scholarly journals Rubrobacter tropicus sp. nov. and Rubrobacter marinus sp. nov., isolated from deep-sea sediment of the South China Sea

2020 ◽  
Vol 70 (10) ◽  
pp. 5576-5585 ◽  
Author(s):  
Rou-Wen Chen ◽  
Cun Li ◽  
Yuan-Qiu He ◽  
Lin-Qing Cui ◽  
Li-Juan Long ◽  
...  
Keyword(s):  
New Species ◽  
South China Sea ◽  
South China ◽  
Deep Sea ◽  
Type Strain ◽  
The South China Sea ◽  
Content Type ◽  
Deep Sea Sediment ◽  
Link Type ◽  
Two New Species

Two novel Gram-stain-positive bacteria, designated as SCSIO 52909T and SCSIO 52915T, were isolated from a deep-sea sediment sample collected at about 3448 m water depth of the South China Sea. Phenotypic, chemotaxonomic and genomic characteristics were investigated. These strains were aerobic and tested positive for catalase activity, oxidase activity and nitrate reduction. Optimal growth occurred at 28 °C, pH 7 and 3% salinity over 14 days cultivation. Its peptidoglycan structure was type A3α (l-Lys–l-Ala) and the only menaquinone was MK-8. Both strains possessed diphosphatidylglycerol, phosphatidylglycerol, an unidentified phosphoglycolipid, an unidentified glycolipid and an unidentified phospholipid. Their major fatty acids differed, but both contained iso-branched components of C16 : 0 12-methyl. Genome sequencing revealed two large genomes of 4.58 Mbp with G+C content of 67.0 mol% in SCSIO 52909T and of 4.42 Mbp with G+C content of 69.1 % in SCSIO 52915T. The two novel strains encoded genes for metabolism that are absent in most other Rubrobacter species, and possessed many more gene copy numbers of alkaline phosphatase and thioredoxin reductase. Results of gANI and 16S rRNA gene analyses suggested that the two strains represent two new species, with 74.9, 95.0 % pairwise similarity between each other, and less than 74.3 and 93.5 % to other recognized Rubrobacter species, respectively. In the phylogenetic analysis, strains SCSIO 52909T and SCSIO 52915T were separately clustered together and formed a well-separated phylogenetic branch distinct from the other known species in the genus Rubrobacter . Based on the data presented here, these two strains should be recognized as two new species in the genus Rubrobacter , for which the names Rubrobacter tropicus sp. nov., with the type strain SCSIO 52909T (=KCTC 49412T=CGMCC 1.13853T), and Rubrobacter marinus sp. nov., with the type strain SCSIO 52915T (=KCTC 49411T=CGMCC 1.13852T), are proposed.

scholarly journals Actinomadura craniellae sp. nov., isolated from a marine sponge in the South China Sea

2019 ◽  
Vol 69 (4) ◽  
pp. 1207-1212 ◽  
Author(s):  
Lei Li ◽  
Qi-hang Xu ◽  
Xiao-tian Wang ◽  
Hou-wen Lin ◽  
Yan-hua Lu
Keyword(s):  
South China Sea ◽  
South China ◽  
Marine Sponge ◽  
Type Species ◽  
The South China Sea ◽  
Diaminopimelic Acid ◽  
The South ◽  
Content Type ◽  
China Sea ◽  
Link Type

A novel marine actinomycete, designated LHW63021T, was isolated from a marine sponge, genus Craniella, collected in the South China Sea. A polyphasic approach was applied to characterize the taxonomic position of this strain. The strain was found to have scarce aerial mycelia that differentiated into spore chains. The cell-wall hydrolysates contained meso-diaminopimelic acid as the diagnostic diamino acid. Glucose, galactose, mannose and madurose were found in the whole-cell hydrolysates. The dominant polar lipids were phosphatidylinositol and diphosphatidylglycerol. MK-9(H6) and MK-9(H8) were the predominant menaquinones. The major fatty acids were iso-C16 : 0, iso-C18 : 0, 10-methyl C17 : 0 and C18 : 1 ω9c. The DNA G+C content based on the draft genome sequence was 72.0 mol%. 16S rRNA gene sequence analysis indicated that strain LHW63021T was a member of the genus Actinomadura and had the highest similarity to Actinomadura echinospora DSM 43163T (97.3 %). Phylogenetic trees supported their close relationship. The average nucleotide identity and digital DNA–DNA hybridization values between the whole genome sequences of strain LHW63021T and A. echinospora DSM 43163T were 79.13 and 23.20 %, respectively. The evidence from the polyphasic study shows that strain LHW63021T represents a novel species of the genus Actinomadura , for which the name Actinomadura craniellae sp. nov. is proposed. The type strain is LHW63021T (=DSM 106125T=CCTCC AA 2018015T).

scholarly journals Marivirga lumbricoides sp. nov., a marine bacterium isolated from the South China Sea

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 452-456 ◽  
Author(s):  
Yongle Xu ◽  
Rui Zhang ◽  
Qipei Li ◽  
Keshao Liu ◽  
Nianzhi Jiao
Keyword(s):  
South China Sea ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
South China ◽  
Type Species ◽  
The South China Sea ◽  
Rrna Gene ◽  
Content Type ◽  
China Sea ◽  
Link Type

A novel, aerobic, heterotrophic, orange-pigmented, Gram-staining-negative, rod-shaped, gliding bacterial strain, designated JLT2000T, was isolated from surface water of the South China Sea. The strain was oxidase- and catalase-positive. The major cellular fatty acids of strain JLT2000 T were C12 : 0, iso-C15 : 1 G, iso-C15 : 0, iso-C17 : 0 3-OH, summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0 and C18 : 0. MK-7 was the major respiratory quinone and the major polar lipids were phosphatidylcholine and phosphatidylethanolamine. The genomic DNA G+C content of strain JLT2000T was 37.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain JLT2000T formed a branch within the genus Marivirga , but was clearly separated from the two established species of this genus, Marivirga tractuosa and Marivirga sericea . The 16S rRNA gene sequence similarity of strain JLT2000T with the type strains of these two species was 95.8 % and 96.1 %, respectively. Strain JLT2000T had a shorter cell length and wider growth range in different temperatures and salinities than those of Marivirga tractuosa NBRC 15989T and Marivirga sericea NBRC 15983T. In addition, strain JLT2000T could utilize more carbon sources and hydrolyse more polymers than Marivirga tractuosa NBRC 15989T and Marivirga sericea NBRC 15983T. Based on this polyphasic analysis, strain JLT2000T represents a novel species of the genus Marivirga , for which the name Marivirga lumbricoides sp. nov. is proposed. The type strain is JLT2000T ( = JCM 18012T = CGMCC 1.10832T).

Brevibacillus marinus sp. nov., a thermophilic bacterium isolated from deep sea sediment in the South China Sea

2021 ◽  
Vol 71 (12) ◽  
Author(s):  
Ke-Xin Wang ◽  
Cun Li ◽  
Yuan-Qiu He ◽  
Lin-Qing Cui ◽  
Rou-Wen Chen ◽  
...  
Keyword(s):  
South China Sea ◽  
South China ◽  
Thermophilic Bacterium ◽  
The South China Sea ◽  
Diaminopimelic Acid ◽  
The South ◽  
Circular Chromosome ◽  
Content Type ◽  
China Sea ◽  
Link Type

A novel thermophilic bacterium, designated SCSIO 07484T, was isolated from marine sediment sampled in the South China Sea. Growth occurred at 30–60 °C, pH 6.0–8.0 and in the presence of 0–3 % (w/v) NaCl. Cells of strain SCSIO 07484T were rod-shaped and flagellum-forming. No soluble pigment was observed. The phylogenetic analysis of the 16S rRNA gene sequences indicated that SCSIO 07484T belonged to the family Paenibacillaceae and clustered with members of the genus Brevibacillus in the phylogenetic trees with less than 96.2 % similarities. The cell wall contained meso-diaminopimelic acid. Whole-cell hydrolysates contained arabinose, glucose and ribose. The predominant menaquinone was MK-7. Major fatty acids were iso-C16 : 0, iso-C15 : 0, C16 : 0 and iso-C14 : 0. Diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and phosphatidylmonomethylethanolamine were its diagnostic polar lipids. The whole genome size of strain SCSIO 07484T was 4 079 826 bp with a DNA G+C content of 56.2 mol%, including one circular chromosome of 3 978392 bp and one plasmid of 101434 bp. Based on the polyphasic analysis of strain SCSIO 07484T, it is considered to represent a novel species of the genus Brevibacillus , for which the name Brevibacillus marinus sp. nov. is proposed with the type strain SCSIO 07484T (=DSM 106769T=CGMCC 1.15814T).

scholarly journals Genome Sequence of the Protease-Producing Bacterium Rheinheimera nanhaiensis E407-8T, Isolated from Deep-Sea Sediment of the South China Sea

2012 ◽  
Vol 194 (24) ◽  
pp. 7001-7002
Author(s):  
X.-Y. Zhang ◽  
Y.-J. Zhang ◽  
Q.-L. Qin ◽  
B.-B. Xie ◽  
X.-L. Chen ◽  
...  
Keyword(s):  
South China Sea ◽  
Genome Sequence ◽  
South China ◽  
Deep Sea ◽  
The South China Sea ◽  
The South ◽  
Deep Sea Sediment ◽  
China Sea

scholarly journals Oceanobacillus pacificus sp. nov., isolated from a deep-sea sediment

2014 ◽  
Vol 64 (Pt_4) ◽  
pp. 1278-1283 ◽  
Author(s):  
Cong Yu ◽  
Shaolan Yu ◽  
Zenghu Zhang ◽  
Zhao Li ◽  
Xiao-Hua Zhang
Keyword(s):  
Phylogenetic Analysis ◽  
16S Rrna ◽  
Deep Sea ◽  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Deep Sea Sediment ◽  
Link Type

A moderately halophilic bacterial strain, designated XH204T, was isolated from deep-sea sediment core (45° 58′ S 163° 11′ W) of the South Pacific Gyre during the Integrated Ocean Drilling Program Expedition 329. The strain was Gram-stain-positive, rod-shaped, motile by peritrichous flagella and produced ellipsoidal endospores subterminally positioned within swollen sporangia. Growth of strain XH204T occurred at 15–42 °C (optimum 37 °C), in the presence of 0–14 % (w/v) NaCl (optimum 4 %) and at pH 7.0–10.0 (optimum pH 8.0). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain XH204T belonged to the genus Oceanobacillus and showed the highest sequence similarity to Oceanobacillus profundus CL-MP28T (95.6 %); strain XH204T exhibited 93.4 % 16S rRNA gene sequence similarity to the type strain of the type species of the genus Oceanobacillus , Oceanobacillus iheyensis HTE831T. The dominant fatty acids of strain XH204T were anteiso-C15 : 0, iso-C14 : 0 and iso-C16 : 0. The cell wall of strain XH204T contained meso-diaminopimelic acid as the diagnostic diamino acid, and ribose, glucose and galactose as the major whole-cell sugars. The major polar lipids were phosphatidylglycerol, phosphatidylethanolamine and phosphatidylinositol. Menaquinone-7 (MK-7) was the only isoprenoid quinone and the DNA G+C content was 38.8 mol%. Based on the phenotypic, chemotaxonomic and phylogenetic analysis, strain XH204T represents a novel species of the genus Oceanobacillus , for which the name Oceanobacillus pacificus sp. nov. is proposed. The type strain is XH204T ( = DSM 25873T = JCM 18381T).

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