scholarly journals Psychroglaciecola arctica gen. nov., sp. nov., isolated from Arctic glacial foreland soil

2014 ◽  
Vol 64 (Pt_5) ◽  
pp. 1817-1824 ◽  
Author(s):  
Zhihao Qu ◽  
Fan Jiang ◽  
Xulu Chang ◽  
Xia Qiu ◽  
Lvzhi Ren ◽  
...  

A novel pink-pigmented, facultatively methylotrophic strain, designated M6-76T, was isolated from glacial foreland soil near Ny-Ålesund, Svalbard Archipelago, Norway. Cells of strain M6-76T were rod-shaped (0.4–0.7×0.8–2.0 µm), Gram-stain-negative, aerobic and motile by a single polar flagellum. Growth occurred at 4–28 °C (optimum 18 °C) and at pH 5–8 (optimum pH 7). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain M6-76T belonged to the family Methylobacteriaceae . The 16S rRNA gene sequence of the novel strain showed 94.6 %, 94.0 % and 93.9 % sequence similarity to those of Methylobacterium salsuginis MRT, Methylobacterium organophilum ATCC 27886T and Microvirga subterranea FaiI4T, respectively. Cells could utilize methanol as the sole source of carbon and energy but not formate. The major respiratory quinone was Q-10. The polar lipids were phosphatidylethanolamine, phosphatidylmonomethylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylcholine and two unknown polar lipids. The predominant cellular fatty acids were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c) and C16 : 0. The DNA G+C content was 67 mol%. The polyphasic data presented in this study indicated that the isolate should be classified as representing a novel species of a new genus within the family Methylobacteriaceae . The name Psychroglaciecola arctica gen. nov., sp. nov. is therefore proposed for the isolate. The type strain of the type species is M6-76T ( = CCTCC AB 2013033T = KACC 17684T).

2012 ◽  
Vol 62 (Pt_9) ◽  
pp. 2056-2061 ◽  
Author(s):  
Yong-Taek Jung ◽  
Sooyeon Park ◽  
Jung-Sook Lee ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon

A Gram-negative, non-motile, ovoid to rod-shaped bacterium, designated HDW-32T, was isolated from seawater of the Yellow Sea, Korea. Strain HDW-32T grew optimally at pH 7–8, at 30 °C and with 2–3 % (w/v) NaCl. Strain HDW-32T exhibited 95.1 % 16S rRNA gene sequence similarity with Nitratireductor basaltis J3T, 94.8 % sequence similarity with Ahrensia kielensis IAM 12618T and <94.5 % with other members of the family Phyllobacteriaceae . In the neighbour-joining, maximum-likelihood and maximum-parsimony trees based on 16S rRNA gene sequences, strain HDW-32T clustered with A. kielensis IAM 12618T. Strain HDW-32T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c as the major fatty acid. Differences in polar lipids, DNA G+C content and other phenotypic properties distinguished strain HDW-32T from A. kielensis JCM 20689T. Strain HDW-32T could also be distinguished from representatives of the genera Nitratireductor and Hoeflea by differences in fatty acids and polar lipids. On the basis of phylogenetic, chemotaxonomic and phenotypic data, strain HDW-32T represents a novel species belonging to a novel genus of the family Phyllobacteriaceae of the class Alphaproteobacteria , for which the name Pseudahrensia aquimaris gen. nov., sp. nov. is proposed. The type strain of the type species is HDW-32T ( = KCTC 23345T  = CCUG 60023T).


Author(s):  
Qing Liu ◽  
Lei-Lei Yang ◽  
Hong-Can Liu ◽  
Guo-Qing Zhang ◽  
Yu-Hua Xin

A novel Gram-stain-negative, rod-shaped, yellow bacterium, designated as LB1R16T, was isolated from the Laigu glacier on the Tibetan Plateau, PR China. Strain LB1R16T was catalase-positive, oxidase-negative and grew at 0–28 °C, pH 6.0–8.0 and in the absence of NaCl. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain LB1R16T belongs to the family Sphingosinicellaceae but formed an independent lineage. The highest level of 16S rRNA gene sequence similarities were found to Polymorphobacter arshaanensis DJ1R-1T (95.24 %), Sphingoaurantiacus capsulatus YLT33T (94.78 %) and Sandarakinorhabdus limnophila DSM 17366T (94.67 %). The genomic DNA G+C content was 68.8 mol%. The main cellular fatty acids were summed feature 8 (C18 : 1  ω7c/C18 : 1  ω6c), summed feature 3 (C16 : 1  ω7c/C16 : 1  ω6c), C16 : 0 and C12 : 0-OH. The respiratory quinone was ubiquinone-10. The polar lipids were phosphatidylethanolamine, phosphatidylglycerol, one sphingoglycolipid, one unidentified aminolipid, one unidentified phospholipid and two unidentified polar lipids, which were different from the type strains of Polymorphobacter arshaanensis , Sphingoaurantiacus capsulatus and Sandarakinorhabdus limnophila . Based on a polyphasic approach, a novel species of a new genus, Glacieibacterium frigidum gen. nov., sp. nov., within the family Sphingosinicellaceae is proposed. The type strain is LB1R16T (=CGMCC 1.11941T=NBRC 113873T).


2012 ◽  
Vol 62 (Pt_9) ◽  
pp. 2163-2168 ◽  
Author(s):  
Yong-Taek Jung ◽  
Ji-Hoon Kim ◽  
So-Jung Kang ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon

A Gram-staining-negative, non-flagellated, non-gliding and pleomorphic bacterial strain, designated DPG-25T, was isolated from seawater in a seaweed farm in the South Sea in Korea and its taxonomic position was investigated by using a polyphasic approach. Strain DPG-25T grew optimally at 25 °C, at pH 7.0–7.5 and in the presence of 2 % (w/v) NaCl. Flexirubin-type pigments were not produced. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain DPG-25T formed a cluster with the type strains of Actibacter sediminis , Aestuariicola saemankumensis and Lutimonas vermicola . Strain DPG-25T exhibited 16S rRNA gene sequence similarity values of 95.3, 93.1 and 93.6 % to the type strains of Actibacter sediminis , Aestuariicola saemankumensis and L. vermicola , respectively. Strain DPG-25T contained MK-6 as the predominant menaquinone and iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The major polar lipids detected in strain DPG-25T were phosphatidylethanolamine and one unidentified lipid. The DNA G+C content was 39.9 mol%. Differential phenotypic properties and the phylogenetic distinctiveness of strain DPG-25T demonstrated that this strain is distinguishable from Actibacter sediminis , Aestuariicola saemankumensis and L. vermicola . On the basis of the data presented here, strain DPG-25T represents a novel species in a novel genus of the family Flavobacteriaceae , for which the name Namhaeicola litoreus gen. nov., sp. nov. is proposed. The type strain of Namhaeicola litoreus is DPG-25T ( = KCTC 23702T  = CCUG 61485T).


Author(s):  
Zhaobin Huang ◽  
Xiaomei Wei ◽  
Qiliang Lai ◽  
Shiyong Chen ◽  
Jianjun Yuan

Two marine bacterial strains, designated S2-4-21T and MT2-5-19, were isolated from two tidal flat sediments of cordgrass Spartina alterniflora and adjacent oyster culture field in Quanzhou bay, China, respectively. Both strains were Gram-staining-negative, rod-shaped, non-flagellated, non-motile, aerobic, had NaCl requirements, and contained carotenoid and flexirubin pigments. The 16S rRNA gene sequence similarity (99.8%), average nucleotide identity value (99.4%) and average amino acid identity (99.3%) between strain S2-4-21T and strain MT2-5-19 strongly supported that they belonged to a single species. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain S2-4-21T and strain MT2-5-19 formed a monophyletic branch affiliated to the family Flavobacteriaceae , sharing similarities of 94.6% with Euzebyella marina CY01T and E. saccharophila 7SM30T, and of 94.1 and 92.8% with E. algicola MEBiC 12267T and Pseudozobellia thermophile DSM 19858T, respectively. Phylogenomic analysis based on the whole genome sequences supported that the two strains formed a distinct monophyletic clade within Flavobacteriaceae members, which was phylogenetically different from the clades of Euzebyella and Pseudozobellia . The major respiratory quinone was menaquinone MK-6. The major fatty acids (>10%) consisted of C15 : 0 iso, C16 : 0, summed feature 9 (C17 : 1 iso ω9c/C16 : 0 10-methyl) and C17 : 0 iso 3-OH. The polar lipid profiles of strain S2-4-21T and strain MT2-5-19 are identical, including phosphatidylethanolamine, four unidentified aminolipids, and four unidentified lipids. The genomic size was 4.9–5.0 Mb with genomic DNA G+C content of 41.5 mol%. Based on the above characteristics, strains S2-4-21T and MT2-5-19 represented a novel species of a novel genus in the family Flavobacteriaceae . Thus, Pareuzebyella sediminis gen. nov. sp. nov. is proposed with type strain S2-4-21T (=MCCC 1K03818T=KCTC 72152T), and another strain MT2-5-19 (=KCTC 72539=MCCC 1K03874).


2014 ◽  
Vol 64 (Pt_6) ◽  
pp. 1876-1881 ◽  
Author(s):  
Sooyeon Park ◽  
Sung-Min Won ◽  
Doo-Sang Park ◽  
Jung-Hoon Yoon

A Gram-stain-negative, non-motile, rod-shaped bacterial strain, AH-M5T, which was isolated from a tidal flat sediment at Aphae Island in South Korea, was characterized taxonomically. Strain AH-M5T grew optimally at 25 °C, at pH 7.0–8.0 and in presence of 2.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain AH-M5T clustered coherently with the type strains of Mangrovimonas yunxiaonensis and Meridianimaribacter flavus , showing 93.4–94.3 % sequence similarity. The novel strain exhibited 16S rRNA gene sequence similarity values of less than 93.4 % to the type strains of other recognized species. Strain AH-M5T contained MK-6 as the predominant menaquinone and iso-C15 : 1 G, iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) as the major fatty acids. The polar lipid profile of strain AH-M5T containing phosphatidylethanolamine and one unidentified lipid as major components was differentiated from those of the type strains of Mangrovimonas yunxiaonensis and Meridianimaribacter flavus . The DNA G+C content of strain AH-M5T was 34.8 mol%. Differential phenotypic properties, together with the phylogenetic and chemotaxonomic data, demonstrated that strain AH-M5T is distinguished from Mangrovimonas yunxiaonensis and Meridianimaribacter flavus . On the basis of the data presented, strain AH-M5T is considered to represent a novel genus and species within the family Flavobacteriaceae , for which the name Seonamhaeicola aphaedonensis gen. nov., sp. nov. is proposed. The type strain of the type species is AH-M5T ( = KCTC 32578T = CECT 8487T).


Author(s):  
Rui Yin ◽  
Yan-Jun Yi ◽  
Zhuo Chen ◽  
Guan-Jun Chen ◽  
Yan-Xia Zhou ◽  
...  

A Gram-stain-negative, aerobic, yellow, non-motile, rod-shaped and alginate-degrading bacterium, designated Dm15T, was isolated from marine alga collected in Weihai, PR China. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain Dm15T represents a distinct line of the family Flavobacteriaceae . Strain Dm15T had the highest 16S rRNA gene sequence similarity to its closest phylogenetic neighbour Arcticiflavibacter luteus (96.7 %) and 93.7–96.4 % sequence similarity to other phylogenetic neighbours ( Bizionia paragorgiae , Winogradskyella thalassocola , Ichthyenterobacterium magnum , Psychroserpens burtonensis and Arcticiflavibacter luteus ) in the family Flavobacteriaceae . The novel isolate was able to grow at 10–40 °C (optimum, 30–33 °C), pH 7.0–9.0 (optimum, pH 7.0–7.5) and with 0.5–6.0 % NaCl (optimum 2.0–3.0 %, w/v). It could grow at 40 °C, and degrade alginate and cellulose, which were different from the neighbour genera. The draft genome consisted of 3395 genes with a total length of 3 798 431 bp and 34.1mol% G+C content. Especially, there were some specific genes coding for cellulase and alginate lyase, which provided a basis for the above phenotypic characteristics. The strain's genome sequence showed 71.1–80.2 % average amino acid identity values and 71.8–77.7 % average nucleotide identity values compared to the type strains of related genera within the family Flavobacteriaceae . It shared digital DNA–DNA hybridization identity of 19.8 and 20.9 % with I. magnum and A. luteus , respectively. The sole menaquinone was MK-6. The major fatty acids were iso-C15 : 0 and iso-C15 : 1 G. The polar lipids included six unidentified polar lipids, four unidentified aminolipids and phosphatidylethanolamine. Based on the results of phenotypic, chemotaxonomic and phylogenetic analyses, strain Dm15T represents a novel species of a new genus in the family Flavobacteriaceae , phylum Bacteroidetes , for which the name Flavihalobacter algicola gen. nov., sp. nov. is proposed. The type strain is Dm15T (KCTC 42256T=CICC 23815T).


2012 ◽  
Vol 62 (Pt_8) ◽  
pp. 1850-1856 ◽  
Author(s):  
Herbert Seiler ◽  
Anne Bleicher ◽  
Hans-Jürgen Busse ◽  
Josef Hüfner ◽  
Siegfried Scherer

A novel halophilic, Gram-reaction-negative, strictly aerobic, non-motile, rod-shaped and oxidase- and catalase-positive bacterial strain, designated WCC 4520T, was isolated from a semi-hard, Raclette-type cheese. The colonies were yellow–orange; flexirubin-type pigments were not found. The strain hydrolysed gelatin, hippurate, tyrosine and Tweens 20 and 80. Optimal growth was observed with 6–8 % (w/v) NaCl, at pH 7–8 and at 27–30 °C. The genomic DNA G+C content was 33.6 mol%. In phylogenetic analysis based on 16S rRNA gene sequences, strain WCC 4520T appeared to be a member of the family Flavobacteriaceae and the closest phylogenetic neighbours were identified as Psychroflexus gondwanensis DSM 5423T (94.0 % 16S rRNA gene sequence similarity) and Psychroflexus salinarum CCUG 56752T (94.0 %). The predominant cellular fatty acids were iso-C15 : 0, anteiso-C15 : 0, iso-C15 : 1 G and iso-C17 : 0 3-OH. The only detected quinone was MK-6 and the major polar lipids were phosphatidylethanolamine, an unidentified aminolipid and an unidentified polar lipid. Minor polar lipids and traces of polyamines were also detected. On the basis of the data presented, strain WCC 4520T represents a novel species of the genus Psychroflexus , for which the name Psychroflexus halocasei sp. nov. is proposed. The type strain is WCC 4520T ( = LMG 25857T = CCUG 59705T).


2013 ◽  
Vol 63 (Pt_5) ◽  
pp. 1696-1701 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Mi-Hwa Lee ◽  
Yong-Taek Jung

A Gram-negative, non-spore-forming, aerobic, non-flagellated, non-gliding rod, designated YCS-9T, was isolated from seawater in the South Sea, South Korea. Strain YCS-9T grew optimally at 25 °C, at pH 7.0–8.0 and in the presence of 2 % (w/v) NaCl. In the neighbour-joining phylogenetic tree based on 16S rRNA gene sequences, strain YCS-9T fell within the family Flavobacteriaceae and formed a cluster with Fulvibacter tottoriensis MTT-39T with a bootstrap resampling value of 75.4 %. Strain YCS-9T showed 92.3 % 16S rRNA gene sequence similarity to F. tottoriensis MTT-39T and 89.0–93.7 % sequence similarity to the other strains used in the phylogenetic analysis. Strain YCS-9T contained MK-6 as the only menaquinone and iso-C15 : 1 G, iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The major polar lipids were one unidentified lipid and one unidentified aminolipid. The DNA G+C content was 34.2 mol%. Strain YCS-9T could be differentiated from F. tottoriensis NBRC 102624T by differences in fatty acid composition, polar lipid profile and some phenotypic properties. On the basis of phenotypic, chemotaxonomic and phylogenetic data, strain YCS-9T represents a novel species in a new genus within the phylum Bacteroidetes , for which the name Pseudofulvibacter geojedonensis gen. nov., sp. nov. is proposed. The type strain of Pseudofulvibacter geojedonensis is YCS-9T ( = KCTC 23884T  = CCUG 62114T). An emended description of the genus Fulvibacter is also presented.


2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 570-577 ◽  
Author(s):  
Masao Sakai ◽  
Daigo Deguchi ◽  
Akifumi Hosoda ◽  
Tomohiro Kawauchi ◽  
Makoto Ikenaga

A thermophilic, agar-degrading bacterium, strain FAB2T, was isolated from sewage sludge compost. According to phylogenetic analysis based on 16S rRNA gene sequences, strain FAB2T belonged to the family Paenibacillaceae within the phylum Firmicutes . However, FAB2T was different enough at the genus level from closely related species. The percentages of 16S rRNA gene sequence similarity with related organisms were 90.4 % for Thermobacillus xylanilyticus , 91.8 % for Paenibacillus barengoltzii , 89.4 % for Cohnella lupini , 90.1 % for Fontibacillus aquaticus , and 89.0 % for Saccharibacillus sacchari . Morphological and physiological analyses revealed that the strain was motile, rod-shaped, Gram-stain-positive, aerobic and able to form oval endospores in swollen sporangia. Ammonium was required as a nitrogen source while nitrate, nitrite, urea and glutamate were not utilized. Catalase and oxidase activities were weakly positive and positive, respectively. The bacterium grew in the temperature range of 50–65 °C and in media with pH 7.5 to 9.0. Optimal growth occurred at 60 °C and pH 8.0–8.6. Growth was inhibited at pH≤7.0 and NaCl concentrations ≥2.5 % (w/v). In chemotaxonomic characterization, MK-7 was identified as the dominant menaquinone. Major fatty acids were iso-C16 : 0 and C16 : 0. Dominant polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. Phosphatidylcholine was present in a moderate amount. The diamino acid in the cell wall was meso-diaminopimelic acid. The G+C content of the genomic DNA was 49.5 mol% in a nucleic acid study. On the basis of genetic and phenotypic characteristics, strain FAB2T ( = NBRC 109510T = KCTC 33130T) showed characteristics suitable for classification as the type strain of a novel species of a new genus in the family Paenibacillaceae , for which the name Ammoniibacillus agariperforans gen. nov., sp. nov. is proposed.


2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 4115-4119 ◽  
Author(s):  
Parisa Zarparvar ◽  
Mohammad Ali Amoozegar ◽  
Mahdi Moshtaghi Nikou ◽  
Peter Schumann ◽  
Antonio Ventosa

A halophilic actinomycete, strain R4S8T, was isolated from soil of Inche-Broun hypersaline wetland in the north of Iran. The isolate grew aerobically at temperatures of 30–50 °C (optimum 40 °C), pH 6–10 (optimum pH 7.0) and in the presence of 1–15 % (w/v) NaCl (optimum 3–5 %). It formed short and straight to moderately flexuous aerial mycelium without motile elements. The cell wall of strain R4S8T contained meso-diaminopimelic acid as the diamino acid without any diagnostic sugars. The polar lipid pattern consisted of phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylserine, phosphatidylmonomethylethanolamine two unknown phospholipids and one unknown aminophospholipid. It synthesized anteiso-C15 : 0 (44.8 %), iso-C15 : 0 (28.8 %) and iso-C14 : 0 (8.5 %) as major fatty acids. MK-6 was the predominant respiratory quinone. The G+C content of the genomic DNA was 52.6 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain R4S8T belongs to the family Thermoactinomycetaceae and showed the closest 16S rRNA gene sequence similarity with Desmospora activa IMMIB L-1269T (95.5 %) and Marininema mesophilum SCSIO 10219T (95.3 %). On the basis of phylogenetic analysis and phenotypic characteristics, strain R4S8T represents a novel species in a new genus within the family Thermoactinomycetaceae , for which the name Salinithrix halophila gen. nov., sp. nov. is proposed. The type strain of the type species is R4S8T ( = IBRC-M 10813T = CECT 8506T).


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