scholarly journals Croceicoccus marinus gen. nov., sp. nov., a yellow-pigmented bacterium from deep-sea sediment, and emended description of the family Erythrobacteraceae

2009 ◽  
Vol 59 (9) ◽  
pp. 2247-2253 ◽  
Author(s):  
X.-W. Xu ◽  
Y.-H. Wu ◽  
C.-S. Wang ◽  
X.-G. Wang ◽  
A. Oren ◽  
...  
Keyword(s):  
Deep Sea ◽  
Deep Sea Sediment ◽  
The Family ◽  
Emended Description

scholarly journals Marinithermofilum abyssi gen. nov., sp. nov. and Desmospora profundinema sp. nov., isolated from a deep-sea sediment, and emended description of the genus Desmospora Yassin et al. 2009

2015 ◽  
Vol 65 (Pt_8) ◽  
pp. 2622-2629 ◽  
Author(s):  
Yi Zhang ◽  
Jie Li ◽  
Xinpeng Tian ◽  
Si Zhang
Keyword(s):  
Fatty Acids ◽  
Deep Sea ◽  
Type Strain ◽  
Novel Species ◽  
Polar Lipids ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Deep Sea Sediment ◽  
The Family ◽  
Diamino Acid

Two novel filamentous bacteria, strains SCSIO 11157T and SCSIO 11154T, were isolated from a deep-sea sediment sample. Strain SCSIO 11157T grew optimally at 55–60 °C, while strain SCSIO 11154T grew optimally at 40 °C. Both strains produced aerial and substrate mycelia. Phylogenetic analysis of the 16S rRNA gene sequences of strains SCSIO 11157T and SCSIO 11154T showed that the isolates were affiliated to the family Thermoactinomycetaceae. The two isolates contained ll-diaminopimelic acid as the cell-wall diamino acid, and did not have diagnostic sugars. The major polar lipids of strain SCSIO 11157T were diphosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylethanolamine and phosphatidylglycerol, and the major polar lipids of SCSIO 11154T were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The predominant menaquinone of both strains was MK-7. The major cellular fatty acids of strain SCSIO 11157T were iso-C15 : 0, C18 : 1ω9c and iso-C17 : 0, and strain SCSIO 11154T contained iso-C15 : 0 and iso-C17 : 0 as major fatty acids. The DNA G+C contents of strains SCSIO 11157T and SCSIO 11154T were 54.2 and 51.8 mol %, respectively. On the basis of its phenotypic and phylogenetic properties, strain SCSIO 11157T represents a novel species in the new genus, for which we propose the name Marinithermofilum abyssi gen. nov., sp. nov. The type strain of Marinithermofilum abyssi is SCSIO 11157T ( = CGMCC 1.15179T = NBRC 109939T). Strain SCSIO 11154T represents a novel species of the genus Desmospora, for which we propose the name Desmospora profundinema sp. nov. The type strain is SCSIO 11154T ( = DSM 45903T = NBRC 109626T).

Verrucosispora sediminis sp. nov., a cyclodipeptide-producing actinomycete from deep-sea sediment

2010 ◽  
Vol 60 (8) ◽  
pp. 1807-1812 ◽  
Author(s):  
Huan-Qin Dai ◽  
Jian Wang ◽  
Yu-Hua Xin ◽  
Gang Pei ◽  
Shu-Kun Tang ◽  
...  
Keyword(s):  
Deep Sea ◽  
Phylogenetic Trees ◽  
Complete Sequence ◽  
Culture Broth ◽  
Rrna Gene ◽  
The Novel ◽  
Deep Sea Sediment ◽  
Phenotypic Differences ◽  
Distinct Cluster ◽  
The Family

An actinomycete, designated MS426T, the culture broth of which showed potent antimicrobial activity, was isolated from a deep-sea sediment sample of the South China Sea. An almost-complete sequence of the 16S rRNA gene of strain MS426T was determined and aligned with those of representatives of the family Micromonosporaceae available in public databases. Phylogenetic trees were inferred by using three algorithms. Strain MS426T formed a branch adjacent to Verrucosispora lutea YIM 013T in a distinct cluster occupied only by strains of the genus Verrucosispora. Strain MS426T was distinguishable from the type strains of the two described Verrucosispora species by using a combination of chemical and morphological markers and by DNA–DNA relatedness. On the basis of these genotypic and phenotypic differences, the novel antimicrobial strain with pharmaceutical potential represents a novel species, for which the name Verrucosispora sediminis sp. nov. is proposed. The type strain is MS426T (=CGMCC 4.3550T =JCM 15670T).

scholarly journals Marseilleviruses: An Update in 2021

2021 ◽  
Vol 12 ◽  
Author(s):  
Dehia Sahmi-Bounsiar ◽  
Clara Rolland ◽  
Sarah Aherfi ◽  
Hadjer Boudjemaa ◽  
Anthony Levasseur ◽  
...  
Keyword(s):  
Deep Sea ◽  
Environmental Water ◽  
Comparative Genomic ◽  
Acanthamoeba Polyphaga ◽  
Deep Sea Sediment ◽  
Worldwide Distribution ◽  
The Family ◽  
Genomic Analyses ◽  
Giant Viruses ◽  
Rats And Mice

The family Marseilleviridae was the second family of giant viruses that was described in 2013, after the family Mimiviridae. Marseillevirus marseillevirus, isolated in 2007 by coculture on Acanthamoeba polyphaga, is the prototype member of this family. Afterward, the worldwide distribution of marseilleviruses was revealed through their isolation from samples of various types and sources. Thus, 62 were isolated from environmental water, one from soil, one from a dipteran, one from mussels, and two from asymptomatic humans, which led to the description of 67 marseillevirus isolates, including 21 by the IHU Méditerranée Infection in France. Recently, five marseillevirus genomes were assembled from deep sea sediment in Norway. Isolated marseilleviruses have ≈250 nm long icosahedral capsids and 348–404 kilobase long mosaic genomes that encode 386–545 predicted proteins. Comparative genomic analyses indicate that the family Marseilleviridae includes five lineages and possesses a pangenome composed of 3,082 clusters of genes. The detection of marseilleviruses in both symptomatic and asymptomatic humans in stool, blood, and lymph nodes, and an up-to-30-day persistence of marseillevirus in rats and mice, raise questions concerning their possible clinical significance that are still under investigation.

Chryseobacterium profundimaris sp. nov., a new member of the family Flavobacteriaceae isolated from deep-sea sediment

2015 ◽  
Vol 107 (4) ◽  
pp. 979-989 ◽  
Author(s):  
Lin Xu ◽  
Ying-Yi Huo ◽  
Zheng-Yang Li ◽  
Chun-Sheng Wang ◽  
Aharon Oren ◽  
...  
Keyword(s):  
Deep Sea ◽  
Deep Sea Sediment ◽  
The Family

scholarly journals Brevirhabdus pacifica gen. nov., sp. nov., isolated from deep-sea sediment in a hydrothermal vent field

2015 ◽  
Vol 65 (Pt_10) ◽  
pp. 3645-3651 ◽  
Author(s):  
Yue-Hong Wu ◽  
Lin Xu ◽  
Peng Zhou ◽  
Chun-Sheng Wang ◽  
Aharon Oren ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Deep Sea ◽  
Hydrothermal Vent ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Deep Sea Sediment ◽  
The Family ◽  
Hydrothermal Vent Field

A Gram-stain-negative, motile, aerobic bacterial strain, designated 22DY15T, was isolated from a deep-sea sediment sample collected from a hydrothermal vent field located in the East Pacific Rise. The isolate was a short rod with a single flagellum and was positive for catalase and oxidase activities. Q-10 was the predominant respiratory quinone. The major polar lipids consisted of phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, phosphoglycolipid, one aminolipid and three unidentified phospholipids. The principal fatty acid (>70 %) was C18 : 1ω7c. The genomic DNA G+C content was 64.3 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 22DY15T represents a distinct lineage within the family Rhodobacteraceae. The closest relatives were species of the genera Aliiroseovarius (93.3–96.0 % 16S rRNA gene sequence similarity), Sulfitobacter (94.0–96.0 %) and Loktanella (92.0–95.9 %). Differential phenotypic properties, together with phylogenetic and genetic distinctiveness, revealed that strain 22DY15T could be differentiated from its most closely related genera. Therefore, it is proposed that strain 22DY15T represents a novel species in a new genus of the family Rhodobacteraceae, for which the name Brevirhabdus pacifica gen. nov., sp. nov. is proposed. The type strain of the type species is 22DY15T ( = JCM 19489T = DSM 27767T = CGMCC 1.12416T = MCCC 1K00276T).

scholarly journals Oceanisphaera profunda sp. nov., a marine bacterium isolated from deep-sea sediment, and emended description of the genus Oceanisphaera

2014 ◽  
Vol 64 (Pt_4) ◽  
pp. 1252-1256 ◽  
Author(s):  
Zhong Xu ◽  
Xi-Ying Zhang ◽  
Hai-Nan Su ◽  
Zi-Chao Yu ◽  
Chang Liu ◽  
...  
Keyword(s):  
Deep Sea ◽  
Type Strain ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Content Type ◽  
Deep Sea Sediment ◽  
Link Type ◽  
Emended Description ◽  
Type Strains

A Gram-stain-negative, aerobic, oxidase- and catalase-positive, flagellated, rod-shaped bacterial strain, designated SM1222T, was isolated from the deep-sea sediment of the South China Sea. The strain grew at 4–35 °C and with 0.5–8 % NaCl (w/v). Phylogenetic analysis based on the 16S rRNA gene sequences revealed that strain SM1222T was affiliated with the genus Oceanisphaera in the class Gammaproteobacteria . It shared the highest sequence similarity with the type strain of Oceanisphaera ostreae (96.8 %) and 95.4–96.6 % sequence similarities with type strains of other species of the genus Oceanisphaera with validly published names. Strain SM1222T contained summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH), C18 : 1ω7c, C16 : 0, C12 : 0 and summed feature 2 (C14 : 0 3-OH and/or iso-C16 : 1 I) as the major fatty acids and ubiquinone Q-8 as the predominant respiratory quinone. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The genomic DNA G+C content of strain SM1222T was 51.5 mol%. On the basis of the evidence presented in this study, strain SM1222T represents a novel species of the genus Oceanisphaera , for which the name Oceanisphaera profunda sp. nov. is proposed. The type strain of Oceanisphaera profunda is SM1222T ( = CCTCC AB 2013241T = KCTC 32510T). An emended description of the genus Oceanisphaera Romanenko et al. 2003 emend. Choi et al. 2011 is also proposed.

Pararhodonellum marinum gen. nov., sp. nov., isolated from deep-sea sediment

2021 ◽  
Vol 71 (8) ◽  
Author(s):  
Lei Song ◽  
Hongcan Liu ◽  
Ying Huang ◽  
Xin Dai ◽  
Yuguang Zhou
Keyword(s):  
Deep Sea ◽  
Rrna Gene ◽  
Major Polar Lipid ◽  
Content Type ◽  
Deep Sea Sediment ◽  
Link Type ◽  
The Family ◽  
Optimum Ph ◽  
The Indian Ocean ◽  
The 16S Rrna Gene

A Gram-stain-negative, non-motile bacterial strain, designated SW124T, was isolated from a deep-sea sediment sample collected from the Indian Ocean. SW124T was aerobic and catalase-positive. The strain grew at 4–40 °C (optimum, 30 °C), at pH 5.0–8.6 (optimum, pH 7.0) and in the presence of 0.5–9.5 % (w/v) NaCl (optimum, 3.0%). The results of comparative analyses of the 16S rRNA gene sequence indicated that SW124T was grouped in the vicinity of the genus Rhodonellum in the family Cyclobacteriaceae . The quinone system contained menaquinone MK-7. The predominant cellular fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c). SW124T contained phosphatidylethanolamine (PE) as the major polar lipid. The genomic DNA G+C content of SW124T was 41.7 mol%. On the basis of its phenotypic characteristics and phylogenetic data, we propose that strain SW124T (=CGMCC 1.16171T=KCTC 82235T) represents a novel species of a novel genus, with the name Pararhodonellum marinum gen. nov., sp. nov.

scholarly journals Serinicoccus profundi sp. nov., an actinomycete isolated from deep-sea sediment, and emended description of the genus Serinicoccus

2011 ◽  
Vol 61 (1) ◽  
pp. 16-19 ◽  
Author(s):  
Jing Xiao ◽  
Yingxue Luo ◽  
Shujie Xie ◽  
Jun Xu
Keyword(s):  
Deep Sea ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Deep Sea Sediment ◽  
Glycan Chain ◽  
Emended Description ◽  
The Indian Ocean

A Gram-reaction-positive bacterial strain of the genus Serinicoccus, designated MCCC 1A05965T, was isolated from a deep-sea (5368 m) sediment of the Indian Ocean. Comparison of 16S rRNA gene sequences revealed that the isolate shared 97.6 % sequence similarity with Serinicoccus marinus JC1078T, the type strain of the only described species of the genus Serinicoccus. The DNA–DNA relatedness between these two strains was 46.2 % (standard deviation 1.86 %). The cell wall contained alanine, glycine, serine, l-ornithine and glutamic acid, which corresponds to the description of the genus Serinicoccus. The acyl type of the glycan chain of the peptidoglycan was glycolyl. Other characteristics of strain MCCC 1A05965T were consistent with those of the genus Serinicoccus. Cells were coccoid, moderately halophilic, oxidase-negative, catalase-positive and non-spore-forming. The major menaquinone was MK-8(H4). The predominant cellular fatty acids were iso-C15 : 0 (34.7 %) and iso-C16 : 0 (17.0 %). The polar lipids were phosphatidylglycerol, diphosphatidylglycerol, phosphatidylcholine, phosphatidylinositol and an unknown glycolipid. The DNA G+C content was 72 mol%. Strain MCCC 1A05965T (=0714S6-1T =DSM 21363T =CGMCC 4.5582T) is assigned as the type strain of a novel species, for which the name Serinicoccus profundi sp. nov. is proposed.

Sign in / Sign up

Export Citation Format

Share Document