Cohaesibacter marisflavi sp. nov., isolated from sediment of a seawater pond used for sea cucumber culture, and emended description of the genus Cohaesibacter

2011 ◽  
Vol 61 (4) ◽  
pp. 762-766 ◽  
Author(s):  
Lingyun Qu ◽  
Qiliang Lai ◽  
Fengling Zhu ◽  
Xuguang Hong ◽  
Xiuqin Sun ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Sea Cucumber ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Phenotypic Data ◽  
Emended Description ◽  
Total Fatty Acids ◽  
Bacterium Strain ◽  
Ubiquinone 10

A Gram-negative, catalase-negative, oxidase-positive, rod-shaped bacterium, strain DQHS21T, was isolated from sediment of a seawater pond used for sea cucumber culture at Jimo in Qingdao province on the east coast of China. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain DQHS21T belonged to the genus Cohaesibacter, sharing the highest sequence similarity (96.1 %) with Cohaesibacter gelatinilyticus CL-GR15T, while the similarity to other strains was below 93.0 %. The cellular fatty acids consisted mainly of C18 : 1ω7c (60.7 %), C18 : 0 (17.8 %), C16 : 0 (8.5 %) and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH; 6.0 %), which together accounted for 93 % of the total fatty acids. Ubiquinone 10 was the major quinone. The G+C content of the chromosomal DNA of strain DQHS21T was 55.2 mol%. The combined genotypic and phenotypic data showed that strain DQHS21T represents a novel species of the genus Cohaesibacter, for which the name Cohaesibacter marisflavi sp. nov. is proposed, with the type strain DQHS21T ( = CGMCC 1.9157T  = NCCB 100300T).

Thioclava dalianensis sp. nov., isolated from surface seawater

2013 ◽  
Vol 63 (Pt_8) ◽  
pp. 2981-2985 ◽  
Author(s):  
Rongqiu Zhang ◽  
Qiliang Lai ◽  
Wanpeng Wang ◽  
Shaoneng Li ◽  
Zongze Shao
Keyword(s):  
Sequence Similarity ◽  
Bacterial Consortium ◽  
Rrna Gene ◽  
Surface Seawater ◽  
Chromosomal Dna ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Emended Description

A taxonomic study was carried out on strain DLFJ1-1T, which was isolated from an oil-degrading bacterial consortium, enriched by the surface seawater from around the Dalian Peninsula. The isolate was Gram-reaction-negative, oxidase- and catalase-positive, short-rod-shaped and non-motile. Growth was observed at salinities from 0.5 to 15 % and at temperatures from 4 to 37 °C; the strain was unable to degrade gelatin or to reduce nitrate. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain DLFJ1-1T belonged to the genus Thioclava , with the highest sequence similarity (96.4 %) to Thioclava pacifica TL 2T, while the similarities to other species examined were all below 95.0 %. The principal fatty acids were C19 : 0ω8c cyclo and summed feature 8 (C18 : 1ω7c/ω6c). The major quinone of strain DLFJ1-1T was Q10. The major polar lipids of strain DLFJ1-1T were phosphatidylethanolamine and phosphatidylglycerol. The G+C content of the chromosomal DNA was 62.5 mol%. The combined genotypic and phenotypic data show that strain DLFJ1-1T represents a novel species of the genus Thioclava , for which the name Thioclava dalianensis sp. nov. is proposed, with the type strain DLFJ1-1T ( = CGMCC 1.12325T = LMG 27290T = MCCC 1A03957T). An emended description of the genus Thioclava is also proposed.

scholarly journals Tenacibaculum holothuriorum sp. nov., isolated from the sea cucumber Apostichopus japonicus intestine

2015 ◽  
Vol 65 (Pt_12) ◽  
pp. 4347-4352 ◽  
Author(s):  
Liping Wang ◽  
Xiaoyi Li ◽  
Dong Hu ◽  
Qiliang Lai ◽  
Zongze Shao
Keyword(s):  
Sea Cucumber ◽  
Apostichopus Japonicus ◽  
Sequence Similarity ◽  
Tween 20 ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Phenotypic Data ◽  
Respiratory Quinone ◽  
Positive Growth ◽  
Unknown Phospholipid

A novel bacterial strain, designated S2-2T, was isolated from the intestine of a sea cucumber Apostichopus japonicus in Xiapu, Fujian province, China. Strain S2-2T was found to be aerobic, Gram-stain-negative, pale yellow, rod-shaped, oxidase- and catalase-positive. Growth occurred at 15–36 °C (optimum, 25–32 °C), in the presence of 2–7% sea salt (w/v, optimum, 3–5%) and at pH 6–9 (optimum, pH 7.0). The isolate was able to hydrolyse gelatin, casein and DNA, but unable to degrade Tween 20, 40 and 80, starch and cellulose. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain S2-2T represented a member of the genus Tenacibaculum, with highest sequence similarity to Tenacibaculum aiptasiae a4T (96.9% similarity), followed by Tenacibaculum xiamenense WJ-1T (96.5% similarity) and showed lower similarities (93.3–95.9%) with other members of the genus Tenacibaculum. The major cellular fatty acids were summed feature 3 (comprising C16 : 1ω6c/C16 : 1ω7c, 33.8%), iso-C15 : 0 (13.7%), iso-C15 : 1G (8.6%), iso-C15 : 0 3-OH (5.3%) and C15 : 0 3-OH (5.1%). The DNA G+C content of the chromosomal DNA was determined to be 31.8 mol%. The respiratory quinone was determined to be MK-6. Phosphatidylethanolamine, phosphatidylglycerol, one unknown aminophospholipid, one unknown phospholipid, one unknown glycolipid and five unknown lipids were detected as major polar lipids. Hence, the combined genotypic and phenotypic data indicated that strain S2-2T represents a novel species of the genus Tenacibaculum, for which the name Tenacibaculum holothuriorum sp. nov. is proposed. The type strain is S2-2T ( = MCCC 1A09872T = LMG 27758T).

Pseudomonas cyclaminis sp. nov., a pathogen causing bacterial bud blight of cyclamen in Japan

2019 ◽  
Vol 71 (3) ◽  
Author(s):  
Hiroyuki Sawada ◽  
Takashi Fujikawa ◽  
Shigeru Osada ◽  
Mamoru Satou
Keyword(s):  
Fatty Acids ◽  
Type Species ◽  
Sequence Similarity ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Total Fatty Acids

Five phytopathogenic bacterial strains, MAFF 301449T, MAFF 301450, MAFF 301451, MAFF 301452, and MAFF 301453, which were isolated from bud blight lesions of cyclamen (Cyclamen persicum Mill.) in Miyagi, Japan, were subjected to polyphasic taxonomic characterisation. The cells were Gram-reaction-negative, aerobic, non-spore-forming, motile with one to five polar flagella, and rod-shaped. Analysis of 16S rRNA gene sequences showed that they belong to the genus Pseudomonas , with Pseudomonas extremaustralis 14-3T (99.79 % sequence similarity), Pseudomonas trivialis DSM 14937T (99.79 %), Pseudomonas poae DSM 14936T (99.72 %), and Pseudomonas antarctica CMS 35T (99.72 %) as their relatives. The genomic DNA G+C content was 60.3 mol% and the major fatty acids (>5 % of the total fatty acids) were C16 : 0, summed feature 3 (C16 : 1 ω7c/C16 : 1 ω6c), summed feature 8 (C18 : 1 ω7c/C18 : 1 ω6c), and C17 : 0 cyclo. Phylogenetic analysis using the rpoD gene sequences and phylogenomic analyses based on the whole genome sequences demonstrated that the strains are members of the Pseudomonas fluorescens subgroup, but form a monophyletic and robust clade separated from their relatives. Average nucleotide identity and digital DNA–DNA hybridisation analyses with the closely related Pseudomonas species corroborated their novel species status. The strains were differentiated from their relatives by phenotypic characteristics, pathogenicity towards cyclamen, cellular fatty acid composition, and whole-cell MALDI-TOF mass spectrometry profiles. Based on the phenotypic, chemotaxonomic, and genotypic data obtained, we conclude that the strains represent a novel Pseudomonas species, for which we propose the name Pseudomonas cyclaminis sp. nov.; the type strain is MAFF 301449T (=ICMP 23720T).

scholarly journals Citreicella marina sp. nov., isolated from deep-sea sediment

2011 ◽  
Vol 61 (4) ◽  
pp. 728-731 ◽  
Author(s):  
Qiliang Lai ◽  
Yuanyuan Fu ◽  
Jianning Wang ◽  
Shuangxi Chen ◽  
Huanzi Zhong ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Deep Sea ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Phenotypic Data ◽  
Deep Sea Sediment ◽  
South West Indian Ocean ◽  
West Indian Ocean ◽  
Ocean Ridge

A taxonomic study was carried out on a novel strain, designated CK-I3-6T, which was isolated from deep-sea sediment of the south-west Indian Ocean Ridge. Cells were Gram-reaction-negative, oxidase- and catalase-positive, rod-shaped and non-motile. Growth was observed at 4–38 °C and in 1–12 % (w/v) NaCl. Cells were able to degrade gelatin and oxidize thiosulfate but did not reduce nitrate. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain CK-I3-6T belonged to the genus Citreicella with a sequence similarity of 97.3 % to Citreicella thiooxidans CHLG 1T, while similarities with other taxa were <95.7 %. DNA–DNA hybridization showed that strain CK-I3-6T and C. thiooxidans CHLG 1T showed a low DNA–DNA relatedness (48±3 %). The principal fatty acids were C16 : 0 (7.8 %), C18 : 1ω7c (66.6 %), summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c; 6.3 %) and C19 : 0ω8c cyclo (10.0 %). The chromosomal DNA G+C content was 67.5 mol%. On the basis of the combined genotypic and phenotypic data, strain CK-I3-6T represents a novel species of the genus Citreicella, for which the name Citreicella marina sp. nov. is proposed. The type strain is CK-I3-6T ( = CCTCC AB 209064T  = LMG 25230T  = MCCC 1A03060T).

scholarly journals Nocardioides ginsengagri sp. nov., isolated from the soil of a ginseng field

2012 ◽  
Vol 62 (Pt_3) ◽  
pp. 591-595 ◽  
Author(s):  
Sang-Hee Lee ◽  
Qing-Mei Liu ◽  
Sung-Taik Lee ◽  
Sun-Chang Kim ◽  
Wan-Taek Im
Keyword(s):  
Gene Sequence ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Data ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Bacterium Strain

A Gram-reaction-positive, rod-shaped, non-motile, non-spore-forming bacterium (strain BX5-10T) was isolated from the soil of a ginseng field on Baekdu Mountain in Jilin district, China. The taxonomic position of this bacterium was determined in an investigation based on a polyphasic approach. On the basis of 16S rRNA gene sequence analysis, strain BX5-10T was shown to belong to the family Nocardioidaceae and to be most closely related to Nocardioides plantarum NCIMB 12834T (96.5 % sequence similarity), Nocardioides dokdonensis KCTC 19309T (96.2 %) and Nocardioides fonticola NAA-13T (95.1 %). Strain BX5-10T was characterized chemotaxonomically as having ll-2,6-diaminopimelic acid in its cell-wall peptidoglycan, MK-8(H4) as the predominant menaquinone and C18 : 1ω9c, C16 : 0 and C17 : 1ω8c as its major fatty acids. The G+C content of the genomic DNA was 70.3 mol%. The novel strain could be differentiated genotypically and phenotypically from all recognized species of the genus Nocardioides. Based on the results of the phylogenetic analyses and the genotypic and phenotypic data, a novel species, Nocardioides ginsengagri sp. nov., is proposed. The type strain is BX5-10T ( = KCTC 19467T = DSM 21362T).

scholarly journals Salinarimonas rosea gen. nov., sp. nov., a new member of the α-2 subgroup of the Proteobacteria

2010 ◽  
Vol 60 (1) ◽  
pp. 55-60 ◽  
Author(s):  
Ji-Hui Liu ◽  
Yong-Xia Wang ◽  
Xiao-Xia Zhang ◽  
Zhi-Gang Wang ◽  
Yi-Guang Chen ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Type Strain ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Sequence Comparisons ◽  
West China ◽  
16S Rna ◽  
Total Fatty Acids ◽  
Distinct Line

A Gram-negative, rod-shaped, facultatively anaerobic, halotolerant bacterial strain, designated YIM YD3T, was isolated from a salt mine in Yunnan, south-west China. The taxonomy of strain YIM YD3T was investigated by a polyphasic approach. Strain YIM YD3T was motile, formed pink colonies and was positive for catalase and oxidase activities. Q-10 was the predominant respiratory ubiquinone. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylcholine and two unknown phospholipids. The major fatty acids (>10 % of total fatty acids) were C18 : 1 ω7c, C18 : 1 ω9c, C16 : 0 and C19 : 0 cyclo ω8c. The DNA G+C content was 71.8 mol%. Phylogenetic analysis based on 16S rRNA gene sequence comparisons showed that the isolate formed a distinct line within a clade containing the genera Balneimonas, Bosea, Chelatococcus and Microvirga in the order Rhizobiales, with highest levels of 16S RNA gene sequence similarity to the type strain of Balneimonas flocculans (93.5 %). On the basis of phenotypic, chemotaxonomic and phylogenetic data, strain YIM YD3T represents a novel species in a new genus, for which the name Salinarimonas rosea gen. nov., sp. nov. is proposed, with strain YIM YD3T (=KCTC 22346T=CCTCC AA208038T) as the type strain.

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).

Jannaschia marina sp. nov., isolated from the gut of a gastropod, Onchidium reevesii

2021 ◽  
Author(s):  
Si Chen ◽  
Mengyuan He ◽  
Qiliang Lai ◽  
Ying Xu ◽  
Chenjing Shang
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Amino Acid Identity ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Phenotypic Data ◽  
Unidentified Phospholipid ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type

A taxonomic study was carried out on strain SHC163T, which was isolated from the gut of Onchidium reevesii. The bacterium was Gram-stain-negative, oxidase-positive, catalase-negative and rod-shaped. Growth was observed at salinities of 0–4.0 % NaCl and at temperatures of 15–35 °C. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain SHC163T belonged to the genus Jannaschia , with the highest sequence similarity to Jannaschia seosinensis CL-SP26T (97.9%), followed by Jannaschia faecimaris DSM 100420T (97.8 %), Jannaschia rubra CECT 5088T (97.5%) and eight species of the genus Jannaschia (94.7−97.1 %). The average amino acid identity, average nucleotide identity and the digital DNA–DNA hybridization estimate values between strain SHC163T and the type strains of the genus Jannaschia were 64.33−79.78 %, 71.0−78.4 % and 19.2−21.0%, respectively. The principal fatty acids (>5 %) were summed feature 8 (C18 : 1  ω7c/C18 : 1  ω6c, 56.5 %), C18 : 1  ω7c 11-methyl (23.1 %), C18 : 0 (8.7 %). The G+C content of the chromosomal DNA was 67.8 mol%. The respiratory quinone was determined to be Q-10 (100 %). The polar lipids were phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, an unidentified phospholipid, an unidentified aminolipid and aminophospholipid. The combined genotypic and phenotypic data show that strain SHC163T represents a novel species within the genus Jannaschia , for which the name Jannaschia marina sp. nov. is proposed, with the type strain SHC163T (=MCCC 1K04032T=KCTC 72524T).

scholarly journals Mucilaginibacter rigui sp. nov., isolated from wetland freshwater, and emended description of the genus Mucilaginibacter

2010 ◽  
Vol 60 (1) ◽  
pp. 134-139 ◽  
Author(s):  
Keun Sik Baik ◽  
Seong Chan Park ◽  
Eun Mi Kim ◽  
Chae Hong Lim ◽  
Chi Nam Seong
Keyword(s):  
Fatty Acids ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Isoprenoid Quinone ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Emended Description ◽  
Major Isoprenoid Quinone

A non-motile, rod-shaped bacterium, designated strain WPCB133T, was isolated from freshwater collected from the Woopo wetland (Republic of Korea). Cells were Gram-reaction-negative, aerobic and catalase- and oxidase-positive. The major fatty acids were iso-C15 : 0 and anteiso-C15 : 0. The strain contained MK-7 as the major isoprenoid quinone. The DNA G+C content was 47 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain WPCB133T forms an independent lineage within the genus Mucilaginibacter. Strain WPCB133T was distantly related to Mucilaginibacter kameinonensis SCKT (94.7 % sequence similarity), Mucilaginibacter paludis TPT56T (94.5 %) and Mucilaginibacter gracilis TPT18T (94.4 %). Phenotypic characteristics distinguished strain WPCB133T from members of the genus Mucilaginibacter. On the basis of evidence presented in this study, strain WPCB133T represents a novel species of the genus Mucilaginibacter, for which the name Mucilaginibacter rigui sp. nov. is proposed. The type strain is WPCB133T (=KCTC 12534T =NBRC 101115T). An emended description of the genus Mucilaginibacter is also proposed.

scholarly journals Gillisia myxillae sp. nov., a novel member of the family Flavobacteriaceae, isolated from the marine sponge Myxilla incrustans

2006 ◽  
Vol 56 (8) ◽  
pp. 1795-1799 ◽  
Author(s):  
On On Lee ◽  
Stanley C. K. Lau ◽  
Mandy M. Y. Tsoi ◽  
Xiancui Li ◽  
Ioulia Plakhotnikova ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Marine Sponge ◽  
Phenotypic Traits ◽  
Molecular Evidence ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Respiratory Quinone ◽  
Total Fatty Acids ◽  
Bacterium Strain

A yellow-pigmented, Gram-negative, rod-shaped, strictly aerobic bacterium (strain UST050418-085T) was isolated from the surface of a marine sponge, Myxilla incrustans, at Friday Harbor, WA, USA. The DNA G+C content of this strain was 34.6 mol%. The predominant fatty acids were i15 : 0, a15 : 0, i15 : 1, i16 : 0, i17 : 0 3-OH, 17 : 0 2-OH and summed feature 3, comprising i15 : 0 2-OH and/or 16 : 1ω7c (altogether representing 69.0 % of the total fatty acids). MK-6 was the only respiratory quinone detected. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the closest relatives of UST050418-085T were members of the genus Gillisia, with sequence similarities of 93.2–96.6 %. Strain UST050418-085T differed from its closest relatives by 11 to 18 phenotypic traits. Molecular evidence and phenotypic characteristics suggest that strain UST050418-085T represents a novel species within the genus Gillisia. The name Gillisia myxillae sp. nov. is proposed, with UST050418-085T (=JCM 13546T=NRRL B-41416T) as the type strain.

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