Alcanivorax marinus sp. nov., isolated from deep-sea water

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4428-4432 ◽  
Author(s):  
Qiliang Lai ◽  
Jianning Wang ◽  
Li Gu ◽  
Tianling Zheng ◽  
Zongze Shao
Keyword(s):  
16S Rrna ◽  
Deep Sea ◽  
Type Species ◽  
Sea Water ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Content Type ◽  
Deep Sea Water ◽  
Link Type ◽  
Degrading Bacteria

A taxonomic study was carried out on strain R8-12T, which was isolated from deep-sea water of the Indian Ocean during the screening of oil-degrading bacteria. The isolate was Gram-stain-negative, oxidase and catalase-positive. Growth was observed at salinities from 0.5 to 15 % (optimum 3 %), at pH from 6–10 (optimum 7–8) and at temperatures from 10 to 42 °C (optimum 28 °C). On the basis of 16S rRNA gene sequence similarity, strain R8-12T was shown to belong to the genus Alcanivorax and to be related to Alcanivorax venustensis DSM 13974T (97.2 %), A. dieselolei B-5T (95.0 %), A. balearicus MACL04T (94.6 %), A. hongdengensis A-11-3T (94.3 %), A. jadensis T9T (93.8 %), A. borkumensis SK2T (93.7 %) and A. pacificus W11-5T (93.7 %). The gyrB sequence similarities between R8-12T and other species of the genus Alcanivorax ranged from 77.9 % to 86.9 %. The major fatty acids were C16 : 0 (31.8 %), C18 : 1ω7c (20.3 %), C19 : 0ω8c cyclo (15.8 %) and summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c) (8.9 %). The polar lipids were phosphatidylglycerol (PG), phosphatidylethanolamine (PE), two aminolipids (AL1–AL2) and two phospholipids (PL1–PL2). Three alkane hydroxylase (alkB) genes were identified in the genome. The G+C content of the chromosomal DNA was 66.1 mol%. DNA–DNA hybridization showed that strain R8-12T and A. venustensis DSM 13974T had a DNA–DNA relatedness of 63±3 %. According to its phenotypic features and fatty acid composition as well as the 16S rRNA and gyrB gene sequences, the novel strain represents a member of the genus Alcanivorax , but could be easily distinguished from all other known species of the genus Alcanivorax described to date. The name Alcanivorax marinus sp. nov. is proposed, with the type strain R8-12T ( = MCCC 1A00382T = LMG 24621T = CCTCC AB 208234T).

scholarly journals Pararhodobacter marinus sp. nov., isolated from deep-sea water of the Indian Ocean

2019 ◽  
Vol 69 (4) ◽  
pp. 932-936 ◽  
Author(s):  
Qiliang Lai ◽  
Xiupian Liu ◽  
Jun Yuan ◽  
Shuchen Xie ◽  
Zongze Shao
Keyword(s):  
Indian Ocean ◽  
Deep Sea ◽  
Type Species ◽  
Sea Water ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Content Type ◽  
Deep Sea Water ◽  
Link Type ◽  
The Indian Ocean

A taxonomic study was carried out on strain CIC4N-9T, which was isolated from deep-sea water of the Indian Ocean. The bacterium was Gram-stain-negative, catalase- and oxidase-positive, rod-shaped and non-motile. Growth was observed at salinities of 0–9% and at temperatures of 4–41 °C. The isolate was able to degrade gelatin but not aesculin. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain CIC4N-9T belonged to the genus Pararhodobacter , with the highest sequence similarity to the only recognized species, Pararhodobacter aggregans D1-19T (96.9 %). The average nucleotide identity and estimated DNA–DNA hybridization values between strain CIC4N-9T and P. aggregans D1-19T were 80.4 and 23.0 %, respectively. The principal fatty acids were summed feature 8 (C18 : 1 ω7c and/or C18 : 1 ω6c), C16 : 0, C18 : 1ω7c 11-methyl, C18 : 0 and C17 : 0. The G+C content of the chromosomal DNA was 66.8 mol%. The sole respiratory quinone was determined to be Q-10. Phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol, two unknown phospholipids, four unknown aminolipids and one unknown polar lipid were present. The combined genotypic and phenotypic data show that strain CIC4N-9T represents a novel species within the genus Pararhodobacter , for which the name Pararhodobacter marinus sp. nov. is proposed. The type strain is CIC4N-9T (=MCCC 1A01225T=KCTC 52336T).

Zunongwangia atlantica sp. nov., isolated from deep-sea water

2014 ◽  
Vol 64 (Pt_1) ◽  
pp. 16-20 ◽  
Author(s):  
Rui Shao ◽  
Qiliang Lai ◽  
Xiupian Liu ◽  
Fengqin Sun ◽  
Yaping Du ◽  
...  
Keyword(s):  
Deep Sea ◽  
Type Species ◽  
Sea Water ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Phenotypic Data ◽  
Content Type ◽  
Deep Sea Water ◽  
Link Type

A taxonomic study was carried out on strain 22II14-10F7T, which was isolated from the deep-sea water of the Atlantic Ocean with oil-degrading enrichment. The bacterium was Gram-stain-negative, oxidase- and catalase-positive and rod-shaped. Growth was observed at salinities from 0.5 to 15 % and at temperatures from 4 to 37 °C; it was unable to hydrolyse Tween 40, 80 or gelatin. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 22II14-10F7T represented a member of the genus Zunongwangia , with highest sequence similarity of 97.3 % to Zunongwangia profunda SM-A87T, while the similarities to other species were all below 94.0 %. The DNA–DNA hybridization estimate of the similarity between strain 22II14-10F7T and Z. profunda SM-A87T was 27.20±2.43 % according to their genome sequences. The principal fatty acids were iso-C15 : 0, anteiso-C15 : 0 , iso-C15 : 1 G, iso-C17 : 0 3-OH, summed feature 3 (C16 : 1ω7c/ω6c) and summed feature 9 (iso-C17 : 1ω9c or C16 : 0 10-methyl). The G+C content of the chromosomal DNA was 35.5 mol%. The major respiratory quinone was determined to be MK-6. Phosphatidylethanolamine (PE), two aminolipids (AL1 and AL2) and five unknown lipids (L1–L5) were present. The combined genotypic and phenotypic data show that strain 22II14-10F7T represents a novel species of the genus Zunongwangia , for which the name Zunongwangia atlantica sp. nov. is proposed, with the type strain 22II14-10F7T ( = CGMCC1.12470T = LMG 27421T = MCCC 1A06481T).

Cellulomonas marina sp. nov., isolated from deep-sea water

2013 ◽  
Vol 63 (Pt_8) ◽  
pp. 3014-3018 ◽  
Author(s):  
Limin Zhang ◽  
Lijun Xi ◽  
Danheng Qiu ◽  
Lei Song ◽  
Xin Dai ◽  
...  
Keyword(s):  
Cell Wall ◽  
Deep Sea ◽  
Type Species ◽  
Sea Water ◽  
Rrna Gene ◽  
Southwest Indian Ocean ◽  
Content Type ◽  
Deep Sea Water ◽  
Link Type ◽  
Physiological And Biochemical Characteristics

A bacterial strain FXJ8.089T was isolated from deep-sea water collected from the southwest Indian Ocean (49° 39′ E 37° 47′ S) at a depth of 2800 m, and its taxonomic position was investigated by a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain FXJ8.089T belonged to the genus Cellulomonas and had the highest similarities with Cellulomonas oligotrophica (96.9 %) and Cellulomonas aerilata (96.6 %). It contained MK-9(H4) as the predominant menaquinone. The polar lipids were diphosphatidylglycerol and phosphatidylinositol mannosides. The cell-wall peptidoglycan type was A4β with an interpeptide bridge l-Orn–d-Glu. The cell-wall sugars were glucose, mannose and ribose. The DNA G+C content was 70.3 mol%. The strain also showed a number of physiological and biochemical characteristics that were distinct from the closely related species. Based on phenotypic and genotypic data, strain FXJ8.089T ( = CGMCC 4.6945T = DSM 24960T) represents a novel species of the genus Cellulomonas , for which the name Cellulomonas marina sp. nov. is proposed.

scholarly journals Chryseoglobus indicus sp. nov., isolated from deep sea water

2020 ◽  
Author(s):  
Shengxiang Pei ◽  
Fuquan Xie ◽  
Wenjing Wang ◽  
Shuang Zhang ◽  
Gaiyun Zhang
Keyword(s):  
Deep Sea ◽  
Type Species ◽  
Sea Water ◽  
Whole Genome Sequence ◽  
Rrna Gene ◽  
Sequence Comparisons ◽  
Content Type ◽  
Deep Sea Water ◽  
Link Type ◽  
The Indian Ocean

A novel Gram-stain-positive, motile, aerobic, non-spore-forming and slender rod-shaped actinobacterium, designated strain CTD02-10-2T, was isolated from deep sea water of the Indian Ocean. Phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain CTD02-10-2T was grouped into a separated branch with Chryseoglobus frigidaquae JCM 14730T (98.4 % nucleotide sequence identity). The respiratory quinones were menaquinones with 11, 12, 13 and 14 isoprene units and anteiso-C15 : 0, iso-C16 : 0, anteiso-C15 : 1 A and anteiso-C17 : 0 were the major fatty acids. The major polar lipids were phosphatidylglycerol, diphosphatidylglycerol and three unknown glycolipids. The genome of strain CTD02-10-2T was 2.59 Mb, with a DNA G+C content of 69.6 mol% and contained genes involved in the biosynthesis of alkylresorcinol, ansamycin, and carotenoids. In silico DNA–DNA hybridization and average nucleotide identity values for whole-genome sequence comparisons between strain CTD02-10-2T and C. frigidaquae JCM 14730T were clearly below the thresholds used for the delineation of a new species. Based on its morphological and chemotaxonomic characteristics, as well as genotypic data, strain CTD02-10-2T was classified as a novel species of the genus Chryseoglobus , for which the name Chryseoglobus indicus sp. nov. is proposed. The type strain is CTD02-10-2T (=JCM 33842T=MCCC 1A16619T).

scholarly journals Paramesonia marina gen. nov., sp. nov., isolated from deep-sea water of the Indian Ocean

2020 ◽  
Vol 70 (4) ◽  
pp. 2325-2333 ◽  
Author(s):  
Lei Wang ◽  
Qiliang Lai ◽  
Xiupian Liu ◽  
Zongze Shao
Keyword(s):  
Indian Ocean ◽  
Deep Sea ◽  
Sea Water ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Phenotypic Data ◽  
Content Type ◽  
Deep Sea Water ◽  
Link Type ◽  
The Indian Ocean

A taxonomic study was carried out of strain K7T, which was isolated from deep-sea water collected from the Indian Ocean. The bacterium was Gram-stain-negative, aerobic, oxidase-negative, catalase-positive, rod-shaped and non-motile. Growth was observed at salinities of 0.5–10 % (optimum, 3 %), at a pH range of pH 6.0–10.0 (optimum, pH 7.0) and at temperatures of 10–40 °C (optimum, 28 °C). Results of phylogenetic analysis based on 16S rRNA gene sequences indicated that strain K7T belonged to the family Flavobacteriaceae , with the high sequence similarities to the genera Mesonia (92.2 %–94.4 %), Salinimicrobium (91.9 %–93.2 %), Salegentibacter (92.1 %–92.6 %), Leeuwenhoekiella (92.1 %–92.3 %), Gramella (91.9 %–92.1 %) and Zunongwangia (91.8 %–92.1 %). The principal fatty acids were iso-C15 : 0 (28.4 %), iso-C15 : 1G (14.2 %), summed feature 9 (iso-C17 : 1  ω9c and/or C16 : 0 10-methyl; 11.6 %), iso-C17 : 0 3-OH (10.0 %) and summed feature 3 (C16 : 1 ω7c and/or C16 : 1 ω6c; 9.6 %). The G+C content of the chromosomal DNA was 35.8 mol%. The respiratory quinone was determined to be MK-6 (100 %). Phosphatidylethanolamine, two unidentified aminolipids, two unidentified phospholipid and four unidentified lipids were detected. The combined genotypic and phenotypic data show that strain K7T represents a novel species of a novel genus, for which the name Paramesonia marina gen. nov., sp. nov. is proposed, with the type strain K7T (=MCCC 1A01093T=KCTC 52325T).

scholarly journals Halovulum marinum sp. nov., isolated from deep-sea water of the Indian Ocean, and emended description of the genus Halovulum

2020 ◽  
Vol 70 (8) ◽  
pp. 4523-4530 ◽  
Author(s):  
Chu-Jin Ruan ◽  
Jian Wang ◽  
Xiao-Wei Zheng ◽  
Lei Song ◽  
Ya-Xin Zhu ◽  
...  
Keyword(s):  
Indian Ocean ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Deep Sea ◽  
Type Strain ◽  
Sea Water ◽  
Rrna Gene ◽  
Content Type ◽  
Deep Sea Water ◽  
Link Type

A novel Gram-stain-negative, aerobic, motile by peritrichous flagella, oval to rod-shaped bacterium, designated strain 2CG4T, was isolated from a deep-sea water sample collected from the Northwest Indian Ocean. The results of phylogenetic analysis of both 16S rRNA gene and RpoC protein sequences indicated that this strain was affiliated with the genus Halovulum in the Amaricoccus clade of the family Rhodobacteraceae of the class Alphaproteobacteria , sharing 95.3 % similarity at the 16S rRNA gene sequence level with the type strain of Halovulum dunhuangense YYQ-30T, the only species in the genus Halovulum . The predominant fatty acids (>10 %) of 2CG4T were summed feature 8 (C18 : 1ω7c and/ or C18 : 1ω6c; 61.1 %) and cyclo-C19 : 0ω8c (15.6 %). The polar lipids of 2CG4T were phosphatidylethanolamine, phosphatidylmethylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylcholine and sulfoquinovosyldiacylglycerol. The only isoprenoid quinone of 2CG4T was ubiquinone-10. The DNA G+C content of 2CG4T was determined to be 69.4 %. The central gene pufLM for the photosynthetic reaction was not detected. No growth occurred for 2CG4T in the absence of NaCl. On the basis of these data, it is concluded that the 2CG4T represents a novel species of the genus Halovulum , for which the name Halovulum marinum sp. nov. is proposed. The type strain is 2CG4T (=CGMCC 1.16468T=JCM 32611T).

Crassaminicella thermophila sp. nov., a moderately thermophilic bacterium isolated from a deep-sea hydrothermal vent chimney and emended description of the genus Crassaminicella

2021 ◽  
Vol 71 (11) ◽  
Author(s):  
Xue-Gong Li ◽  
Jin Lin ◽  
Shi-Jie Bai ◽  
Jie Dai ◽  
Ze-Xi Jiao ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Hydrothermal Vent ◽  
Type Species ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Content Type ◽  
Moderately Thermophilic ◽  
Link Type ◽  
Emended Description

A novel moderately thermophilic, anaerobic, heterotrophic bacterium (strain SY095T) was isolated from a hydrothermal vent chimney located on the Southwest Indian Ridge at a depth of 2730 m. Cells were Gram-stain-positive, motile, straight to slightly curved rods forming terminal endospores. SY095T was grown at 45–60 °C (optimum 50–55 °C), pH 6.0–7.5 (optimum 7.0), and in a salinity of 1–4.5 % (w/v) NaCl (optimum 2.5 %). Substrates utilized by SY095T included fructose, glucose, maltose, N-acetyl glucosamine and tryptone. Casamino acid and amino acids (glutamate, glutamine, lysine, methionine, serine and histidine) were also utilized. The main end products from glucose fermentation were acetate, H2 and CO2. Elemental sulphur, sulphate, thiosulphate, sulphite, fumarate, nitrate, nitrite and Fe(III) were not used as terminal electron acceptors. The predominant cellular fatty acids were C14 : 0 (60.5%) and C16 : 0 (7.6 %). The main polar lipids consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, five unidentified phospholipids and two unidentified aminophospholipids. No respiratory quinones were detected. The chromosomal DNA G+C content was 30.8 mol%. The results of phylogenetic analysis of the 16S rRNA gene sequences indicated that SY095T was closely related to Crassaminicella profunda Ra1766HT (95.8 % 16S rRNA gene sequence identity). SY095T exhibited 78.1 % average nucleotide identity (ANI) to C. profunda Ra1766HT. The in silico DNA–DNA hybridization (DDH) value indicated that SY095T shared 22.7 % DNA relatedness with C. profunda Ra1766HT. On the basis of its phenotypic, genotypic and phylogenetic characteristics, SY095T is suggested to represent a novel species of the genus Crassaminicella , for which the name Crassaminicella thermophila sp. nov. is proposed. The type strain is SY095T (=JCM 34213=MCCC 1K04191). An emended description of the genus Crassaminicella is also proposed.

Luteimonas abyssi sp. nov., isolated from deep-sea sediment

2014 ◽  
Vol 64 (Pt_2) ◽  
pp. 668-674 ◽  
Author(s):  
Xiaoyang Fan ◽  
Tong Yu ◽  
Zhao Li ◽  
Xiao-Hua Zhang
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Deep Sea ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Deep Sea Sediment ◽  
Link Type

Three Gram-stain-negative, strictly aerobic, rod-shaped with single polar flagellum, yellow-pigmented bacteria, designated strains XH031T, XH038-3 and XH80-1, were isolated from deep-sea sediment of the South Pacific Gyre (41° 51′ S 153° 6′ W) during the Integrated Ocean Drilling Program (IODP) Expedition 329. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolates belonged to the genus Luteimonas and showed the highest 16S rRNA gene sequence similarity with Luteimonas aestuarii B9T (96.95 %), Luteimonas huabeiensis HB2T (96.93 %) and Xanthomonas cucurbitae LMG 690T (96.92 %). The DNA G+C contents of the three isolates were 70.2–73.9 mol%. The major fatty acids were iso-C15 : 0, iso-C16 : 0, iso-C11 : 0 and C16 : 010-methyl and/or iso-C17 : 1ω9c. The major respiratory quinone was ubiquinone-8 (Q-8). The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and one unknown phospholipid. On the basis of data from polyphasic analysis, the three isolates represent a novel species of the genus Luteimonas , for which the name Luteimonas abyssi sp. nov. is proposed. The type strain is XH031T ( = DSM 25880T = CGMCC 1.12611T).

Celeribacter baekdonensis sp. nov., isolated from seawater, and emended description of the genus Celeribacter Ivanova et al. 2010

2012 ◽  
Vol 62 (Pt_6) ◽  
pp. 1359-1364 ◽  
Author(s):  
Soo-Young Lee ◽  
Sooyeon Park ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type

A Gram-stain-negative, non-motile, ovoid or rod-shaped bacterial strain, designated L-6T, was isolated from seawater of Baekdo harbour of the East Sea in Korea and its taxonomic position was investigated by using a polyphasic study. Strain L-6T grew optimally at 30 °C, at pH 7.5–8.0 and in the presence of 2 % (w/v) NaCl. In the neighbour-joining phylogenetic tree based on 16S rRNA gene sequences, strain L-6T formed a cluster with the type strain of Celeribacter neptunius at a bootstrap resampling value of 100 %. Strain L-6T exhibited 16S rRNA gene sequence similarity values of 97.7 % to C. neptunius H 14T and of less than 96.2 % to the type strains of other species used in the phylogenetic analysis. The G+C content of the chromosomal DNA of strain L-6T was 60.9 mol%. The predominant ubiquinone found in strain L-6T and C. neptunius CIP 109922T was ubiquinone-10 (Q-10). The predominant fatty acid of strain L-6T and C. neptunius CIP 109922T was C18 : 1ω7c. The major polar lipids of strain L-6T were phosphatidylglycerol, one unidentified aminolipid and one unidentified lipid. The mean level of DNA–DNA relatedness between strain L-6T and C. neptunius CIP 109922T was 17 %. Differential phenotypic properties, together with phylogenetic and genetic distinctiveness, demonstrated that strain L-6T is distinguishable from C. neptunius . On the basis of the data presented, strain L-6T is considered to represent a novel species of the genus Celeribacter , for which the name Celeribacter baekdonensis sp. nov. is proposed. The type strain is L-6T ( = KCTC 23497T  = CCUG 60799T).

scholarly journals Thiobacimonas profunda gen. nov., sp. nov., a member of the family Rhodobacteraceae isolated from deep-sea water

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 359-364 ◽  
Author(s):  
Shuhui Li ◽  
Kai Tang ◽  
Keshao Liu ◽  
Nianzhi Jiao
Keyword(s):  
Deep Sea ◽  
Sea Water ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Content Type ◽  
Deep Sea Water ◽  
Link Type ◽  
Novel Genus And Species ◽  
Family Rhodobacteraceae

A bacterial strain, JLT2016T, was isolated from a sample of South-eastern Pacific deep-sea water. Cells were Gram-stain-negative, aerobic, devoid of flagella, motile by gliding and rod-shaped. Colonies were mucoid and cream. Growth occurred at 1.0–11.0 % (w/v) NaCl, 10–40 °C and pH 4.0–9.0. The major fatty acids were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) (60.5 %), C19 : 0 cyclo ω8c (10.9 %) and C16 : 0 (9.0 %). The polar lipids included diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and two sphingoglycolipids. The DNA G+C content was 67.1 mol%. The closest relative of strain JLT2016T was Salipiger mucosus A3T (96.7 % 16S rRNA gene sequence similarity). The results of phylogenetic analyses with different treeing algorithms indicated that this strain belonged to the Roseobacter clade in the order Rhodobacterales . Based on polyphasic analysis, strain JLT2016T is considered to represent a novel genus and species, for which the name Thiobacimonas profunda gen. nov., sp. nov. is proposed. The type strain is JLT2016T ( = LMG 27365T = CGMCC 1.12377T).

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