scholarly journals Characterization of clinical isolates previously identified as Oerskovia turbata: proposal of Cellulosimicrobium funkei sp. nov. and emended description of the genus Cellulosimicrobium

2006 ◽  
Vol 56 (4) ◽  
pp. 801-804 ◽  
Author(s):  
June M. Brown ◽  
Arnold G. Steigerwalt ◽  
Roger E. Morey ◽  
Maryam I. Daneshvar ◽  
Leslie-Joy Romero ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Clinical Isolates ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Properties ◽  
Dna Reassociation ◽  
Cellulosimicrobium Cellulans ◽  
Definition Of ◽  
Taxonomic Studies ◽  
Micro Organisms

Taxonomic studies were performed on 13 clinical isolates (ten of which were epidemiologically related) that had been previously identified as Oerskovia turbata. Comparative phylogenetic analysis, based on 16S rRNA gene sequences, indicated that the isolates are closely related to Cellulosimicrobium cellulans with sequence similarity values ranging from 99·5 to 99·8 %. Chemotaxonomic results (fatty acid profiles and menaquinones) supported the inclusion of these isolates in the genus Cellulosimicrobium. The DNA G+C content was 74·5 mol%. The results of DNA–DNA reassociation, whole-cell sugars (with galactose as the characteristic whole sugar) and phenotypic properties, including antimicrobial resistance, indicated that these isolates are representatives of a novel species of the genus Cellulosimicrobium. The name Cellulosimicrobium funkei sp. nov. is proposed for the novel strains, with strain W6122T (=ATCC BAA-886T=DSM 16025T=CCUG 50705T) as the type strain. The definition of this novel Cellulosimicrobium species will assist in the understanding of the epidemiology and clinical significance of these micro-organisms.

scholarly journals Marinobacter salicampi sp. nov., isolated from a marine solar saltern in Korea

2007 ◽  
Vol 57 (9) ◽  
pp. 2102-2105 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Mi-Hwa Lee ◽  
So-Jung Kang ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
The Novel ◽  
Solar Saltern ◽  
Marine Solar Saltern ◽  
Phenotypic Properties ◽  
Type Strains

A Gram-negative, motile, rod-shaped, Marinobacter-like bacterial strain, ISL-40T, was isolated from a marine solar saltern of the Yellow Sea in Korea. The taxonomic position of the novel strain was investigated using a polyphasic approach. Strain ISL-40T grew optimally at pH 7.0–8.0 and at 30 °C. It contained Q-9 as the predominant ubiquinone. The major fatty acids were C16 : 0, C16 : 1 ω7c and/or iso-C15 : 0 2-OH and 10-methyl C16 : 0. The DNA G+C content was 58.1 mol%. A phylogenetic analysis based on 16S rRNA gene sequences showed that strain ISL-40T belongs to the genus Marinobacter. Strain ISL-40T exhibited 16S rRNA gene sequence similarity values of 93.5–96.4 % to the type strains of recognized Marinobacter species. The differential phenotypic properties and phylogenetic distinctiveness of strain ISL-40T revealed that it is separate from recognized Marinobacter species. On the basis of phenotypic, phylogenetic and genetic data, therefore, strain ISL-40T represents a novel species of the genus Marinobacter, for which the name Marinobacter salicampi sp. nov. is proposed. The type strain is ISL-40T (=KCTC 12972T=CCUG 54357T).

Lactobacillus odoratitofui sp. nov., isolated from stinky tofu brine

2010 ◽  
Vol 60 (12) ◽  
pp. 2903-2907 ◽  
Author(s):  
Shiou-Huei Chao ◽  
Masae Sasamoto ◽  
Yuko Kudo ◽  
Junji Fujimoto ◽  
Ying-Chieh Tsai ◽  
...  
Keyword(s):  
16S Rrna ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Positive Staining ◽  
The Novel ◽  
Rrna Gene Sequence ◽  
Dna Reassociation ◽  
Type Strains

Three Gram-positive-staining strains isolated from fermented stinky tofu brine were rod-shaped, non-motile, asporogenous, facultatively anaerobic, heterofermentative and did not exhibit catalase activity. Comparative analyses of 16S rRNA, rpoA and pheS gene sequences demonstrated that the novel strains were members of the genus Lactobacillus. On the basis of 16S rRNA gene sequence similarity, the type strains of Lactobacillus collinoides (98.6 %), Lactobacillus paracollinoides (98.6 %) and Lactobacillus similis (99.6 %) were the closest neighbours. However, DNA–DNA reassociation values with these strains were less than 10 %. The phenotypic and genotypic features demonstrated that these isolates represent a novel species of the genus Lactobacillus, for which the name Lactobacillus odoratitofui sp. nov. is proposed. The type strain is YIT 11304T (=JCM 15043T =BCRC 17810T =DSM 19909T).

Description of Shewanella salipaludis sp. nov., isolated from a salt marsh

2020 ◽  
Vol 367 (15) ◽  
Author(s):  
Sooyeon Park ◽  
Siyu Chen ◽  
Jung-Sook Lee ◽  
Wonyong Kim ◽  
Jung-Hoon Yoon
Keyword(s):  
Salt Marsh ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Properties ◽  
Unidentified Phospholipid ◽  
Shewanella Species ◽  
Type Strains

ABSTRACT A Gram-stain-negative and flagellated bacterial strain, SHSM-M6T, was isolated from salt marsh from Yellow Sea, Republic of Korea. Neighbor-joining phylogenetic tree of 16S rRNA gene sequences showed that strain SHSM-M6T belongs to the genus Shewanella. 16S rRNA gene sequence similarity values between strain SHSM-M6T and the type strains of Shewanella species were <98.0%. The average nucleotide identity and DNA–DNA hybridization values between genomic sequences of strain SHSM-M6T and the type strains of Shewanella species were <73.3 and 20.7%, respectively. Strain SHSM-M6T contained MK-6 as predominant menaquinone and Q-7 and Q-8 as the predominant ubiquinones. The novel strain contained C16:1ω7c and/or C16:1ω6c, iso-C15:0 and C16:0 as major fatty acids. Major polar lipids of strain SHSM-M6T were phosphatidylethanolamine, phosphatidylglycerol, one unidentified lipid, one unidentified aminolipid and one unidentified phospholipid. Differential phenotypic properties of strain SHSM-M6T, together with its phylogenetic and genetic distinctiveness, revealed that strain SHSM-M6T is separated from recognized Shewanella species. On the basis of the data presented, strain SHSM-M6T is considered to represent a novel species of the genus Shewanella, for which the name Shewanella salipaludis sp. nov. is proposed. The type strain is SHSM-M6T (=KACC 19901T = NBRC 113646T).

Parasphingopyxis lamellibrachiae gen. nov., sp. nov., isolated from a marine annelid worm

2012 ◽  
Vol 62 (Pt_9) ◽  
pp. 2224-2228 ◽  
Author(s):  
Hiromi Uchida ◽  
Koei Hamana ◽  
Masayuki Miyazaki ◽  
Takao Yoshida ◽  
Yuichi Nogi
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Properties ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
The Family

A Gram-stain-negative, aerobic, motile, orange-pigmented, slightly halophilic, rod-shaped bacterium, designated strain JAMH 0132T, was isolated from the trophosome of a tubeworm in Kagoshima Bay, Japan, and its taxonomic position was investigated using a polyphasic approach. The novel strain grew optimally at 28–30 °C and with about 2.0 % (w/v) NaCl. Chemotaxonomic analysis showed that Q-10 was the predominant respiratory quinone and that C18 : 1ω7c, C16 : 0 2-OH and C16 : 0 were the major fatty acids. Sphingoglycolipid, phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol and phosphatidylcholine were the major polar lipids. The genomic DNA G+C content was 60.1 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain JAMH 0132T belonged to the family Sphingomonadaceae , within the class Alphaproteobacteria . The novel strain appeared most closely related to Sphingopyxis baekryungensis SW-150T (95.1 % 16S rRNA gene sequence similarity) and showed less sequence similarity with representatives of the genera Blastomonas , Sphingomonas , Sphingosinicella and Novosphingobium (<94.8 %). In having no detectable polyamine, strain JAMH 0132T differed from members of all genera currently in the family Sphingomonadaceae . On the basis of its phenotypic properties and phylogenetic distinctiveness, strain JAMH 0132T represents a novel species of a new genus in the family Sphingomonadaceae for which the name Parasphingopyxis lamellibrachiae gen. nov., sp. nov. is proposed. The type strain of Parasphingopyxis lamellibrachiae gen. nov., sp. nov. is JAMH 0132T ( = JCM 15549T  = NCIMB 14486T).

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 Meiothermus cateniformans sp. nov., a slightly thermophilic species from north-eastern China

2010 ◽  
Vol 60 (4) ◽  
pp. 840-844 ◽  
Author(s):  
Xin-Qi Zhang ◽  
Wen-Jie Zhang ◽  
Bo-Ping Wei ◽  
Xue-Wei Xu ◽  
Xu-Fen Zhu ◽  
...  
Keyword(s):  
Hot Spring ◽  
Novel Species ◽  
Sequence Similarity ◽  
Eastern China ◽  
Rrna Gene ◽  
The Novel ◽  
Meiothermus Ruber ◽  
Dna Reassociation ◽  
North Eastern ◽  
Sequence Similarity Analysis

Two aerobic, non-motile and non-sporulating bacteria, strains LY1T and L462, were recovered from a hot spring located in the Qianshan area of north-eastern China. The novel strains had Gram-negative cell walls and grew at 30–66 °C (optimum 55–60 °C) and pH 5.5–10.0 (optimum pH 8.0–8.5).16S rRNA gene sequence similarity analysis revealed that strains LY1T and L462 were most closely related to Meiothermus ruber ATCC 35948T, M. taiwanensis WR-30T and M. cerbereus GY-1T, with 97.1–98.4 % sequence similarity. Phylogenetic analysis indicated that the new isolates represented a novel species by forming a distinctive lineage within genus Meiothermus, which was confirmed by DNA–DNA reassociation values. Strain LY1T was obviously different from its closest relatives in a number of phenotypic characteristics, such as the inability to hydrolyse casein or to assimilate melibiose, trehalose, sucrose and lactose. Strain L462 was distinct in its ability to reduce nitrate. In addition, the novel strains were distinct in having larger amounts of anteiso-C17 : 0 than their closest phylogenetic neighbours. On the basis of this polyphasic taxonomic characterization, the name Meiothermus cateniformans sp. nov. is proposed for the novel species, currently represented by the type strain LY1T (=CGMCC 1.6990T =JCM 15151T) and strain L462 (=CGMCC 1.6989 =JCM 15150).

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).

Rubritalea spongiae sp. nov. and Rubritalea tangerina sp. nov., two carotenoid- and squalene-producing marine bacteria of the family Verrucomicrobiaceae within the phylum ‘Verrucomicrobia’, isolated from marine animals

2007 ◽  
Vol 57 (10) ◽  
pp. 2337-2343 ◽  
Author(s):  
Jaewoo Yoon ◽  
Yoshihide Matsuo ◽  
Satoru Matsuda ◽  
Kyoko Adachi ◽  
Hiroaki Kasai ◽  
...  
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Marine Animals ◽  
Separate Species ◽  
The Family ◽  
Definition Of ◽  
Taxonomic Studies

Two Gram-negative, non-motile, coccoid or rod-shaped, chemoheterotrophic bacteria designated strains YM21-132T and YM27-005T were isolated from marine animals, and were subjected to a polyphasic taxonomic examination. Phylogenetic analyses based on 16S rRNA gene sequences indicated that the two isolates belong to the genus Rubritalea of the phylum ‘Verrucomicrobia’ (subdivision 1). The novel isolates shared approximately 97–98 % sequence similarity with each other and showed 93–97 % similarity with Rubritalea species of the family Verrucomicrobiaceae. The level of DNA–DNA relatedness between strains YM21-132T and YM27-005T was less than 70 %, which is accepted as the phylogenetic definition of a species. Both strains produced reddish carotenoid pigments and squalene. The cell wall peptidoglycan of both strains contained muramic acid and meso-diaminopimelic acid. The G+C contents of the genomic DNA were 48.0 mol% (strain YM21-132T) and 50.3 mol% (strain YM27-005T). The presence of MK-8 and MK-9 as the major isoprenoid quinones, and iso-C14 : 0, iso-C16 : 0 and C16 : 1 ω7c as the major cellular fatty acids supported the identification of the two novel strains as members of the genus Rubritalea. On the basis of polyphasic taxonomic studies, it was concluded that these strains should be classified as representing two novel, separate species in the genus Rubritalea within the phylum ‘Verrucomicrobia’, for which the names Rubritalea spongiae sp. nov. (type strain YM21-132T=MBIC08281T=KCTC 12906T) and Rubritalea tangerina sp. nov. (type strain YM27-005T=MBIC08282T=KCTC 12907T) are proposed.

Tropicimonas aquimaris sp. nov., isolated from seawater, and emended description of the genus Tropicimonas Harwati et al. 2009

2012 ◽  
Vol 62 (Pt_3) ◽  
pp. 688-692 ◽  
Author(s):  
Ki-Hoon Oh ◽  
Won-Chan Choi ◽  
Yong-Taek Jung ◽  
So-Jung Kang ◽  
Tae-Kwang Oh ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Properties ◽  
Polar Lipid Profile ◽  
Gram Staining ◽  
Taxonomic Approach

A Gram-staining-negative, aerobic, non-motile and rod-shaped bacterial strain, designated DPG-21T, was isolated from seawater from the South Sea in Korea, and investigated using a polyphasic taxonomic approach. Strain DPG-21T grew optimally at pH 7.0–8.0, at 30 °C and in the presence of 2 % (w/v) NaCl. In a neighbour-joining phylogenetic tree based on 16S rRNA gene sequences, strain DPG-21T clustered with Tropicimonas isoalkanivorans B51T (with a sequence similarity of 97.1 %); the novel strain showed lower 16S rRNA gene sequence similarities (<95.4 %) with the other species included in the tree. The mean DNA–DNA relatedness value between strain DPG-21T and T. isoalkanivorans DSM 19548T was 12 %. The predominant ubiquinones of strain DPG-21T were Q-10 and Q-9 while C18 : 1ω7c was the strain’s major fatty acid. The polar lipid profile of strain DPG-21T was similar to that of T. isoalkanivorans DSM 19548T. The genomic DNA G+C content of the novel strain was 69.6 mol%. Some phenotypic properties and the phylogenetic and genetic data indicated that strain DPG-21T was distinct from T. isoalkanivorans and represents a novel species of the genus Tropicimonas, for which the name Tropicimonas aquimaris sp. nov. is proposed. The type strain is DPG-21T ( = KCTC 23424T = CCUG 60524T).

scholarly journals Two novel species, Lysobacter daejeonensis sp. nov. and Lysobacter yangpyeongensis sp. nov., isolated from Korean greenhouse soils

2006 ◽  
Vol 56 (5) ◽  
pp. 947-951 ◽  
Author(s):  
Hang-Yeon Weon ◽  
Byung-Yong Kim ◽  
Youn-Kyung Baek ◽  
Seung-Hee Yoo ◽  
Soon-Wo Kwon ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Bacterial Strains ◽  
Lysobacter Enzymogenes ◽  
Greenhouse Soils ◽  
Taxonomic Studies ◽  
Type Strains

Two bacterial strains were isolated from greenhouse soils of Daejeon and Yangpyeong regions in Korea. The strains, designated GH1-9T and GH19-3T, were Gram-negative and aerobic, with rod-shaped cells. Their DNA G+C contents were 61.7 and 67.3 mol%, respectively. The major fatty acids of strain GH1-9T were iso-C16 : 0, iso-C15 : 0, iso-C14 : 0, iso-C17 : 1 ω9c and iso-C11 : 0 3-OH and the major components of strain GH19-3T were iso-C16 : 0, iso-C15 : 0, C16 : 1 ω7c alcohol, iso-C17 : 1 ω9c and iso-C11 : 0 3-OH. None of the species of the genus Lysobacter with validly published names showed 16S rRNA gene sequence similarity values of more than 97 % with respect to the novel isolates. The closest sequence similarity of strain GH1-9T was with Lysobacter concretionis DSM 16239T (96.4 %), whereas strain GH19-3T showed the highest sequence similarity with Lysobacter enzymogenes DSM 2043T (96.6 %). Polyphasic taxonomic studies indicated that the two strains should be classified as representing novel members of the genus Lysobacter. The names Lysobacter daejeonensis sp. nov. and Lysobacter yangpyeongensis sp. nov. are proposed, with strains GH1-9T (=KACC 11406T=DSM 17634T) and GH19-3T (=KACC 11407T=DSM 17635T), respectively, as the type strains.

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