawa, Japan. The isolates, ABABA23T, ABABA211 and ABABA212T, were Gram-negative, non-spore-forming, strictly aerobic chemo-organotrophs. The novel strains produced Q-8 as the major isoprenoid quinone component. The predominant fatty acids were iso-C15 : 0 and C16 : 0. On the basis of 16S rRNA gene sequence analysis, the isolates were closely affiliated with members of the genus Microbulbifer. The DNA G+C contents of strains ABABA23T and ABABA212T were 57.8 and 60.2 mol%, respectively. DNA–DNA relatedness values between these two strains and Microbulbifer reference strains were significantly lower than 70 %, the generally accepted threshold level below which strains are considered to belong to separate species. Based on differences in taxonomic characteristics, the three isolates represent two novel species of the genus Microbulbifer, for which the names Microbulbifer chitinilyticus sp. nov. (type strain, ABABA212T = JCM 16148T = NCIMB 14577T) and Microbulbifer okinawensis sp. nov. (type strain, ABABA23T = JCM 16147T = NCIMB 14576T; reference strain, ABABA211) are proposed.

scholarly journals Emendation of the genus Flammeovirga and Flammeovirga aprica with the proposal of Flammeovirga arenaria nom. rev., comb. nov. and Flammeovirga yaeyamensis sp. nov.

2006 ◽  
Vol 56 (9) ◽  
pp. 2095-2100 ◽  
Author(s):  
Mai Takahashi ◽  
Ken-ichiro Suzuki ◽  
Yasuyoshi Nakagawa
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Rrna Gene ◽  
The Novel ◽  
Rrna Gene Sequence ◽  
Bacterial Strains ◽  
Sequence Analyses ◽  
Separate Species ◽  
Taxonomic Approach

The taxonomic positions of five bacterial strains isolated from the Yaeyama Islands of Japan and ‘Microscilla arenaria’ NBRC 15982 were determined using a polyphasic taxonomic approach. 16S rRNA gene sequence analyses placed all of the strains close to the genus Flammeovirga. DNA–DNA hybridization studies, biochemical and physiological characterizations and chemotaxonomic analyses suggested that ‘M. arenaria’ NBRC 15982 and the five novel isolates represented two separate species of the genus Flammeovirga. Emendation of the genus Flammeovirga Nakagawa et al. 1997 and the species Flammeovirga aprica (Reichenbach 1989) Nakagawa et al. 1997 is proposed. In addition, ‘Microscilla arenaria’ Lewin 1969 is proposed as Flammeovirga arenaria nom. rev., comb. nov. (with the type strain NBRC 15982T=CIP 109101T) and the novel isolates are proposed as Flammeovirga yaeyamensis sp. nov. (type strain IR25-3T=NBRC 100898T=CIP 109099T).

scholarly journals Stenotrophomonas ginsengisoli sp. nov., isolated from a ginseng field

2010 ◽  
Vol 60 (7) ◽  
pp. 1522-1526 ◽  
Author(s):  
Ho-Bin Kim ◽  
Sathiyaraj Srinivasan ◽  
Gayathri Sathiyaraj ◽  
Lin-Hu Quan ◽  
Se-Hwa Kim ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Biochemical Tests ◽  
Gene Sequence Analysis ◽  
Stenotrophomonas Nitritireducens ◽  
Physiological And Biochemical

A Gram-negative, non-spore-forming, rod-shaped bacterium, designated strain DCY01T, was isolated from soil from a ginseng field in South Korea and was characterized in order to determine its taxonomic position. 16S rRNA gene sequence analysis revealed that strain DCY01T belonged to the Gammaproteobacteria and was most closely related to Stenotrophomonas koreensis KCTC 12211T (98.4 % similarity), Stenotrophomonas humi R-32729T (97.2 %), Stenotrophomonas terrae R-32768 (97.1 %), Stenotrophomonas maltophilia DSM 50170T (96.9 %) and Stenotrophomonas nitritireducens DSM 12575T (96.8 %). Chemotaxonomic analyses revealed that strain DCY01T possessed a quinone system with Q-8 as the predominant compound, and iso-C15 : 0 (28.2 %), C16 : 0 10-methyl (13.2 %), iso-C15 : 1 F (10.8 %) and C15 : 0 (7.5 %) as major fatty acids, corroborating assignment of strain DCY01T to the genus Stenotrophomonas. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The results of DNA–DNA hybridization and physiological and biochemical tests clearly demonstrated that strain DCY01T represents a species distinct from recognized Stenotrophomonas species. Based on these data, DCY01T (=KCTC 12539T=NBRC 101154T) should be classified as the type strain of a novel species of the genus Stenotrophomonas, for which the name Stenotrophomonas ginsengisoli sp. nov. is proposed.

scholarly journals Castellaniella gen. nov., to accommodate the phylogenetic lineage of Alcaligenes defragrans, and proposal of Castellaniella defragrans gen. nov., comb. nov. and Castellaniella denitrificans sp. nov.

2006 ◽  
Vol 56 (4) ◽  
pp. 815-819 ◽  
Author(s):  
P. Kämpfer ◽  
K. Denger ◽  
A. M. Cook ◽  
S.-T. Lee ◽  
U. Jäckel ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Alcaligenes Faecalis ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Data ◽  
Gene Sequence Analysis ◽  
Distinct Genus

Comparative 16S rRNA gene sequence analysis indicates that two distinct sublineages exist within the genus Alcaligenes: the Alcaligenes faecalis lineage, comprising Alcaligenes aquatilis and A. faecalis (with the three subspecies A. faecalis subsp. faecalis, A. faecalis subsp. parafaecalis and A. faecalis subsp. phenolicus), and the Alcaligenes defragrans lineage, comprising A. defragrans. This phylogenetic discrimination is supported by phenotypic and chemotaxonomic differences. It is proposed that the A. defragrans lineage constitutes a distinct genus, for which the name Castellaniella gen. nov. is proposed. The type strain for Castellaniella defragrans gen. nov., comb. nov. is 54PinT (=CCUG 39790T=CIP 105602T=DSM 12141T). Finally, on the basis of data from the literature and new DNA–DNA hybridization and phenotypic data, the novel species Castellaniella denitrificans sp. nov. (type strain NKNTAUT=DSM 11046T=CCUG 39541T) is proposed for two strains previously identified as strains of A. defragrans.

scholarly journals Micromonospora coriariae sp. nov., isolated from root nodules of Coriaria myrtifolia

2006 ◽  
Vol 56 (10) ◽  
pp. 2381-2385 ◽  
Author(s):  
Martha E. Trujillo ◽  
Reiner M. Kroppenstedt ◽  
Peter Schumann ◽  
Lorena Carro ◽  
Eustoquio Martínez-Molina
Keyword(s):  
Dna Hybridization ◽  
Novel Species ◽  
Root Nodules ◽  
Rrna Gene ◽  
The Novel ◽  
Biochemical Tests ◽  
Actinomycete Strain ◽  
Type Strains ◽  
Physiological And Biochemical ◽  
The 16S Rrna Gene

An actinomycete strain, NAR01T, was isolated from root nodules of a Coriaria plant. The 16S rRNA gene sequence of strain NAR01T showed most similarity to the type strains of Micromonospora endolithica (98.94 %) and Micromonospora chersina (98.4 %). The chemotaxonomic results obtained confirmed the taxonomic position of the isolate within the genus Micromonospora, and revealed differences at the species level. Physiological and biochemical tests showed that strain NAR01T could be clearly distinguished from its closest phylogenetic neighbours, while DNA–DNA hybridization results indicated that the isolate represents a novel species. On the basis of these results, strain NAR01T (=DSM 44875T=LMG 23557T) is proposed as the type strain of the novel species Micromonospora coriariae sp. nov.

scholarly journals Demequina salsinemoris sp. nov., isolated on agar media supplemented with ascorbic acid or rutin

2010 ◽  
Vol 60 (5) ◽  
pp. 1206-1209 ◽  
Author(s):  
Atsuko Matsumoto ◽  
Kengo Nakai ◽  
Kurimi Morisaki ◽  
Satoshi Ōmura ◽  
Yōko Takahashi
Keyword(s):  
Ascorbic Acid ◽  
Dna Hybridization ◽  
Novel Species ◽  
Rrna Gene ◽  
The Novel ◽  
Mangrove Soil ◽  
Gene Sequence Analysis ◽  
Diamino Acid ◽  
Agar Media ◽  
Southern Island

Three strains, KV-810T, KV-811 and KV-816, were isolated from mangrove soil from a southern island in Japan on media supplemented with ascorbic acid or rutin. These strains contained l-ornithine as the diagnostic diamino acid in the cell-wall peptidoglycan and DMK-9(H4) as the predominant menaquinone. The G+C content of the DNA was 70–72 mol%. These characteristics in combination with 16S rRNA gene sequence analysis revealed that the novel strains belonged to the genus Demequina. The DNA–DNA hybridization values showed that the three new strains belonged to the same species, a novel species of the genus Demequina. Therefore strains KV-810T, KV-811 and KV-816 are proposed as representing a novel species, Demequina salsinemoris sp. nov. The type strain is KV-810T (=DSM 22060T=NBRC 105323T).

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).

Actinoalloteichus nanshanensis sp. nov., isolated from the rhizosphere of a fig tree (Ficus religiosa)

2011 ◽  
Vol 61 (5) ◽  
pp. 1165-1169 ◽  
Author(s):  
Wensheng Xiang ◽  
Chongxi Liu ◽  
Xiangjing Wang ◽  
Jing Du ◽  
Lijun Xi ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Novel Species ◽  
Rrna Gene ◽  
Malt Extract ◽  
The Novel ◽  
Phenotypic Characteristics ◽  
Ficus Religiosa ◽  
Fig Tree ◽  
Type Strains

A Gram-positive, aerobic actinomycete, designated strain NEAU 119T, was isolated from the rhizosphere of a fig tree and was characterized using a polyphasic approach. The isolate formed branching, non-fragmenting vegetative hyphae and produced black pigment on yeast extract/malt extract (ISP medium 2). The G+C content of the DNA was 76.6 mol%. The organism had chemotaxonomic characteristics typical of the genus Actinoalloteichus and was closely related to the type strains of Actinoalloteichus cyanogriseus, Actinoalloteichus spitiensis and Actinoalloteichus hymeniacidonis, currently the only three recognized species of the genus Actinoalloteichus, sharing 16S rRNA gene similarities of 96.4, 96.6 and 98.1 %, respectively. However, the results of DNA–DNA hybridization studies demonstrated that the novel strain showed only 46.8 % relatedness with the type strain of A. hymeniacidonis. In addition, a set of phenotypic characteristics also readily distinguished strain NEAU 119T from the type strains of recognized species of the genus Actinoalloteichus. According to the above data, it is proposed that strain NEAU 119T represents a novel species, Actinoalloteichus nanshanensis sp. nov. The type strain of Actinoalloteichus nanshanensis is NEAU 119T ( = CGMCC 4.5714T = NBRC 106685T).

scholarly journals Bradyrhizobium neotropicale sp. nov., isolated from effective nodules of Centrolobium paraense

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 3950-3957 ◽  
Author(s):  
Jerri E. Zilli ◽  
Alexandre C. Baraúna ◽  
Krisle da Silva ◽  
Sofie E. De Meyer ◽  
Eliane N. C. Farias ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Type Strain ◽  
Type Species ◽  
Novel Species ◽  
23S Rrna ◽  
Physiological Data ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type

Root nodule bacteria were isolated from Centrolobium paraense Tul. grown in soils from the Amazon region, State of Roraima (Brazil). 16S rRNA gene sequence analysis of seven strains (BR 10247T, BR 10296, BR 10297, BR 10298, BR 10299, BR 10300 and BR 10301) placed them in the genus Bradyrhizobium with the closest neighbours being the type strains of Bradyrhizobium paxllaeri (98.8 % similarity), Bradyrhizobium icense (98.8 %), Bradyrhizobium lablabi (98.7 %), Bradyrhizobium jicamae (98.6 %), Bradyrhizobium elkanii (98.6 %), Bradyrhizobium pachyrhizi (98.6 %) and Bradyrhizobium retamae (98.3 %). This high similarity, however, was not confirmed by the intergenic transcribed spacer (ITS) 16S–23S rRNA region sequence analysis nor by multi-locus sequence analysis. Phylogenetic analyses of five housekeeping genes (dnaK, glnII, gyrB, recA and rpoB) revealed Bradyrhizobium iriomotense EK05T ( = LMG 24129T) to be the most closely related type strain (95.7 % sequence similarity or less). Chemotaxonomic data, including fatty acid profiles [major components being C16 : 0 and summed feature 8 (18 : 1ω6c/18 : 1ω7c)], DNA G+C content, slow growth rate and carbon compound utilization patterns, supported the placement of the novel strains in the genus Bradyrhizobium . Results of DNA–DNA relatedness studies and physiological data (especially carbon source utilization) differentiated the strains from the closest recognized species of the genus Bradyrhizobium . Symbiosis-related genes for nodulation (nodC) and nitrogen fixation (nifH) placed the novel species in a new branch within the genus Bradyrhizobium . Based on the current data, these seven strains represent a novel species for which the name Bradyrhizobium neotropicale sp. nov. is proposed. The type strain is BR 10247T ( = HAMBI 3599T).

scholarly journals Nonomuraea bangladeshensis sp. nov. and Nonomuraea coxensis sp. nov.

2007 ◽  
Vol 57 (7) ◽  
pp. 1504-1509 ◽  
Author(s):  
Ismet Ara ◽  
Takuji Kudo ◽  
Atsuko Matsumoto ◽  
Yoko Takahashi ◽  
Satoshi Omura
Keyword(s):  
Fatty Acid ◽  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
The Novel ◽  
Major Cellular Fatty Acid ◽  
Rrna Gene Sequence

Two novel bacterial strains were isolated from sandy soil from Cox's Bazar, Bangladesh. Strains 5-10-10T and 5-38-42T were Gram-positive, aerobic, non-motile actinomycetes that form branched substrate and aerial mycelium. On the basis of 16S rRNA gene sequence similarity studies, the novel strains were shown to belong to the genus Nonomuraea, being most closely related to Nonomuraea fastidiosa. Chemotaxonomic data supported the assignment of the novel strains as members of the genus Nonomuraea. Strain 5-10-10T contained MK-9(H4) and strain 5-38-42T contained MK-9(H6) and MK-9(H4) as the major menaquinones. Major polar lipids were phosphatidylethanolamine and hydroxyphosphatidylethanolamine. The major cellular fatty acid for strain 5-10-10T was iso-C16 : 0 (26.4 %); C16 : 0 (17.4 %) was the major cellular fatty acid for strain 5-38-42T. The results of DNA–DNA hybridization and physiological tests enabled strains 5-10-10T and 5-38-42T to be differentiated genotypically and phenotypically from each other and from the closely related species, N. fastidiosa. On the basis of these results, strains 5-10-10T and 5-38-42T represent two novel species of the genus Nonomuraea. Following an evaluation of morphological, physiological and chemotaxonomic characteristics, 16S rRNA gene sequence comparisons and DNA–DNA hybridization experiments, the new isolates are proposed as two novel species, Nonomuraea bangladeshensis sp. nov. [type strain, 5-10-10T (=MTCC 8089T=JCM 13930T)] and Nonomuraea coxensis sp. nov. [type strain, 5-38-42T (=MTCC 8090T=JCM 13931T)].

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