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 ◽  
...  

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).

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4396-4401 ◽  
Author(s):  
Jung-Eun Yang ◽  
Heung-Min Son ◽  
Jung Min Lee ◽  
Heon-Sub Shin ◽  
Sang-Yong Park ◽  
...  

A Gram-reaction-negative, strictly aerobic, non-motile, non-spore-forming and rod-shaped bacterial strain, designated THG-45T, was isolated from soil of a ginseng field of Pocheon province in the Republic of Korea and its taxonomic position was investigated by a polyphasic approach. Growth occurred at 4–30 °C, at pH 5.5–9.0 and with 0–2 % (w/v) NaCl on nutrient agar. On the basis of 16S rRNA gene sequence similarity, strain THG-45T was shown to belong to the genus Pedobacter and was related to Pedobacter borealis G-1T (98.8 %), P. alluvionis NWER-II11T (97.9 %), P. agri PB92T (97.9 %), P. terrae DS-57T (97.5 %), P. suwonensis 15-52T (97.4 %), P. sandarakinus DS-27T (97.0 %) and P. soli 15-51T (97.0 %), but DNA relatedness between strain THG-45T and these strains was below 36 %. The G+C content of the genomic DNA was 39 mol%. The only isoprenoid quinone detected in strain THG-45T was menaquinone-7 (MK-7). The predominant fatty acids were iso-C15 : 0, summed feature 3 (comprising C16 : 1ω6c and/or C16 : 1ω7c) and iso-C17 : 0 3-OH, and the major polar lipids were phosphatidylethanolamine and an unidentified aminophosphoglycolipid. Phenotypic data and phylogenetic inference supported the affiliation of strain THG-45T to the genus Pedobacter , and a number of biochemical tests differentiated strain THG-45T from the recognized species of the genus Pedobacter . Therefore, the novel isolate represents a novel species, for which the name Pedobacter ginsenosidimutans sp. nov. is proposed, with THG-45T as the type strain ( = KACC 14530T = JCM 16721T).


2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 844-848 ◽  
Author(s):  
Maryam Bagheri ◽  
Mohammad Ali Amoozegar ◽  
Peter Schumann ◽  
Maryam Didari ◽  
Malihe Mehrshad ◽  
...  

A novel Gram-stain-positive, moderately halophilic bacterium, designated strain G8BT, was isolated from water of the hypersaline lake Aran-Bidgol in Iran and characterized taxonomically using a polyphasic approach. Cells of strain G8BT were rod-shaped, motile and produced oval endospores at a terminal position in swollen sporangia. Strain G8BT was strictly aerobic, catalase-positive and oxidase-negative. The strain was able to grow at NaCl concentrations of 0.5–12.5 % (w/v), with optimum growth occurring at 5–7.5 % (w/v) NaCl. The optimum temperature and pH for growth were 35–40 °C and pH 7.5–8.0, respectively. On the basis of 16S rRNA gene sequence analysis, strain G8BT was shown to belong to the genus Ornithinibacillus within the phylum Firmicutes and showed closest phylogenetic similarity with Ornithinibacillus bavariensis WSBC 24001T (97.6 %). The DNA G+C content of strain G8BT was 36.9 mol%. The major cellular fatty acids of strain G8BT were anteiso-C15 : 0, anteiso-C17 : 0, iso-C15 : 0 and iso-C16 : 0, and its polar lipid pattern consisted of phosphatidylglycerol, diphosphatidylglycerol, four unknown phospholipids and an unknown aminolipid. The isoprenoid quinones were MK-7 (98 %) and MK-8 (2 %). Strain G8BT contained a peptidoglycan of type A4β, l-Orn–d-Asp. All these features confirmed the placement of isolate G8BT within the genus Ornithinibacillus . DNA–DNA hybridization experiments revealed a low level of relatedness (6 %) between strain G8BT and Ornithinibacillus bavariensis DSM 15681T. On the basis of evidence from this study, a novel species of the genus Ornithinibacillus , Ornithinibacillus halophilus sp. nov., is proposed, with strain G8BT ( = IBRC-M 10683T = KCTC 13822T) as the type strain.


2013 ◽  
Vol 63 (Pt_1) ◽  
pp. 345-351 ◽  
Author(s):  
Mohammad Ali Amoozegar ◽  
Maryam Bagheri ◽  
Maryam Didari ◽  
Seyed Abolhassan Shahzedeh Fazeli ◽  
Peter Schumann ◽  
...  

A novel Gram-positive, moderately halophilic bacterium, designated strain X4BT, was isolated from soil around the hypersaline lake Aran-Bidgol in Iran and characterized taxonomically using a polyphasic approach. Cells of strain X4BT were motile rods and formed ellipsoidal endospores at a terminal or subterminal position in swollen sporangia. Strain X4BT was a strictly aerobic bacterium, catalase- and oxidase-positive. The strain was able to grow at NaCl concentrations of 0.5–22.5 % (w/v), with optimum growth occurring at 7.5 % (w/v) NaCl. The optimum temperature and pH for growth were 35 °C and pH 7.0. Analysis of 16S rRNA gene sequence revealed that strain X4BT is a member of the family Bacillaceae , constituting a novel phyletic lineage within this family. Highest sequence similarities were obtained with the 16S rRNA gene sequences of the type strains of Sediminibacillus albus (96.0 %), Paraliobacillus ryukyuensis (95.9 %), Paraliobacillus quinghaiensis (95.8 %) and Sediminibacillus halophilus (95.7 %), respectively. The DNA G+C content of this novel isolate was 35.2 mol%. The major cellular fatty acids of strain X4BT were anteiso-C15 : 0 and anteiso-C17 : 0 and its polar lipid pattern consisted of diphosphatidylglycerol, phosphatidylglycerol, two aminolipids, an aminophospholipid and an unknown phospholipid. The isoprenoid quinones were MK-7 (89 %) and MK-6 (11 %). The peptidoglycan contained meso-diaminopimelic acid as the diagnostic diamino acid. On the basis of 16S rRNA gene sequence analysis in combination with chemotaxonomic and phenotypic data, strain X4BT represents a novel species in a new genus in the family Bacillaceae , order Bacillales for which the name Saliterribacillus persicus gen. nov., sp. nov. is proposed. The type strain of the type species (Saliterribacillus persicus) is X4BT ( = IBRC-M 10629T = KCTC 13827T).


2013 ◽  
Vol 63 (Pt_5) ◽  
pp. 1639-1645 ◽  
Author(s):  
Lei Zhang ◽  
Xihui Shen ◽  
Yingbao Liu ◽  
Shiqing Li

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).


2012 ◽  
Vol 62 (Pt_7) ◽  
pp. 1528-1535 ◽  
Author(s):  
Dong-Heon Lee ◽  
Sun Ja Cho ◽  
Suk Min Kim ◽  
Sun Bok Lee

A Gram-staining-negative, strictly aerobic, non-motile, yellow-pigmented bacterium, designated strain M091T, was isolated from seawater at Damupo beach in Pohang, Republic of Korea, and investigated using a polyphasic taxonomic approach. The novel strain grew optimally at 25 °C, pH 7.0–8.0, and in the presence of 3 % (w/v) NaCl. In a phylogenetic analysis based on 16S rRNA gene sequences, strain M091T formed a lineage within the family Flavobacteriaceae that was distinct from the most closely related genera of Flaviramulus (95.1 % sequence similarity), Algibacter (94.9–93.9 %), Mariniflexile (94.8–94.2 %), Winogradskyella (94.8–93.2 %), Lacinutrix (94.7–93.8 %) and Tamlana (94.7–92.9 %). The polar lipid profile of the novel strain comprised phosphatidylethanolamine, two unidentified aminolipids, one unidentified phospholipid and seven unidentified lipids. The predominant cellular fatty acids were iso-C15 : 0 (20.5 %), iso-C17 : 0 3-OH (15.4 %), iso-C15 : 0 3-OH (12.4 %), C15 : 0 (10.9 %) and iso-C15 : 1 G (9.9 %). The genomic DNA G+C content of strain M091T was 34.4 mol% and the major respiratory quinone was MK-6. Based on phenotypic and genotypic data, strain M091T represents a new genus and novel species in the family Flavobacteriaceae , for which the name Postechiella marina gen. nov., sp. nov. is proposed. The type strain of the type species is M091T ( = KCTC 23537T = JCM 17630T).


2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3769-3776 ◽  
Author(s):  
Lei Zhang ◽  
Yang Wang ◽  
Linfang Wei ◽  
Yao Wang ◽  
Xihui Shen ◽  
...  

A light-yellow-coloured bacterium, designated strain PTJT-5T, was isolated from the stem of Smilacina japonica A. Gray collected from Taibai Mountain in Shaanxi Province, north-west China, and was subjected to a taxonomic study by using a polyphasic approach. The novel isolate grew optimally at 25–28 °C and pH 6.0–7.0. Flexirubin-type pigments were produced. Cells were Gram-reaction-negative, strictly aerobic, rod-shaped and non-motile. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain PTJT-5T was a member of the phylum Bacteroidetes , exhibiting the highest sequence similarity to Lacibacter cauensis NJ-8T (87.7 %). The major cellular fatty acids were iso-C15 : 0, iso-C15 : 1 G, iso-C17 : 0 and iso-C17 : 0 3-OH. The only polyamine was homospermidine and the major polar lipid was phosphatidylethanolamine. The only respiratory quinone was MK-7 and the DNA G+C content was 40.3 mol%. Based on the phenotypic, phylogenetic and genotypic data, strain PTJT-5T is considered to represent a novel species of a new genus in the family Chitinophagaceae , for which the name Taibaiella smilacinae gen. nov., sp. nov. is proposed. The type strain of Taibaiella smilacinae is PTJT-5T ( = CCTCC AB 2013017T = KCTC 32316T). An emended description of Flavihumibacter petaseus is also proposed.


2014 ◽  
Vol 64 (Pt_8) ◽  
pp. 2753-2757 ◽  
Author(s):  
Tae-Su Kim ◽  
Ji-Hye Han ◽  
Yochan Joung ◽  
Seung Bum Kim

A novel Gram-stain-positive, non-spore-forming, pale yellow, irregular rod-shaped bacterium designated strain HWE2-01T was isolated from the surface-sterilized root of horseweed (Conyza canadensis). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain HWE2-01T belongs to the family Microbacteriaceae and showed sequence similarity levels of 97.1–97.7 % with species of the genus Salinibacterium , 95.9–97.6 % with species of the genus Leifsonia and 97.1 % with Homoserinimonas aerilata . The highest sequence similarity (97.7 %) was with Salinibacterium xinjiangense 0543T. The genomic DNA G+C content of the novel strain was 68.1 mol%. The predominant cellular fatty acid of strain HWE2-01T was anteiso-C15 : 0, major menaquinones were MK-10, MK-9 and MK-11, and diagnostic polar lipids were diphosphatidylglycerol and phosphatidylglycerol. The peptidoglycan of the novel strain contained 2,4-diaminobutyric acid, alanine, glycine and glutamic acid. The cell-wall sugars of strain HWE2-01T were galactose, mannose and rhamnose. The murein was of the acetyl type. Based on the results of the phenotypic and phylogenetic analysis, strain HWE2-01T differed in some respects from other members of the family Microbacteriaceae . Therefore, strain HWE2-01T is proposed to represent a novel species of a new genus in the family Microbacteriaceae with the name Conyzicola lurida gen. nov., sp. nov. (type strain = HWE2-01T = KCTC 29231T = JCM 19257T).


Author(s):  
Vadim Kevbrin ◽  
Yulia Boltyanskaya ◽  
Veronika Koziaeva ◽  
Maria Uzun ◽  
Denis Grouzdev

A prosthecate bacterial strain, designated G-192T, was isolated from decaying biomass of a haloalkaliphilic cyanobacterium Geitlerinema sp. Z-T0701. The cells were aerobic, Gram-negative, non-endospore-forming and dimorphic, occurring either as sessile bacteria with a characteristic stalk or as motile flagellated cells. The strain utilized a limited range of substrates, mostly peptonaceous, but was able to degrade whole proteins. Growth occurred at 5–46 °C (optimum, 35–40 °C), pH 7.3–10.3 (optimum, pH 8.0–9.0), 0–14 % NaCl (v/w; optimum, 2.0–6.0 %, v/w). The G+C content of the genomic DNA of strain G-192T was 66.8%. Phylogenetic analysis of the 16S rRNA gene sequence revealed that strain G-192T formed a distinct evolutionary lineage within the family Hyphomonadaceae . Strain G-192T showed the highest 16S rRNA sequence similarity to Glycocaulis profundi ZYF765T (95.2%), Oceanicaulis stylophorae GISW-4T (94.2%) and Marinicauda salina WD6-1T (95.5%). The major cellular fatty acids (>5% of the total) were C18:1 ω9c, C18:0 and 11-methyl-C18:1 ω7c. The major polar lipids were glycolipids and phospholipids. The only respiratory quinone was ubiquinone-10 (Q-10). Based on polyphasic results including phylogenomic data, the novel strain could be distinguished from other genera, which suggests that strain G-192T represents a novel species of a new genus, for which the name Alkalicaulis satelles gen. nov., sp. nov. is proposed. The type strain is G-192T (=VKM B-3306T=KCTC 72746T). The strain is the first representative of the stalked bacteria associated with a haloalkaliphilic cyanobacterium. Based on phylogenomic indices and phenotypic data, it is proposed to evolve two novel families Maricaulaceae fam. nov. and Robiginitomaculaceae fam. nov. out of the current family Hyphomonadaceae . In addition, it is proposed to place the first two families in the novel order Maricaulales ord. nov. and novel order Hyphomonadales ord. nov. is proposed to accommodate the family Hyphomonadaceae .


2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1229-1234 ◽  
Author(s):  
Maryam Didari ◽  
Mohammad Ali Amoozegar ◽  
Maryam Bagheri ◽  
Maliheh Mehrshad ◽  
Peter Schumann ◽  
...  

A novel Gram-positive, slightly halophilic bacterium, designated strain B48T, was isolated from soil around the hypersaline lake Aran-Bidgol in Iran and characterized taxonomically using a polyphasic approach. Cells of strain B48T were non-motile rods and produced ellipsoidal endospores at a central or subterminal position in swollen sporangia. Strain B48T was a strictly aerobic bacterium, catalase- and oxidase-positive. The strain was able to grow at NaCl concentrations of 0.5–10.0 % (w/v), with optimum growth occurring at 2.5 % (w/v) NaCl. The optimum temperature and pH for growth were 35 °C and pH 7.5–8.0, respectively. On the basis of 16S rRNA gene sequence analysis, strain B48T was shown to belong to the genus Bacillus within the phylum Firmicutes and showed the closest phylogenetic similarity to the species Bacillus foraminis CV53T (97.4 %) and Bacillus purgationiresistens DS22T (96.9 %). The DNA G+C content of this new isolate was 40.1 mol%. The major cellular fatty acids of strain B48T were iso-C15 : 0 and anteiso-C15 : 0, and its polar lipid pattern consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, an aminophospholipid and two unknown phospholipids. The only quinone present was menaquinone 7 (MK-7). The peptidoglycan contained meso-diaminopimelic acid as the diagnostic diamino acid. All these features confirm the placement of isolate B48T within the genus Bacillus . DNA–DNA hybridization experiments revealed a low level of relatedness between strain B48T and Bacillus foraminis IBRC-M 10625T (8.1 %). On the basis of polyphasic evidence from this study, a new species of the genus Bacillus , Bacillus persicus sp. nov., is proposed, with strain B48T ( = IBRC-M 10115T = DSM 25386T = CECT 8001T) as the type strain.


2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3324-3329 ◽  
Author(s):  
Mohammad Ali Amoozegar ◽  
Maryam Didari ◽  
Maryam Bagheri ◽  
Seyed Abolhassan Shahzadeh Fazeli ◽  
Peter Schumann ◽  
...  

A Gram-staining-positive, endospore-forming, rod-shaped, strictly aerobic, slightly halophilic bacterium, designated strain A24T, was isolated from the hypersaline lake Aran-Bidgol in Iran. Cells of strain A24T were motile rods and produced oval endospores at a terminal position in swollen sporangia. Strain A24T was catalase and oxidase positive. Growth occurred with between 0.5 and 7.5 % (w/v) NaCl and the isolate grew optimally at 3 % (v/w) NaCl. The optimum temperature and pH for growth were 35 °C and pH 8.0, respectively. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain A24T belonged to the genus Bacillus within the phylum Firmicutes and showed the closest phylogenetic similarity with the species Bacillus alkalitelluris BA288T (97.2 %), Bacillus herbersteinensis D-1,5aT (96.0 %) and Bacillus litoralis SW-211T (95.6 %). The G+C content of the genomic DNA of this strain was 35.9 mol%. The polar lipid pattern of strain A24T consisted of phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine and two unknown phospholipids. The major cellular fatty acids of strain A24T were anteiso-C15 : 0 and iso-C15 : 0. The respiratory quinones were MK-7 (94 %) and MK-6 (4 %). The peptidoglycan contained meso-diaminopimelic acid as the diagnostic diamino acid. All these features confirm the placement of isolate A24T within the genus Bacillus . DNA–DNA hybridization experiments revealed a relatedness of 8 % between strain A24T and Bacillus alkalitelluris IBRC-M 10596T, supporting its placement as a novel species. Phenotypic characteristics, phylogenetic analysis and DNA–DNA relatedness data suggest that this strain represents a novel species of the genus Bacillus , for which the name Bacillus salsus sp. nov. is proposed. The type strain is strain A24T ( = IBRC-M 10078 T = KCTC 13816T).


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