Halomonas beimenensis sp. nov., isolated from an abandoned saltern

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 3013-3017 ◽  
Author(s):  
Chung-Yi Wang ◽  
Sz-Jie Wu ◽  
Chang-Chai Ng ◽  
Wen-Sheng Tzeng ◽  
Yuan-Tay Shyu
Keyword(s):  
Type Species ◽  
Halophilic Bacterium ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Optimum Ph ◽  
Southern Taiwan ◽  
Type Strains

A Gram-staining negative, motile, non-spore-forming, short rod-shaped (0.8–1.5×1.5–2.0 µm), halophilic bacterium, designated strain NTU-107T, was isolated from brine samples collected from the abandoned Beimen saltern in southern Taiwan. The novel strain grew with 0–15 % (w/v) NaCl (optimum between 5 % and 10 %), at 15–55 °C (optimum 40 °C) and at pH 5.5–9.5 (optimum pH 7.5). The major cellular fatty acids were C18 : 1ω7c, C16 : 0 and C19 : 0 cyclo ω8c, the genomic DNA G+C content was 66.5 mol%, and the predominant ubiquinone was Q-9. The major polar lipids included phosphatidylglycerol, diphosphatidylglycerol and phosphatidylethanolamine. In a phylogenetic analysis based on 16S rRNA gene sequences, strain NTU-107T clustered with members of the genus Halomonas . In hybridization experiments, however, the levels of DNA–DNA relatedness between strain NTU-107T and the type strains of its closest phylogenetic neighbours ( Halomonas koreensis , H. organivorans and H. ventosae ) were all found to be less than 40 %. Based on the phenotypic, chemotaxonomic and genetic data, strain NTU-107T represents a novel species within the genus Halomonas , for which the name Halomonas beimenensis sp. nov. is proposed. The type strain is NTU-107T ( = BCRC 17999T = KCTC 22876T = JCM 16084T).

scholarly journals Burkholderia insulsa sp. nov., a facultatively chemolithotrophic bacterium isolated from an arsenic-rich shallow marine hydrothermal system

2015 ◽  
Vol 65 (Pt_1) ◽  
pp. 189-194 ◽  
Author(s):  
Antje Rusch ◽  
Shaer Islam ◽  
Pratixa Savalia ◽  
Jan P. Amend
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Carbohydrate Utilization ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph ◽  
Shallow Marine Hydrothermal System ◽  
Type Strains

Enrichment cultures inoculated with hydrothermally influenced nearshore sediment from Papua New Guinea led to the isolation of an arsenic-tolerant, acidophilic, facultatively aerobic bacterial strain designated PNG-AprilT. Cells of this strain were Gram-stain-negative, rod-shaped, motile and did not form spores. Strain PNG-AprilT grew at temperatures between 4 °C and 40 °C (optimum 30–37 °C), at pH 3.5 to 8.3 (optimum pH 5–6) and in the presence of up to 2.7 % NaCl (optimum 0–1.0 %). Both arsenate and arsenite were tolerated up to concentrations of at least 0.5 mM. Metabolism in strain PNG-AprilT was strictly respiratory. Heterotrophic growth occurred with O2 or nitrate as electron acceptors, and aerobic lithoautotrophic growth was observed with thiosulfate or nitrite as electron donors. The novel isolate was capable of N2-fixation. The respiratory quinones were Q-8 and Q-7. Phylogenetically, strain PNG-AprilT belongs to the genus Burkholderia and shares the highest 16S rRNA gene sequence similarity with the type strains of Burkholderia fungorum (99.8 %), Burkholderia phytofirmans (98.8 %), Burkholderia caledonica (98.4 %) and Burkholderia sediminicola (98.4 %). Differences from these related species in several physiological characteristics (lipid composition, carbohydrate utilization, enzyme profiles) and DNA–DNA hybridization suggested the isolate represents a novel species of the genus Burkholderia , for which we propose the name Burkholderia insulsa sp. nov. The type strain is PNG-AprilT ( = DSM 28142T = LMG 28183T).

Blastococcus endophyticus sp. nov., an actinobacterium isolated from Camptotheca acuminata

2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3269-3273 ◽  
Author(s):  
Wen-Yong Zhu ◽  
Jin-Li Zhang ◽  
Yu-Li Qin ◽  
Zi-Jun Xiong ◽  
Dao-Feng Zhang ◽  
...  
Keyword(s):  
Type Species ◽  
Camptotheca Acuminata ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Characteristics ◽  
Content Type ◽  
Link Type ◽  
Endophytic Actinobacterium ◽  
Optimum Ph ◽  
Type Strains

A novel endophytic actinobacterium, designated strain YIM 68236T, was isolated from healthy leaves of Camptotheca acuminata. and characterized by using a polyphasic approach. Cells of this strain occurred singly, in pairs or in tetrads. It grew at 10–45 °C, at pH 5.0–8.0 (optimum pH 7.0) and in the presence of 0–3 % (w/v) NaCl. The DNA G+C content was 71.6 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM 68236T belongs to the genus Blastococcus . However, it differed from its closest relatives, Blastococcus aggregatus DSM 4725T, Blastococcus saxobsidens DSM 44509T and Blastococcus jejuensis DSM 19597T in many phenotypic characteristics. Moreover, the DNA–DNA relatedness values between the novel isolate and the three above-mentioned type strains were 49.0±1.6 %, 46.1±3.2 % and 39.8±1.5 %, respectively. Based on comparative analysis of physiological and chemotaxonomic data, strain YIM 68236T represents a novel species of the genus Blastococcus , for which the name Blastococcus endophyticus sp. nov. is proposed. The type strain is YIM 68236T ( = CCTCC AA 209045T = DSM 45413T = KCTC 19998T).

Brevibacterium jeotgali sp. nov., isolated from jeotgal, a traditional Korean fermented seafood

2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3430-3436 ◽  
Author(s):  
Eun Jin Choi ◽  
Se Hee Lee ◽  
Ji Young Jung ◽  
Che Ok Jeon
Keyword(s):  
Type Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Optimum Ph ◽  
Diamino Acid ◽  
Type Strains

A Gram-staining-positive, aerobic, non-motile bacterium, designated strain SJ5-8T, was isolated from seau-jeot (shrimp jeotgal), a traditional fermented seafood in South Korea. Cells were non-spore-forming rods showing catalase- and oxidase-positive reactions. Growth of strain SJ5-8T was observed at 10–37 °C (optimum, 30 °C), at pH 6.0–9.0 (optimum, pH 7.5–8.5) and in the presence of 0–14 % (w/v) NaCl (optimum, 5 %). Phylogenetic inference based on 16S rRNA gene sequences showed that the strain formed a tight phyletic lineage with members of the genus Brevibacterium . Strain SJ5-8T was most closely related to Brevibacterium yomogidense MN-6-aT, Brevibacterium daeguense 2C6-41T and Brevibacterium salitolerans TRM 415T with similarities of 98.9, 97.5 and 97.4 %, respectively. The DNA–DNA relatedness values between strain SJ5-8T and the type strains of B. yomogidense , B. daeguense and B. salitolerans were 51.7±1.9 %, 22.2±4.0 % and 52.4±3.8 %, respectively. Chemotaxonomic data (major sole isoprenoid quinone, MK-8(H2); major diagnostic diamino acid, meso-diaminopimelic acid; major polyamines, putrescine and cadaverine; major cellular fatty acids, anteiso-C15:0, iso-C15:0 and anteiso-C17:0; major polar lipids, phosphatidylglycerol and diphosphatidylglycerol; DNA G+C content, 69.3 mol%) also supported the affiliation of strain SJ5-8T to the genus Brevibacterium . Therefore, strain SJ5-8T represents a novel species of the genus Brevibacterium , for which the name Brevibacterium jeotgali sp. nov. is proposed. The type strain is SJ5-8T ( = KACC 16911T = JCM 18571T).

Terriglobus tenax sp. nov., an exopolysaccharide-producing acidobacterium isolated from rhizosphere soil of a medicinal plant

2014 ◽  
Vol 64 (Pt_2) ◽  
pp. 431-437 ◽  
Author(s):  
Kyung-Sook Whang ◽  
Jae-Chan Lee ◽  
Hae-Ran Lee ◽  
Song-Ih Han ◽  
Sang-Ho Chung
Keyword(s):  
Type Species ◽  
Rhizosphere Soil ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Optimum Ph ◽  
Type Strains

An exopolysaccharide-producing bacterium, designated strain DRP 35T, was isolated from the rhizosphere soil of a medicinal herb, Angelica sinensis, at Geumsan in Korea. Cells were Gram-staining-negative, non-motile, catalase-positive and oxidase-negative short rods. The isolate grew aerobically from 15 to 45 °C (optimum 30 °C), pH 3.5–7.0 (optimum pH 5.0) and in the presence of 0–1.0 % (w/v) NaCl. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain DRP 35T belongs to the genus Terriglobus in the phylum Acidobacteria with a sequence similarity of 97.2 % and 97.0 % to Terriglobus saanensis SP1PR4T and Terriglobus roseus KBS63T, respectively. The genomic DNA G+C content was 62.1 mol%. DNA–DNA relatedness between strain DRP 35T and the type strains of the other species of the genus Terriglobus , T. saanensis SP1PR4T and T. roseus KBS63T, were 24.6 and 17.2 %, respectively. The predominant menaquinone was MK-8. Major fatty acids were iso-C15 : 0, C16 : 1ω7c and C16 : 0. The polar lipids were phosphatidylethanolamine, unidentified aminophospholipid and unknown phospholipids. On the basis of polyphasic analysis from this study, strain DRP 35T represents a novel species of the genus Terriglobus for which the name Terriglobus tenax sp. nov. is proposed. The type strain is DRP 35T ( = KACC 16474T = NBRC 109677T).

scholarly journals Marinobacter halodurans sp. nov., a halophilic bacterium isolated from sediment of a salt flat

2020 ◽  
Vol 70 (12) ◽  
pp. 6294-6300
Author(s):  
Yeonjae Yoo ◽  
Hanbyul Lee ◽  
Bong-Oh Kwon ◽  
Jong Seong Khim ◽  
Seungwoo Baek ◽  
...  
Keyword(s):  
Type Species ◽  
Halophilic Bacterium ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Salt Flat ◽  
Gene Sequence Analysis ◽  
Type Strains

A Gram-staining-negative, aerobic, cream-coloured, marine bacterium, with rod-shaped cells, designated strain YJ-S3-2T, was isolated from salt flat sediment of Yongyu-do, Republic of Korea. YJ-S3-2T grew at pH 5.0–9.0 (optimum pH 7.0), 4–45 °C (optimum 30 °C) and with 1–18 % (w/v) NaCl (optimum 6 %). The results of 16S rRNA gene sequence analysis indicated that YJ-S3-2T was closely related to Marinobacter segnicrescens SS011B1-4T (97.0 %) followed by, ' Marinobacter nanhaiticus ' D15-8W (96.7 %), Marinobacter bryozoorum 50-11T (96.7 %), Marinobacter koreensis DSMZ 179240T T (96.5 %) and Marinobacter bohaiensis T17T (96.5 %). The average nucleotide identity (ANI) and the genome to genome distance calculator (GGDC) estimate values between YJ-S3-2T and related type strains were 73.7–79.8 and 19.9–22.5 %, and also 73.5 and 20.7 % with Marinobacter hydrocarbonoclasticus . YJ-S3-2T was characterized as having Q-9 as the predominant respiratory quinone and the principal fatty acids (>10 %) were C16 : 0 (22.3 %), summed feature 9 (C17 : 1iso ω9c/C16 : 0 10-methyl, 13.8 %) and 3 (C16 : 1ω7c/C16 : 1ω6c, 11.9 %). The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, two unidentified aminolipids and two unidentified phospholipids. The DNA G+C content of YJ-S3-2T is 60.9 mol%. On the basis of the polyphasic taxonomic evidence presented in this study, YJ-S3-2T should be classified as representing a novel species within the genus Marinobacter , for which name Marinobacter halodurans sp. nov. is proposed, with the type strain YJ-S3-2T (=KACC 19883T=KCTC 62937T=JCM 33109T).

scholarly journals Flavobacterium maotaiense sp. nov., isolated from freshwater

2015 ◽  
Vol 65 (Pt_1) ◽  
pp. 171-176 ◽  
Author(s):  
Qingqing Feng ◽  
Yuan Gao ◽  
Yuichi Nogi ◽  
Xu Tan ◽  
Lu Han ◽  
...  
Keyword(s):  
Type Species ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
West China ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph ◽  
Chishui River

Two novel strains, T9T and T10, were isolated from water samples collected from Chishui River flowing through Maotai town, Guizhou, south-west China. The isolates were yellow-pigmented, Gram-reaction-negative, rod-shaped, non-motile and aerobic. Phylogenetic analysis based on 16S rRNA gene sequences showed that the isolates belonged to the genus Flavobacterium , and showed highest similarities to Flavobacterium hibernum DSM 12611T (97.0 %), followed by Flavobacterium granuli Kw05T (96.7 %) and Flavobacterium pectinovorum DSM 6368T (96.7 %). The novel strains were able to grow at 20–37 °C (optimum 25 °C), pH 7.0–10.0 (optimum pH 7.0–8.0) and with 0–0.5 % (w/v) NaCl (optimum 0.5 %). The predominant fatty acids were iso-C15 : 0, C16 : 1ω7c, anteiso-C15 : 0, C15 : 0, iso-C15 : 0 3-OH and iso-C15 : 1ω10c, and menaquinone-6 (MK-6) was the main respiratory quinone. The major polar lipids were phosphatidylethanolamine, one unknown glycolipid, two unknown aminolipids and two unidentified lipids. The DNA G+C contents of strains T9T and T10 were 37.7 and 36.4 mol%, respectively. According to the phenotypic and genetic data, strains T9T and T10 represent a novel species in the genus Flavobacterium , for which the name Flavobacterium maotaiense sp. nov. is proposed. The type strain is T9T ( = CGMCC 1.12712T = JCM 19927T).

Nafulsella turpanensis gen. nov., sp. nov., a member of the phylum Bacteroidetes isolated from soil

2013 ◽  
Vol 63 (Pt_5) ◽  
pp. 1639-1645 ◽  
Author(s):  
Lei Zhang ◽  
Xihui Shen ◽  
Yingbao Liu ◽  
Shiqing Li
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
The Family

A Gram-staining-negative, rod-shaped, gliding and pale-pink-pigmented bacterium, designated strain ZLM-10T, was isolated from a soil sample collected from an arid area in Xinjiang province, China, and characterized in a taxonomic study using a polyphasic approach. The novel strain grew optimally at 30–37 °C and in the presence of 2 % (w/v) sea salts. The only respiratory quinone detected was MK-7 and the major cellular fatty acids were summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c), iso-C15 : 0 and iso-C17 : 0 3-OH. The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, an unidentified aminolipid and two unidentified aminophospholipids. The DNA G+C content was 45.4 mol%. Flexirubin-type pigments were not produced. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain ZLM-10T was a member of the phylum Bacteroidetes and appeared most closely related to Cesiribacter roseus 311T (90.2 % sequence similarity), Marivirga sericea LMG 13021T (89.2 %), Cesiribacter andamanensis AMV16T (89.1 %) and Marivirga tractuosa DSM 4126T (89.1 %). On the basis of phenotypic and genotypic data and phylogenetic inference, strain ZLM-10T should be classified as a novel species of a new genus in the family Flammeovirgaceae , for which the name Nafulsella turpanensis gen. nov., sp. nov. is proposed. The type strain of the type species is ZLM-10T ( = CCTCC AB 208222T = KCTC 23983T).

scholarly journals Streptomyces herbaceus sp. nov., Streptomyces incanus sp. nov. and Streptomyces pratens sp. nov., isolated from the soil of a hay meadow

2012 ◽  
Vol 62 (Pt_8) ◽  
pp. 1908-1913 ◽  
Author(s):  
Byung-Yong Kim ◽  
Xiaoying Rong ◽  
Tiago D. Zucchi ◽  
Avinash N. V. Bonda ◽  
Ying Huang ◽  
...  
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Morphological Properties ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Respective Type ◽  
Type Strains

The taxonomic positions of three streptomycetes isolated from a soil sample from a hay meadow were determined using a polyphasic approach. The isolates had chemical and morphological properties typical of the genus Streptomyces and, in phylogenetic analyses based on 16S rRNA gene sequences, formed a distinct subclade that was most closely related to the Streptomyces prasinus subclade. DNA–DNA relatedness studies showed that the novel strains belonged to three different genomic species. The novel strains could be distinguished from one another and from the type strains of the species classified in the S. prasinus subclade using a combination of genotypic and phenotypic properties. On the basis of these data, it is proposed that the novel strains be assigned to the genus Streptomyces as Streptomyces herbaceus sp. nov., Streptomyces incanus sp. nov. and Streptomyces pratens sp. nov., with BK119T ( = KACC 21001T  = CGMCC 4.5797T), BK128T ( = KACC 21002T  = CGMCC 4.5799T) and BK138T ( = KACC 20904T  = CGMCC 4.5800T) as the respective type strains.

scholarly journals Leekyejoonella antrihumi gen. nov., sp. nov., a new member of the family Dermacoccaceae isolated from a cave soil

2020 ◽  
Vol 70 (5) ◽  
pp. 3340-3347 ◽  
Author(s):  
Soon Dong Lee ◽  
In Seop Kim ◽  
Peter Schumann ◽  
Gwanpil Song
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Draft Genome ◽  
Rrna Gene ◽  
The Novel ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Type Strains

A novel Gram-stain-positive, actinobacterial strain, designated C5-26T, was isolated from soil from a natural cave in Jeju, Republic of Korea, and its taxonomic position was investigated using a polyphasic approach. The organism was aerobic, and cells were non-spore-forming, non-motile cocci that occurred singly, in pairs, in triplets, in tetrads, in short chains or in irregular clusters. Colonies of the cells were circular, convex, entire and white. The peptidoglycan type was A4α with an l-Ser–d-Asp interpeptide bridge. The whole-cell sugars comprised glucose, rhamnose, mannose, arabinose, galactose and ribose. The major menaquinone was MK-8(H4). The polar lipids contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and an unidentified phospholipid. The major fatty acids were iso-C16 : 0 and iso-C16 : 1 h. The size of the draft genome was 5.32 Mbp with depth of coverage of 161×. The G+C content of the genomic DNA was 67.1 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that the novel isolate belonged to the family Dermacoccaceae and formed a distinct subcluster at the base of the radiation of the genus Luteipulveratus . Highest sequence similarities of the novel isolate were found to the type strains of Luteipulveratus halotolerans (96.2 %), Branchiibius hedensis (95.4 %), Luteipulveratus mongoliensis (95.4 %) and Branchiibius cervicis (95.3 %). The whole genome-based phylogeny supported the novelty of the isolate at the genus level in the family Dermacoccaceae . On the basis of data from this polyphasic study, strain C5-26T (=KCTC 39632T=DSM 108676T) represents a novel species of a new genus in the family Dermacoccaceae , for which the name Leekyejoonella antrihumi gen. nov., sp. nov. is proposed.

Limimonas halophila gen. nov., sp. nov., an extremely halophilic bacterium in the family Rhodospirillaceae

2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1562-1567 ◽  
Author(s):  
Mohammad Ali Amoozegar ◽  
Ali Makhdoumi-Kakhki ◽  
Mohadaseh Ramezani ◽  
Mahdi Moshtaghi Nikou ◽  
Seyed Abolhassan Shahzadeh Fazeli ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Halophilic Bacterium ◽  
Hypersaline Lake ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
The Family

A novel, Gram-staining-negative, non-pigmented, rod-shaped, strictly aerobic, extremely halophilic bacterium, designated strain IA16T, was isolated from the mud of the hypersaline Lake Aran-Bidgol, in Iran. Cells of strain IA16T were not motile. Growth occurred with 2.5–5.2 M NaCl (optimum 3.4 M), at pH 6.0–8.0 (optimum pH 7.0) and at 30–50 °C (optimum 40 °C). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain IA16T belonged in the family Rhodospirillaceae and that its closest relatives were Rhodovibrio sodomensis DSM 9895T (91.6 % sequence similarity), Rhodovibrio salinarum NCIMB 2243T (91.2 %), Pelagibius litoralis CL-UU02T (88.9 %) and Fodinicurvata sediminis YIM D82T (88.7 %). The novel strain’s major cellular fatty acids were C19 : 0 cyclo ω7c and C18 : 0 and its polar lipid profile comprised phosphatidylglycerol, diphosphatidylglycerol, four unidentified phospholipids, three unidentified aminolipids and two other unidentified lipids. The cells of strain IA16T contained the ubiquinone Q-10. The G+C content of the novel strain’s genomic DNA was 67.0 mol%. The physiological, biochemical and phylogenetic differences between strain IA16T and other previously described taxa indicate that the strain represents a novel species in a new genus within the family Rhodospirillaceae , for which the name Limimonas halophila gen. nov., sp. nov. is proposed. The type strain of Limimonas halophila is IA16T ( = IBRC-M 10018T  = DSM 25584T).

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