scholarly journals Halobacillus dabanensis sp. nov. and Halobacillus aidingensis sp. nov., isolated from salt lakes in Xinjiang, China

2005 ◽  
Vol 55 (5) ◽  
pp. 1991-1996 ◽  
Author(s):  
W. Y. Liu ◽  
J. Zeng ◽  
L. Wang ◽  
Y. T. Dou ◽  
S. S. Yang
Keyword(s):  
Fatty Acids ◽  
Phylogenetic Analysis ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Sequence Similarity ◽  
Salt Lakes ◽  
Rrna Gene ◽  
Dna Relatedness ◽  
Type Strains

Two moderately halophilic spore-forming bacteria were isolated from salt lakes in the Xinjiang region of China. The two strains, designated AD-6T and D-8T, were aerobic, Gram-positive, rod-shaped and motile by means of peritrichous flagella. Strains AD-6T and D-8T grew in the presence of 0·5–20 % and 0·5–25 % (w/v) NaCl in complex medium, respectively. Their cell-wall peptidoglycan was of the l-orn–d-Asp type. The major menaquinone found in both strains was menaquinone-7 (MK-7). The fatty acid profile contained a large amount of branched fatty acids; the main fatty acids were anteiso-C15 : 0, anteiso-C17 : 0, iso-C15 : 0 and iso-C16 : 0. The DNA G+C content of strains D-8T and AD-6T was 41·4 and 42·2 mol%, respectively. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strains D-8T and AD-6T were located in the genus Halobacillus. Levels of 16S rRNA gene sequence similarity between the isolated strains and the type strains of Halobacillus species were in the range 96·2–99·5 %. DNA–DNA relatedness values of 17·0–52·2 % were found between the two strains and other Halobacillus species. The DNA–DNA relatedness value between D-8T and AD-6T was 50·6 %. On the basis of phenotypic and chemotaxonomic properties, phylogenetic analysis and genomic distinctiveness, strains D-8T and AD-6T should be placed in the genus Halobacillus as two novel species, for which the names Halobacillus dabanensis sp. nov. (type strain=JCM 12772T=CGMCC 1.3704T) and Halobacillus aidingensis sp. nov. (type strain=JCM 12771T=CGMCC 1.3703T) are proposed, respectively.

scholarly journals Transfer of Bacillus halodenitrificans Denariaz et al. 1989 to the genus Virgibacillus as Virgibacillus halodenitrificans comb. nov.

2004 ◽  
Vol 54 (6) ◽  
pp. 2163-2167 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Tae-Kwang Oh ◽  
Yong-Ha Park
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Dna Relatedness ◽  
Gene Similarity ◽  
Type Strains

A Gram-variable, endospore-forming moderately halophilic rod, strain SF-121, was isolated from a marine solar saltern of the Yellow Sea in Korea. The result of 16S rRNA gene sequence analysis showed that strain SF-121 has highest sequence similarity (99·7 %) with the type strain of Bacillus halodenitrificans. Phylogenetic analyses based on 16S rRNA gene sequences revealed that B. halodenitrificans DSM 10037T and strain SF-121 are more closely related to the genus Virgibacillus than to the genus Bacillus. Strain SF-121 and B. halodenitrificans DSM 10037T exhibited 16S rRNA gene similarity levels of 95·3–97·5 % with the type strains of Virgibacillus species and 94·0 % with the type strain of Bacillus subtilis. DNA–DNA relatedness and phenotypic data indicated that B. halodenitrificans DSM 10037T and strain SF-121 are members of the same species. B. halodenitrificans DSM 10037T and strain SF-121 exhibited DNA–DNA relatedness values of 9–11 % with the type strains of Virgibacillus carmonensis and Virgibacillus marismortui. On the basis of the phenotypic, chemotaxonomic, phylogenetic and genetic data, B. halodenitrificans should be reclassified in the genus Virgibacillus as Virgibacillus halodenitrificans comb. nov.

scholarly journals Agromyces allii sp. nov., isolated from the rhizosphere of Allium victorialis var. platyphyllum

2007 ◽  
Vol 57 (3) ◽  
pp. 588-593 ◽  
Author(s):  
Seo-Youn Jung ◽  
Soo-Young Lee ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
Fatty Acids ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
Dna Relatedness ◽  
Type Strains

Two Gram-positive, non-motile, yellow-pigmented, slightly curved and rod-shaped bacterial strains, UMS-62T and UMS-101, were isolated from the rhizosphere of Allium victorialis var. platyphyllum, a variety of wild edible greens grown on Ulleung island, Korea. The taxonomic position of the strains was investigated by a polyphasic approach. Strains UMS-62T and UMS-101 grew optimally at 30 °C and at pH 6.5–7.5. The novel strains contained MK-11 and MK-12 as the predominant menaquinones and rhamnose, ribose and galactose as the major cell-wall sugars. The major cellular fatty acids (>10 % of the total fatty acids) were anteiso-C15 : 0, iso-C16 : 0 and anteiso-C17 : 0. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and an unidentified glycolipid. The DNA G+C contents were 71.1–71.3 mol%. Phylogenetic trees based on 16S rRNA gene sequences showed that strains UMS-62T and UMS-101 belong to the genus Agromyces. Strains UMS-62T and UMS-101 showed a 16S rRNA gene sequence similarity value of 99.9 % and a mean DNA–DNA relatedness level of 91.1 %. Similarity values between the 16S rRNA gene sequences of the two novel strains and the type strains of recognized Agromyces species ranged from 95.2 to 99.1 %. The levels of DNA–DNA relatedness between the two novel strains and the type strains of five phylogenetically related Agromyces species were in the range of 13.4 to 54.2 %. On the basis of phenotypic properties, phylogenetic distinctiveness and genetic data, strain UMS-62T (=KCTC 19181T=JCM 13584T) and strain UMS-101 are classified as representing a novel species in the genus Agromyces, for which the name Agromyces allii sp. nov. is proposed.

scholarly journals Hymenobacter yonginensis sp. nov., isolated from a mesotrophic artificial lake

2011 ◽  
Vol 61 (7) ◽  
pp. 1511-1514 ◽  
Author(s):  
Yochan Joung ◽  
Sung-Heun Cho ◽  
Haneul Kim ◽  
Seung Bum Kim ◽  
Kiseong Joh
Keyword(s):  
Fatty Acids ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Artificial Lake ◽  
Type Strains

A non-motile, red-pigmented bacterium, designated strain HMD1010T, was isolated from an artificial lake located within the campus of Hankuk University of Foreign Studies, Yongin, Korea. A phylogenetic tree based on 16S rRNA gene sequences showed that strain HMD1010T formed a lineage within the genus Hymenobacter and was closely related to the type strains of Hymenobacter rigui (96.7 % sequence similarity) and H. gelipurpurascens (95.6 %). The major fatty acids were C16 : 1ω5c (21.9 %), summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c; 17.2 %), iso-C15 : 0 (14.5 %) and summed feature 4 (anteiso-C17 : 1 B and/or iso-C17 : 1 I; 11.9 %). The DNA G+C content was 60.4 mol%. On the basis of the evidence presented in this study, strain HMD1010T represents a novel species of the genus Hymenobacter, for which the name Hymenobacter yonginensis sp. nov. was proposed. The type strain is HMD1010T ( = KCTC 22745T  = CECT 7546T).

scholarly journals Methanobacterium movens sp. nov. and Methanobacterium flexile sp. nov., isolated from lake sediment

2011 ◽  
Vol 61 (12) ◽  
pp. 2974-2978 ◽  
Author(s):  
Jinxing Zhu ◽  
Xiaoli Liu ◽  
Xiuzhu Dong
Keyword(s):  
Phylogenetic Analysis ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Qaidam Basin ◽  
Sequence Similarity ◽  
Single Cells ◽  
Rrna Gene ◽  
Qinghai Province ◽  
Gram Staining

Two mesophilic methanogenic strains, designated TS-2T and GHT, were isolated from sediments of Tuosu lake and Gahai lake, respectively, in the Qaidam basin, Qinghai province, China. Cells of both isolates were rods (about 0.3–0.5×2–5 µm) with blunt rounded ends and Gram-staining-positive. Strain TS-2T was motile with one or two polar flagella and used only H2/CO2 for growth and methanogenesis. Strain GHT was non-motile, used both H2/CO2 and formate and displayed a variable cell arrangement depending on the substrate: long chains when growing in formate (50 mM) or under high pressure H2 and single cells under low pressure H2. Phylogenetic analysis based on 16S rRNA gene sequences placed the two isolates in the genus Methanobacterium. Strain TS-2T was most closely related to Methanobacterium alcaliphilum NBRC 105226T (96 % 16S rRNA gene sequence similarity). Phylogenetic analysis based on the alpha subunit of methyl-coenzyme M reductase also supported the affiliation of the two isolates with the genus Methanobacterium. DNA–DNA relatedness between the isolates and M. alcaliphilum DSM 3387T was 39–53 %. Hence we propose two novel species, Methanobacterium movens sp. nov. (type strain TS-2T = AS 1.5093T = JCM 15415T) and Methanobacterium flexile sp. nov. (type strain GHT = AS 1.5092T = JCM 15416T).

scholarly journals Oceanibulbus indolifex gen. nov., sp. nov., a North Sea alphaproteobacterium that produces bioactive metabolites

2004 ◽  
Vol 54 (4) ◽  
pp. 1177-1184 ◽  
Author(s):  
Irene Wagner-Döbler ◽  
Holger Rheims ◽  
Andreas Felske ◽  
Aymen El-Ghezal ◽  
Dirk Flade-Schröder ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Phylogenetic Analysis ◽  
Fatty Acid ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
North Sea ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences

A water sample from the North Sea was used to isolate the abundant heterotrophic bacteria that are able to grow on complex marine media. Isolation was by serial dilution and spread plating. Phylogenetic analysis of nearly complete 16S rRNA gene sequences revealed that one of the strains, HEL-45T, had 97·4 % sequence similarity to Sulfitobacter mediterraneus and 96·5 % sequence similarity to Staleya guttiformis. Strain HEL-45T is a Gram-negative, non-motile rod and obligate aerobe and requires sodium and 1–7 % sea salts for growth. It contains storage granules and does not produce bacteriochlorophyll. Optimal growth temperatures are 25–30 °C. The DNA base composition (G+C content) is 60·1 mol%. Strain HEL-45T has Q10 as the dominant respiratory quinone. The major polar lipids are phosphatidyl glycerol, diphosphatidyl glycerol, phosphatidyl choline, phosphatidyl ethanolamine and an aminolipid. The fatty acids comprise 18 : 1ω7c, 18 : 0, 16 : 1ω7c, 16 : 0, 3-OH 10 : 0, 3-OH 12 : 1 (or 3-oxo 12 : 0) and traces of an 18 : 2 fatty acid. Among the hydroxylated fatty acids only 3-OH 12 : 1 (or 3-oxo 12 : 0) appears to be amide linked, whereas 3-OH 10 : 0 appears to be ester linked. The minor fatty acid components (between 1 and 7 %) allow three subgroups to be distinguished in the Sulfitobacter/Staleya clade, placing HEL-45T into a separate lineage characterized by the presence of 3-OH 12 : 1 (or 3-oxo 12 : 0) and both ester- and amide-linked 16 : 1ω7c phospholipids. HEL-45T produces indole and derivatives thereof, several cyclic dipeptides and thryptanthrin. Phylogenetic analysis of 16S rRNA gene sequences and chemotaxonomic data support the description of a new genus and species, to include Oceanibulbus indolifex gen. nov., sp. nov., with the type strain HEL-45T (=DSM 14862T=NCIMB 13983T).

Description of Sulfitobacter sediminilitoris sp. nov., isolated from a tidal flat

2020 ◽  
Vol 367 (9) ◽  
Author(s):  
Sooyeon Park ◽  
Siyu Chen ◽  
Jung-Sook Lee ◽  
Wonyong Kim ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Strain ◽  
Sequence Similarity ◽  
Genomic Analysis ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Type Strains

ABSTRACT A Gram-stain-negative bacterial strain, JBTF-M27T, was isolated from a tidal flat from Yellow Sea, Republic of Korea. Neighbor-joining phylogenetic tree of 16S rRNA gene sequences showed that strain JBTF-M27T fell within the clade comprising the type strains of Sulfitobacter species. Strain JBTF-M27T exhibited the highest 16S rRNA gene sequence similarity (98.8%) to the type strain of S. porphyrae. Genomic ANI and dDDH values of strain JBTF-M27T between the type strains of Sulfitobacter species were less than 76.1 and 19.2%, respectively. Mean DNA-DNA relatedness value between strain JBTF-M27T and the type strain of S. porphyrae was 21%. DNA G + C content of strain JBTF-M27T from genome sequence was 57.8% (genomic analysis). Strain JBTF-M27T contained Q-10 as the predominant ubiquinone and C18:1ω7c as the major fatty acid. The major polar lipids of strain JBTF-M27T were phosphatidylcholine, phosphatidylglycerol and one unidentified aminolipid. Distinguished phenotypic properties, along with the phylogenetic and genetic distinctiveness, revealed that strain JBTF-M27T is separated from recognized Sulfitobacter species. On the basis of the data presented, strain JBTF-M27T ( = KACC 21648T = NBRC 114356T) is considered to represent a novel species of the genus Sulfitobacter, for which the name Sulfitobacter sediminilitoris sp. nov. is proposed.

scholarly journals Streptomyces brevispora sp. nov. and Streptomyces laculatispora sp. nov., actinomycetes isolated from soil

2012 ◽  
Vol 62 (Pt_3) ◽  
pp. 478-483 ◽  
Author(s):  
Tiago Domingues Zucchi ◽  
Byung-yong Kim ◽  
Jenileima Devi Kshetrimayum ◽  
Hang-Yeon Weon ◽  
Soon-Wo Kwon ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Morphological Properties ◽  
Rrna Gene ◽  
Meadow Soil ◽  
Phenotypic Properties ◽  
Dna Relatedness ◽  
Respective Type ◽  
Type Strains

The taxonomic positions of two actinomycetes isolated from a hay meadow soil sample were determined using a polyphasic approach. The isolates had chemical and morphological properties typical of streptomycetes and formed a distinct 16S rRNA gene subclade together with the type strain Streptomyces drozdowiczii NRRL B-24297T. DNA–DNA relatedness studies showed that the three strains belonged to different genomic species. The organisms were also distinguished using a combination of phenotypic properties. On the basis of these data it is proposed that the isolates be assigned to the genus Streptomyces as Streptomyces brevispora sp. nov. and Streptomyces laculatispora sp. nov., with BK160T ( = KACC 21093T  = NCIMB 14702T) and BK166T ( = KACC 20907T  = NCIMB 14703T) as the respective type strains.

Thalassolituus marinus sp. nov., a hydrocarbon-utilizing marine bacterium

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 2234-2238 ◽  
Author(s):  
Ahyoung Choi ◽  
Jang-Cheon Cho
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type

Gram-negative strains, motile by a single polar flagellum, non-pigmented and with a curved rod-shaped morphology, designated IMCC1826T and IMCC1883, were isolated from a surface seawater sample from the Yellow Sea. The two strains shared 99.9 % 16S rRNA gene sequence similarity and showed 92 % DNA–DNA relatedness, suggesting that they belonged to the same genomic species. Phylogenetic analysis based on 16S rRNA gene sequences showed that the two isolates were related most closely to the type strain of Thalassolituus oleivorans with a sequence similarity of 96.4 % and formed a robust phyletic lineage with T. oleivorans . DNA–DNA relatedness between the two strains and T. oleivorans DSM 14913T was 8.7–11.6 %. A putative alkane hydroxylase (alkB) gene was detected in strain IMCC1826T by PCR, but the amino acid sequence of the gene was distantly related to that of the AlkB homologue of T. oleivorans DSM 14913T. As expected from the presence of the alkB gene, the new strains utilized n-tetradecane and n-hexadecane as a carbon source. The DNA G+C content was 54.6–56.0 mol% and the main isoprenoid quinone detected was Q-9. Polar lipids of strain IMCC1826T included diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and amino-group-containing lipids. On the basis of taxonomic data obtained in this study, strains IMCC1826T and IMCC1883 represent a novel species of the genus Thalassolituus , for which the name Thalassolituus marinus sp. nov. is proposed, with IMCC1826T ( = KCTC 23084T = NBRC 107590T) as the type strain.

scholarly journals Jeotgalicoccus halophilus sp. nov., isolated from salt lakes

2011 ◽  
Vol 61 (7) ◽  
pp. 1720-1724 ◽  
Author(s):  
Wen-Yan Liu ◽  
Lin-Lin Jiang ◽  
Chun-Jing Guo ◽  
Su Sheng Yang
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Salt Lakes ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
16S Rrna Gene Sequences ◽  
Dna Relatedness

Two slightly halophilic bacterial strains, C1-52T and YD-9, were isolated from Daban and Aiding salt lakes in Xinjiang, China, respectively. The isolates were Gram-positive, non-endospore-forming, non-motile, facultatively anaerobic cocci. Colonies were pale yellow, and a light pink, diffusible pigment was produced after a few additional days of incubation. The isolates grew optimally with 2–3 % (w/v) NaCl, at pH 7.5 and at 30–35 °C. The peptidoglycan type was l-Lys–Gly3–4–l-Ala(Gly). The menaquinones were MK-7 (83.2 %) and MK-6 (16.8 %). The major fatty acids (>10 %) were anteiso-C15 : 0 and iso-C15 : 0. The DNA G+C content of strains C1-52T and YD-9 was 41.2 and 41.0 mol%, respectively. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strains C1-52T and YD-9 were closely related to Jeotgalicoccus psychrophilus YKJ-115T (98.0 and 97.1 % 16S rRNA gene sequence similarity, respectively), followed by Jeotgalicoccus halotolerans YKJ-101T (97.1 and 96.8 %). Strains C1-52T and YD-9 shared, respectively, 20 and 11 % DNA–DNA relatedness with J. halotolerans JCM 11198T and 8 and 13 % with J. psychrophilus JCM 11199T. DNA–DNA relatedness between the isolates was 91 %. On the basis of phenotypic and phylogenetic distinctiveness, strains C1-52T and YD-9 belonged to the same species, which should be placed in the genus Jeotgalicoccus as a novel species. The name Jeotgalicoccus halophilus sp. nov. is proposed, with the type strain C1-52T ( = CGMCC 1.8911T  = NBRC 105788T).

scholarly journals Polaribacter undariae sp. nov., isolated from a brown alga reservoir

2015 ◽  
Vol 65 (Pt_5) ◽  
pp. 1679-1685 ◽  
Author(s):  
Sooyeon Park ◽  
Ji-Min Park ◽  
Yong-Taek Jung ◽  
Kang Hyun Lee ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Brown Alga ◽  
Type Strain ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Type Strains

A Gram-stain-negative, non-flagellated, non-gliding, aerobic and rod-shaped or ovoid bacterial strain, designated W-BA7T, was isolated from a brown alga reservoir on the South Sea in South Korea. This strain grew optimally at 25 °C, at pH 7.0–8.0 and in the presence of approximately 2.0 % (w/v) NaCl. A neighbour-joining phylogenetic tree based on 16S rRNA gene sequences showed that strain W-BA7T belonged to the genus Polaribacter , clustering coherently with the type strain of Polaribacter sejongensis, showing 99.3 % sequence similarity. Strain W-BA7T exhibited 16S rRNA gene sequence similarity of 93.4–98.6 % to the type strains of the other species of the genus Polaribacter . Strain W-BA7T contained MK-6 as the predominant menaquinone and iso-C15 : 0 3-OH and anteiso-C15 : 0 as the major fatty acids. The major polar lipids of strain W-BA7T were phosphatidylethanolamine, three unidentified lipids, one unidentified glycolipid, one unidentified aminolipid and one unidentified aminophospholipid. The DNA G+C content of strain W-BA7T was 31.9 mol%, and the mean DNA–DNA relatedness with the type strains of four phylogenetically related species of the genus Polaribacter was 12–27 %. Differential phenotypic properties, together with its phylogenetic and genetic distinctiveness, revealed that strain W-BA7T is separated from recognized species of the genus Polaribacter . On the basis of the data presented, strain W-BA7T is considered to represent a novel species of the genus Polaribacter , for which the name Polaribacter undariae sp. nov. is proposed. The type strain is W-BA7T ( = KCTC 42175T = CECT 8670T).

Sign in / Sign up

Export Citation Format

Share Document