scholarly journals Reichenbachiella faecimaris sp. nov., isolated from a tidal flat, and emended descriptions of the genus Reichenbachiella and Reichenbachiella agariperforans

2011 ◽  
Vol 61 (8) ◽  
pp. 1994-1999 ◽  
Author(s):  
In-Tae Cha ◽  
Yong-Sik Oh ◽  
Soo-Je Park ◽  
Byoung-Joon Park ◽  
Je-Kwan Lee ◽  
...  
Keyword(s):  
Tidal Flat ◽  
Sequence Similarity ◽  
Biochemical Properties ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Bacterial Strains ◽  
Phenotypic Data ◽  
Respiratory Quinone ◽  
Gram Staining

A taxonomic study was carried out on two bacterial strains, PCP11T and PCP104, isolated from a tidal flat of the Yellow Sea, Korea. Comparative 16S rRNA gene sequence studies showed that these strains belonged to the family Cytophagaceae, phylum Bacteroidetes. Strains PCP11T and PCP104 shared 99.4 % sequence similarity and were related most closely to Reichenbachiella agariperforans KMM 3525T (95.8 and 96.0 % sequence similarity, respectively). Members of the genera Fulvivirga, Roseivirga, Fabibacter and Marinoscillum were the next closest relatives of the new isolates, with sequence similarities ≤91 %. The two isolates were Gram-staining-negative, strictly aerobic, gliding bacteria. They grew in the presence of 1–5 % NaCl, at pH 5.5–8.5 and at 4–35 °C. Strains PCP11T and PCP104 shared a number of physiological and biochemical properties with Reichenbachiella agariperforans KMM 3525T, but they differed from this strain in the hydrolysis of biopolymers and in the production of carotenoid and flexirubin-type pigments. Both strains possessed iso-C15 : 0, summed feature 4 (C16 : 1ω7c and/or iso-C15 : 0 2-OH) and C15 : 0 as major cellular fatty acids. The major respiratory quinone was menaquinone 7 (MK-7). The G+C contents of the genomic DNA of strains PCP11T and PCP104 were 39.6 and 41.9 mol%, respectively. On the basis of phenotypic data and phylogenetic inference, it is proposed that the two isolates represent a novel species, Reichenbachiella faecimaris sp. nov., with strain PCP11T ( = KACC 14523T  = JCM 16588T) as the type strain. Emended descriptions of the genus Reichenbachiella and Reichenbachiella agariperforans are also proposed.

scholarly journals Hwanghaeicola aestuarii gen. nov., sp. nov., a moderately halophilic bacterium isolated from a tidal flat of the Yellow Sea

2010 ◽  
Vol 60 (12) ◽  
pp. 2877-2881 ◽  
Author(s):  
Jeong Myeong Kim ◽  
Ji Young Jung ◽  
Ho Byoung Chae ◽  
Woojun Park ◽  
Che Ok Jeon
Keyword(s):  
Tidal Flat ◽  
Sequence Similarity ◽  
Halophilic Bacterium ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Respiratory Quinone ◽  
Moderately Halophilic ◽  
Gram Staining ◽  
Moderately Halophilic Bacterium

A moderately halophilic Gram-staining-negative bacterium, designated strain Y26T, was isolated from a tidal flat of Taean coast in South Korea. Cells were strictly aerobic, motile cocci with a single flagellum and showed catalase- and oxidase-positive reactions. Growth of strain Y26T was observed at 15–35 °C (optimum 25–30 °C), pH 6.0–8.0 (optimum pH 6.5–7.5) and with 1.5–6.0 % (w/v) NaCl (optimum 2.0–3.0 %). The predominant fatty acids were C18 : 1 ω7c (66.2 %), C16 : 0 (12.4 %) and C10 : 0 3-OH (5.0 %) and the G+C content of the genomic DNA was 61.0 mol%. Strain Y26T contained ubiquinone-10 (Q-10) as the major respiratory quinone. Comparative 16S rRNA gene sequence analysis showed that strain Y26T formed a distinct phyletic lineage from other genera within the Roseobacter clade of the class Alphaproteobacteria and was most closely related to members of the genera Maribius, Maritimibacter and Palleronia with 93.8–94.6 % sequence similarity. On the basis of chemotaxonomic data and molecular properties, strain Y26T represents a novel genus, Hwanghaeicola, within the family Rhodobacteraceae, for which the name Hwanghaeicola aestuarii gen. nov., sp. nov. is proposed. The type strain is Y26T (=KACC 13705T =DSM 22009T).

Gramella aestuarii sp. nov., isolated from a tidal flat, and emended description of Gramella echinicola

2013 ◽  
Vol 63 (Pt_8) ◽  
pp. 2872-2878 ◽  
Author(s):  
Sang Hyeon Jeong ◽  
Hyun Mi Jin ◽  
Che Ok Jeon
Keyword(s):  
Tidal Flat ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Molecular Features ◽  
Gram Staining ◽  
Emended Description

A Gram-staining-negative, yellow-pigmented, strictly aerobic bacterial strain motile by gliding, designated BS12T, was isolated from a tidal flat at Boseong, Korea. Cells were moderately halotolerant, catalase- and oxidase-positive rods. Growth was observed at 5–40 °C (optimum, 25 °C), at pH 5.5–9.0 (optimum, pH 7.0–7.5) and in the presence of 1–11 % (w/v) NaCl (optimum, 2–4 %). The major cellular fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH, iso-C17 : 1ω9c and anteiso-C15 : 0. The polar lipid pattern comprised phosphatidylethanolamine, four unidentified aminolipids and three unidentified lipids. The G+C content of the genomic DNA was 42.3 mol% and the only respiratory quinone was menaquinone 6. Phylogenetic inference based on 16S rRNA gene sequences showed that strain BS12T formed a tight phyletic lineage with members of the genus Gramella . Strain BS12T was most closely related to ‘ Gramella jeungdoensis’ HMD3159 with sequence similarity of 97.5 %, but the DNA–DNA relatedness value between the two strains was only 22.1±2.2 %. On the basis of phenotypic and molecular features, strain BS12T was shown to represent a novel species of the genus Gramella , for which the name Gramella aestuarii sp. nov. is proposed. The type strain is BS12T ( = KACC 16188T = JCM 17790T). An emended description of Gramella echinicola is also proposed.

scholarly journals Pedobacter alpinus sp. nov., isolated from a plateau lake

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 3782-3787 ◽  
Author(s):  
Ai-Hua Li ◽  
Hong-Can Liu ◽  
Yu-Guang Zhou
Keyword(s):  
Sequence Similarity ◽  
Biochemical Properties ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
Gene Sequence Analysis ◽  
Plateau Lake ◽  
Taxonomic Studies

Two Gram-staining-negative, aerobic, non-motile, red-pigment and rod-shaped bacterial strains, designated RSP19T and RSR28, were isolated from lake water and subjected to polyphasic taxonomic studies. Based on 16S rRNA gene sequence analysis, strains RSP19T and RSR28 exhibited 91.4–95.7 % similarity to the type strains of existing species of the genus Pedobacter. The species most closely related phylogenetically were Pedobacter daechungensis (95.7 % sequence similarity), Pedobacter lentus (95.4 %), Pedobacter glucosidilyticus (94.5 %), Pedobacter panaciterrae (94.5 %) and Pedobacter terricola (94.2 %). MK-7 was the sole respiratory quinone. The major polar lipids were phosphatidylethanolamine, one unidentified aminolipid and several unidentified polar lipids. The predominant fatty acids were C16 : 1ω7c, iso-C15 : 0 and iso-C17 : 0 3-OH. The genomic DNA G+C contents were 34.3 and 33.9 mol% for strains RSP19T and RSR28, respectively. Based on the phenotypic characteristics, biochemical properties and genetic analysis, strains RSP19T and RSR28 clearly represent a novel species of the genus Pedobacter, for which the name Pedobacter alpinus is proposed. The type strain is RSP19T ( = CGMCC 1.14040T = KCTC 42456T = NBRC 110967T).

scholarly journals Flavobacterium phragmitis sp. nov., an endophyte of reed (Phragmites australis)

2011 ◽  
Vol 61 (11) ◽  
pp. 2717-2721 ◽  
Author(s):  
Min Liu ◽  
Yan Hong Li ◽  
Yang Liu ◽  
Jing Nan Zhu ◽  
Qun Fang Liu ◽  
...  
Keyword(s):  
Phragmites Australis ◽  
Sequence Similarity ◽  
Optimal Growth ◽  
Gliding Motility ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Phenotypic Data ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
Taxonomic Approach

A Gram-staining-negative bacterium, designated strain BLN2T, was isolated from within the roots of reeds (Phragmites australis) in Beijing Cuihu Wetland (China) and characterized using a polyphasic taxonomic approach. The cells were yellow-pigmented, rod-shaped, strictly aerobic and devoid of flagella, but showed gliding motility. Strain BLN2T produced yellow, translucent, circular and convex colonies, with optimal growth at 30 °C and pH 7.0. The major respiratory quinone was menaquinone 6 (MK-6) and the predominant fatty acids were iso-C15 : 0, summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0 3-OH, C16 : 0, iso-C17 : 0 3-OH and iso-C15 : 0 3-OH. The G+C content of the genomic DNA was 34.8 mol%. The 16S rRNA gene sequence analysis showed that strain BLN2T belonged to the genus Flavobacterium and was most closely related to Flavobacterium anhuiense CGMCC 1.6859T (97.0 % sequence similarity). The DNA–DNA relatedness between strain BLN2T and F. anhuiense CGMCC 1.6859T was 25.7 %. Based on the phenotypic data and phylogenetic inference presented, it is concluded that strain BLN2T represents a novel species within the genus Flavobacterium, for which the name Flavobacterium phragmitis sp. nov. is proposed. The type strain is BLN2T ( = DSM 23314T = CGMCC 1.10370T).

Flavobacterium chungbukense sp. nov., isolated from soil

2011 ◽  
Vol 61 (11) ◽  
pp. 2734-2739 ◽  
Author(s):  
Chae-Sung Lim ◽  
Yong-Sik Oh ◽  
Jae-Kwan Lee ◽  
A-Rum Park ◽  
Jae-Soo Yoo ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
Flavobacterium Johnsoniae ◽  
The Family ◽  
Major Respiratory Quinone ◽  
The 16S Rrna Gene ◽  
Sequence Similarities

A yellow-pigmented, Gram-staining-negative, non-motile, strictly aerobic and rod-shaped bacterium, designated CS100T, was isolated from soil in Chungbuk, Korea. Phylogenetic analysis and comparative studies based on the 16S rRNA gene sequence showed that strain CS100T belonged to the genus Flavobacterium in the family Flavobacteriaceae. Strain CS100T showed the highest sequence similarities to Flavobacterium glaciei JCM 13953T (97.6 %) and Flavobacterium johnsoniae KACC 11410T (97.1 %). Sequence similarity to other members of the genus Flavobacterium was 91.5–97.0 %. Growth occurred at 4–30 °C, at pH 5.0–9.0 and in the presence of 0–2 % (w/v) NaCl. Flexirubin-type pigments were produced. Menaquinone-6 (MK-6) was the major respiratory quinone and the major fatty acids were iso-C15 : 0 (17.3 %), summed feature 3 (comprising iso-C15 : 0 2-OH and/or C16 : 1ω7c, 15.5 %) and C16 : 0 (11.8 %). The DNA G+C content was 36.4 mol%. Strain CS100T hydrolysed skimmed milk and gelatin, but not chitin or pectin, and showed oxidase and catalase activities. DNA–DNA relatedness was 3.0 % with F. glaciei JCM 13953T and 11.5 % with F. johnsoniae KACC 11410T. On the basis of the evidence from this study, strain CS100T represents a novel species of the genus Flavobacterium, for which the name Flavobacterium chungbukense sp. nov. is proposed. The type strain is CS100T ( = KACC 15048T = JCM 17386T).

Taibaiella koreensis sp. nov., isolated from soil of a ginseng field

2014 ◽  
Vol 64 (Pt_3) ◽  
pp. 1018-1023 ◽  
Author(s):  
Heung-Min Son ◽  
MooChang Kook ◽  
Ju-Han Kim ◽  
Tae-Hoo Yi
Keyword(s):  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Biochemical Tests ◽  
Phenotypic Data ◽  
Link Type ◽  
Gram Staining ◽  
The Republic

A Gram-staining-negative, strictly aerobic, motile (by gliding), non-spore-forming and rod-shaped bacterial strain, designated THG-DT86T, was isolated from soil of a ginseng field of Pocheon province in the Republic of Korea and its taxonomic position was investigated by a polyphasic approach. Growth occurred at 10–35 °C, at pH 6.5–8.5 and with 0–1.5 % (w/v) NaCl on trypticase soy agar. Flexirubin-type pigments were found to be present. On the basis of 16S rRNA gene sequence similarity, strain THG-DT86T was shown to belong to the genus Taibaiella and was related to Taibaiella smilacinae PTJT-5T (95.3 %). The G+C content of the genomic DNA was 50.1 mol%. The only isoprenoid quinone detected in strain THG-DT86T was menaquinone-7 (MK-7) and the only polyamine was homospermidine. The predominant fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH, C16 : 0, iso-C15 : 1 G and iso-C17 : 0, and the major polar lipids were phosphatidylethanolamine, an unidentified aminophosphoglycolipid and an unidentified aminophospholipid. Phenotypic data and phylogenetic inference supported the affiliation of strain THG-DT86T to the genus Taibaiella , and a number of biochemical tests differentiated strain THG-DT86T from the recognized species of the genus Taibaiella . Therefore, the novel isolate represents a novel species, for which the name Taibaiella koreensis sp. nov. is proposed, with THG-DT86T as the type strain ( = KACC 17171T = JCM 18823T).

scholarly journals Hyunsoonleella jejuensis gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from seawater

2010 ◽  
Vol 60 (2) ◽  
pp. 382-386 ◽  
Author(s):  
Byoung-Jun Yoon ◽  
Dong-Heon Lee ◽  
Bong-Jo Kang ◽  
Hyung-Yeel Kahng ◽  
You-Sung Oh ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Carotenoid Pigment ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
The Family ◽  
Genotypic Characteristics

A novel marine, Gram-staining-negative, yellow-pigmented, rod-shaped bacterial strain, designated CNU004T, was isolated from a seawater sample collected on the coastline of Jeju Island, South Korea. The strain was strictly aerobic, non-flagellated, non-gliding and oxidase- and catalase-positive. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CNU004T belongs to a distinct lineage in the family Flavobacteriaceae. Strain CNU004T exhibited levels of 16S rRNA gene sequence similarity of 93.8–93.9 % to its nearest phylogenetic neighbours, members of the genera Gaetbulibacter, Yeosuana and Algibacter. The new isolate required sea salts or artificial seawater for growth. The optimum ranges of temperature and pH for growth were 30–35 °C and pH 7.0–8.0. The DNA G+C content of strain CNU004T was 37.7 mol%. The major fatty acids were iso-C15 : 0, iso-C15 : 1 G, iso-C17 : 0 3-OH and iso-C15 : 0 3-OH. Menaquinone-6 was the major respiratory quinone. Zeaxanthin was the major carotenoid pigment produced, and flexirubin-type pigments were not produced. Strain CNU004T was able to degrade starch and agar. Based on its phenotypic and genotypic characteristics and on the phylogenetic evidence presented, strain CNU004T is considered to represent a novel species of a new genus in the family Flavobacteriaceae, for which the name Hyunsoonleella jejuensis gen. nov., sp. nov. is proposed. The type strain of Hyunsoonleella jejuensis sp. nov. is CNU004T (=KCTC 22242T =DSM 21035T).

scholarly journals Luteimonas lutimaris sp. nov., isolated from a tidal flat

2011 ◽  
Vol 61 (11) ◽  
pp. 2729-2733 ◽  
Author(s):  
Youn-Je Park ◽  
Moon Su Park ◽  
Seung Hyeon Lee ◽  
Woojun Park ◽  
Kangseok Lee ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Gram Staining ◽  
Optimum Ph

A Gram-staining-negative, strictly aerobic bacterium, designated strain G3T, was isolated from a tidal flat of the Taean coast in South Korea. Cells were moderately halotolerant and non-motile rods showing catalase- and oxidase-positive reactions. Growth of strain G3T was observed between 15 and 40 °C (optimum 30 °C) and between pH 5.5 and 9.0 (optimum pH 6.5–7.5). Strain G3T contained Q-8 as the predominant lipoquinone and iso-C15 : 0, iso-C17 : 1ω9c, iso-C16 : 0 and iso-C11 : 0 as the major fatty acids. The G+C content of the genomic DNA was 69.6 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain G3T formed a tight phylogenetic lineage with Luteimonas mephitis B1953/27.1T within the genus Luteimonas and was most closely related to L. mephitis B1953/27.1T with 98.0 % 16S rRNA gene sequence similarity. The DNA–DNA relatedness between strain G3T and L. mephitis B1953/27.1T was 35.2±3.3 %. On the basis of chemotaxonomic data and molecular properties, strain G3T represents a novel species of the genus Luteimonas, for which the name Luteimonas lutimaris sp. nov. is proposed. The type strain is G3T ( = KACC 14929T = JCM 16916T).

scholarly journals Aestuariivita atlantica sp. nov., isolated from deep-sea sediment

2015 ◽  
Vol 65 (Pt_10) ◽  
pp. 3281-3285 ◽  
Author(s):  
Guizhen Li ◽  
Qiliang Lai ◽  
Yaping Du ◽  
Xiupian Liu ◽  
Fengqin Sun ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Deep Sea ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Data ◽  
Respiratory Quinone ◽  
Deep Sea Sediment ◽  
Gram Staining

A novel strain, 22II-S11-z3T, was isolated from the deep-sea sediment of the Atlantic Ocean. The bacterium was aerobic, Gram-staining-negative, oxidase-positive and catalase-negative, oval- to rod-shaped, and non-motile. Growth was observed at salinities of 1–9 % NaCl and temperatures of 10–45 °C. The isolate could hydrolyse aesculin and Tweens 20, 40 and 80, but not gelatin. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 22II-S11-z3T belonged to the genus Aestuariivita, with highest sequence similarity to Aestuariivita boseongensis KCTC 42052T (97.5 %). The average nucleotide identity and digital DNA–DNA hybridization values between strain 22II-S11-z3T and A. boseongensis KCTC 42052T were 71.5 % and 20.0 ± 2.3 %, respectively. The G+C content of the chromosomal DNA was 65.5 mol%. The principal fatty acids (>5 %) were summed feature 8 (C18 : 1ω7c/ω6c) (35.2 %), C19 : 0 cyclo ω8c (20.9 %), C16 : 0 (11.8 %), 11-methyl C18 : 1ω7c (11.4 %) and C12 : 1 3-OH (9.4 %). The respiratory quinone was determined to be Q-10. Diphosphatidylglycerol, phosphatidylcholine, phosphatidylglycerol, nine unidentified phospholipids, one unidentified aminolipid and two unidentified lipids were present. The combined genotypic and phenotypic data show that strain 22II-S11-z3T represents a novel species of the genus Aestuariivita, for which the name Aestuariivita atlantica sp. nov. is proposed, with the type strain 22II-S11-z3T ( = KCTC 42276T = MCCC 1A09432T).

Sphingobacterium hotanense sp. nov., isolated from soil of a Populus euphratica forest, and emended descriptions of Sphingobacterium daejeonense and Sphingobacterium shayense

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 815-820 ◽  
Author(s):  
Ting Xiao ◽  
Xiang He ◽  
Gang Cheng ◽  
Haiju Kuang ◽  
Xiangru Ma ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Populus Euphratica ◽  
Rrna Gene ◽  
Major Polar Lipid ◽  
Strictly Aerobic ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Gram Staining

A novel Gram-staining-negative bacterial strain, designated XH4T, was isolated from soil of a Populus euphratica forest in the Hotan River valley, Xinjiang Uyghur autonomous region, PR China. The cells were strictly aerobic, non-motile, short rods. The isolate grew optimally at 37 °C and at pH 7.0–8.0. Based on 16S rRNA gene sequence analysis, strain XH4T belonged to the genus Sphingobacterium and was closely related to Sphingobacterium mizutaii ATCC 33299T (96.1 % sequence similarity). The DNA G+C content was 41.2 mol%. The major polar lipid of strain XH4T was phosphatidylethanolamine, and several unidentified polar lipids were also present. Strain XH4T showed the typical chemotaxonomic features of the genus Sphingobacterium , with the presence of ceramide phosphorylethanolamine 2 (CerPE-2) as the major ceramide. The major cellular fatty acids of strain XH4T were iso-C15 : 0 (34.0 %), summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c; 20.7 %) and iso-C17 : 0 3-OH (14.7 %). The predominant isoprenoid quinone was MK-7. On the basis of phenotypic data and phylogenetic inference, strain XH4T represents a novel species of the genus Sphingobacterium , for which the name Sphingobacterium hotanense sp. nov. is proposed. The type strain is XH4T ( = NRRL B-59204T  = CCTCC AB 209007T). Emended descriptions of Sphingobacterium daejeonense and Sphingobacterium shayense are also given.

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