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).

Lactobacillus futsaii sp. nov., isolated from fu-tsai and suan-tsai, traditional Taiwanese fermented mustard products

2012 ◽  
Vol 62 (Pt_3) ◽  
pp. 489-494 ◽  
Author(s):  
Shiou-Huei Chao ◽  
Yuko Kudo ◽  
Ying-Chieh Tsai ◽  
Koichi Watanabe
Keyword(s):  
16S Rrna ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
The Novel ◽  
Gram Stain ◽  
Rrna Gene Sequence ◽  
Dna Reassociation ◽  
Gene Sequence Analysis ◽  
Type Strains

Three Gram-stain-positive strains were isolated from fermented mustard and were rod-shaped, non-motile, asporogenous, facultatively anaerobic, homofermentative and did not exhibit catalase activity. Comparative analyses of 16S rRNA, pheS and rpoA gene sequences demonstrated that the novel strains were members of the genus Lactobacillus. On the basis of 16S rRNA gene sequence analysis, the type strains of Lactobacillus crustorum (98.7 % similarity), Lactobacillus farciminis (98.9 %) and Lactobacillus mindensis (97.9 %) were the closest neighbours. However, DNA–DNA reassociation values with these strains were less than 50 %. Phenotypic and genotypic features demonstrated that these isolates represent a novel species of the genus Lactobacillus, for which the name Lactobacillus futsaii sp. nov. is proposed; the type strain is YM 0097T ( = JCM 17355T = BCRC 80278T).

scholarly journals Pedobacter boryungensis sp. nov., isolated from soil

2012 ◽  
Vol 62 (1) ◽  
pp. 13-17 ◽  
Author(s):  
Yong-Taek Jung ◽  
Soo-Young Lee ◽  
Won-Chan Choi ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Properties ◽  
Type Strains

A Gram-negative, non-sporulating, non-flagellated rod, designated BR-9T, was isolated from soil collected on the Korean peninsula. Strain BR-9T grew optimally at pH 6.0–7.0, at 30 °C and in the absence of NaCl. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain BR-9T belonged to the genus Pedobacter and clustered with Pedobacter insulae DS-139T and Pedobacter koreensis WPCB189T. Strain BR-9T exhibited 98.2 and 97.5 % 16S rRNA gene sequence similarity with P. insulae DS-139T and P. koreensis WPCB189T, respectively, and <96.7 % sequence similarity with the type strains of other species in the genus Pedobacter. Strain BR-9T contained MK-7 as the predominant menaquinone and iso-C15 : 0 and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH) as the major fatty acids. The DNA G+C content of strain BR-9T was 38.5 mol%. DNA–DNA relatedness between strain BR-9T and P. insulae DS-139T and P. koreensis KCTC 12536T was 3.4–4.2 %, which indicated that the isolate was genetically distinct from these type strains. Strain BR-9T was also distinguishable by differences in phenotypic properties. On the basis of the data presented, strain BR-9T is considered to represent a novel species of the genus Pedobacter, for which the name Pedobacter boryungensis sp. nov. is proposed. The type strain is BR-9T ( = KCTC 23344T  = CCUG 60024T).

scholarly journals Flavobacterium terrigena sp. nov., isolated from soil

2007 ◽  
Vol 57 (5) ◽  
pp. 947-950 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Jung-Sook Lee ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Type Strains

A Gram-negative, rod-shaped, Flavobacterium-like bacterial strain, DS-20T, was isolated from soil from the island of Dokdo, Korea, and subjected to a polyphasic taxonomic study. Strain DS-20T grew optimally at pH 6.5–7.0 and 25 °C. It contained MK-6 as the predominant menaquinone and iso-C15 : 0, iso-C17 : 0 3-OH and iso-C17 : 1 ω9c as the major fatty acids. The DNA G+C content was 38.2 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain DS-20T belonged to the genus Flavobacterium. Levels of 16S rRNA gene sequence similarity between strain DS-20T and the type strains of recognized Flavobacterium species were below 94.9 %. Strain DS-20T differed from phylogenetically related Flavobacterium species in several phenotypic characteristics. On the basis of its phenotypic and phylogenetic distinctiveness, strain DS-20T was classified in the genus Flavobacterium as representing a novel species, for which the name Flavobacterium terrigena sp. nov. is proposed. The type strain is DS-20T (=KCTC 12761T=DSM 17934T).

scholarly journals Brevundimonas lenta sp. nov., isolated from soil

2007 ◽  
Vol 57 (10) ◽  
pp. 2236-2240 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Jung-Sook Lee ◽  
Hyun Woo Oh ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Type Strains

A Gram-negative, rod-shaped, Brevundimonas-like bacterial strain, DS-18T, was isolated from soil in Dokdo, Korea, and its exact taxonomic position was investigated by using a polyphasic approach. Strain DS-18T grew optimally at pH 6.5–7.0 and 25 °C without NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain DS-18T belonged to the genus Brevundimonas. Strain DS-18T contained Q-10 as the predominant ubiquinone and C18 : 1 ω7c and C16 : 0 as the major fatty acids. The DNA G+C content was 68.7 mol%. Strain DS-18T exhibited levels of 16S rRNA gene sequence similarity of 96.3–98.7 % to the type strains of Brevundimonas species and Mycoplana bullata. Mean DNA–DNA relatedness values between strain DS-18T and the type strains of phylogenetically related Brevundimonas species and M. bullata were in the range 15–32 %. Strain DS-18T differed from Brevundimonas species and M. bullata in several phenotypic characteristics. On the basis of phenotypic, phylogenetic and genetic data, strain DS-18T represents a novel species of the genus Brevundimonas, for which the name Brevundimonas lenta sp. nov. is proposed. The type strain is DS-18T (=KCTC 12871T =JCM 14602T).

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

2006 ◽  
Vol 56 (5) ◽  
pp. 997-1000 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Type Strains

A Gram-negative, rod-shaped Flavobacterium-like bacterial strain, DS-6T, was isolated from soil from the island of Dokdo, Korea, and subjected to a polyphasic taxonomic study. Strain DS-6T grew optimally at pH 7.0 and 25 °C in the presence of 0–0.5 % (w/v) NaCl. It contained MK-6 as the predominant menaquinone and iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The DNA G+C content was 36.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain DS-6T belonged to the genus Flavobacterium. Levels of 16S rRNA gene sequence similarity between strain DS-6T and the type strains of Flavobacterium species were below 95.4 %. Strain DS-6T differed from some phylogenetically related Flavobacterium species in several phenotypic characteristics. On the basis of phenotypic and phylogenetic distinctiveness, DS-6T (=KCTC 12542T=CIP 108840T) was classified in the genus Flavobacterium as the type strain of a novel species, for which the name Flavobacterium soli sp. nov. is proposed.

Alishewanella agri sp. nov., isolated from landfill soil

2010 ◽  
Vol 60 (9) ◽  
pp. 2199-2203 ◽  
Author(s):  
Min-Soo Kim ◽  
Seon Kyung Jo ◽  
Seong Woon Roh ◽  
Jin-Woo Bae
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Biochemical Tests ◽  
Type Strains

Strain BL06T was isolated from landfill soil in Pohang, Korea. Strain BL06T is Gram-negative, aerobic, non-motile and rod-shaped. For growth, the NaCl range is 0–6 % (w/v), the temperature range is 10–44 °C and the pH range is 5.5–12.0. Based on the 16S rRNA gene and gyrase B (gyrB) gene sequences, phylogenetic analysis showed that strain BL06T is associated with the genus Alishewanella and related closely to the type strains of Alishewanella species (98.8 % 16S rRNA gene sequence similarity to Alishewanella aestuarii, 98.7 % to Alishewanella fetalis and 98.5 % to Alishewanella jeotgali). Physiological and biochemical tests verified that strain BL06T is genotypically and phenotypically different from previously described species in the genus Alishewanella. DNA–DNA hybridization experiments showed that relatedness between the genomic DNA of strain BL06T and type strains of other Alishewanella species is <41 %. These findings suggest strongly that the strain represents a novel species, despite high 16S rRNA gene sequence similarity between strain BL06T and related strains. Therefore, strain BL06T (=KCTC 22400T=JCM 15597T) is proposed to represent a novel species in the genus Alishewanella, named Alishewanella agri sp. nov.

scholarly journals Pseudoalteromonas donghaensis sp. nov., isolated from seawater

2011 ◽  
Vol 61 (2) ◽  
pp. 351-355 ◽  
Author(s):  
Yong-Sik Oh ◽  
A-Rum Park ◽  
Je-Kwan Lee ◽  
Chae-Sung Lim ◽  
Jae-Soo Yoo ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Rrna Gene Sequence ◽  
16S Rrna Gene Sequences ◽  
Type Strains

A Gram-negative, rod-shaped, motile and aerobic bacterium, designated strain HJ51T, was isolated from a seawater sample from the East Sea, near South Korea. The isolate grew slowly at 4 °C, was able to grow at 40 °C, required NaCl and grew optimally at pH 6.5–7.0. The G+C content of the genomic DNA was 41.8 mol%. The major fatty acids were summed feature 4 (C16 : 1 ω7c and/or iso-C15 : 0 2-OH), C16 : 0 and summed feature 7 (C18 : 1 ω7c, C18 : 1 ω9t and/or C18 : 1 ω12t). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain HJ51T belonged to the genus Pseudoalteromonas and had 91.7–98.9 % 16S rRNA gene sequence similarity with type strains of species of the genus Pseudoalteromonas. Strain HJ51T had 7.2 % DNA–DNA relatedness with Pseudoalteromonas mariniglutinosa DSM 15203T and 12.9 % with Pseudoalteromonas prydzensis DSM 14232T. On the basis of the phenotypic, phylogenetic and genomic data, strain HJ51T represents a novel species of the genus Pseudoalteromonas, for which the name Pseudoalteromonas donghaensis sp. nov. is proposed. The type strain is HJ51T (=KCTC 22219T=LMG 24469T).

scholarly journals Streptococcus lactarius sp. nov., isolated from breast milk of healthy women

2011 ◽  
Vol 61 (5) ◽  
pp. 1048-1052 ◽  
Author(s):  
Virginia Martín ◽  
Rosario Mañes-Lázaro ◽  
Juan Miguel Rodríguez ◽  
Antonio Maldonado-Barragán
Keyword(s):  
16S Rrna ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Gram Stain ◽  
Rrna Gene Sequence ◽  
Healthy Women ◽  
Novel Bacteria

Three strains of a hitherto-unknown, Gram-stain-positive coccus were recovered from the milk of three non-related healthy women. The isolates shared 99 % 16S rRNA gene sequence similarity with sequences from uncultured members of the Lactobacillales and Streptococcus. The closest sequence corresponding to a defined species was that of Streptococcus peroris GTC 848T, with a similarity of 98 %. A partial sequence (488 bp) of the tuf gene also showed 97 % similarity with that of S. peroris CCUG 39814T. The combined 16S rRNA/tuf-based phylogeny revealed that all the isolates grouped in a statistically well-supported cluster separate from S. peroris. Enzyme activity profiles as well as fermentation patterns differentiated the novel bacteria from other members of the Streptococcus mitis group. Finally, phenotypic, genotypic and phylogenetic data supported the proposal of a novel species of the genus Streptococcus, for which the name Streptococcus lactarius sp. nov. is proposed. The type strain is MV1T ( = CECT 7613T  = DSM 23027T).

scholarly journals Weissella ceti sp. nov., isolated from beaked whales (Mesoplodon bidens)

2011 ◽  
Vol 61 (11) ◽  
pp. 2758-2762 ◽  
Author(s):  
A. I. Vela ◽  
A. Fernández ◽  
Y. Bernaldo de Quirós ◽  
P. Herráez ◽  
L. Domínguez ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Positive Staining ◽  
Rrna Gene Sequence ◽  
16S Rrna Gene Sequences ◽  
Beaked Whales

During an investigation into the microbiota of beaked whales (Mesoplodon bidens), nine isolates were obtained from different organs of four animals. The isolates were Gram-positive-staining, catalase-negative, short rod-shaped or coccoid organisms. A phylogenetic analysis based on 16S rRNA gene sequences of these isolates allocated them to the genus Weissella, showing 96.3 % and 96.0 % 16S rRNA gene sequence similarity with Weissella viridescens NRIC 1536Tand Weissella minor NRIC 1625T, respectively. On the basis of phenotypic, physiological and phylogenetic evidence, it is proposed that the new isolates from whales represent a novel species of the genus Weissella, Weissella ceti sp. nov. The type strain of Weissella ceti is 1119-1A-09T ( = CECT 7719T = CCUG 59653T).

Rhizobium soli sp. nov., isolated from soil

2010 ◽  
Vol 60 (6) ◽  
pp. 1387-1393 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Hwe-Su Yi ◽  
Tae-Kwang Oh ◽  
Choong-Min Ryu
Keyword(s):  
16S Rrna ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Phenotypic Properties ◽  
Type Strains

A Gram-negative, non-motile, pale-yellow, rod-shaped bacterial strain, DS-42T, was isolated from a soil in Korea and its taxonomic position was investigated by a polyphasic study. Strain DS-42T grew optimally at 25 °C and pH 7.0–8.0. Strain DS-42T did not form nodules on three different legumes, and the nodD and nifH genes were also not detected by PCR. Strain DS-42T contained Q-10 as the predominant ubiquinone. The major cellular fatty acid was C18 : 1 ω7c. The DNA G+C content was 60.8 mol%. Phylogenetic analyses based on 16S rRNA, atpD and recA gene sequences showed that strain DS-42T belonged to the genus Rhizobium. Strain DS-42T showed 16S rRNA gene sequence similarity of 94.1–97.7 % to the type strains of recognized Rhizobium species. DNA–DNA relatedness between strain DS-42T and the type strains of Rhizobium huautlense, R. galegae, R. loessense and R. cellulosilyticum was 13–19 %, indicating that strain DS-42T was distinct from them genetically. Strain DS-42T can also be differentiated from these four phylogenetically related Rhizobium species by various phenotypic properties. On the basis of phenotypic properties, phylogenetic distinctiveness and genetic data, strain DS-42T is considered to represent a novel species of the genus Rhizobium, for which the name Rhizobium soli sp. nov. is proposed. The type strain is DS-42T (=KCTC 12873T =JCM 14591T).

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