scholarly journals Shewanella electrodiphila sp. nov., a psychrotolerant bacterium isolated from Mid-Atlantic Ridge deep-sea sediments

2015 ◽  
Vol 65 (Pt_9) ◽  
pp. 2882-2889 ◽  
Author(s):  
Jinwei Zhang ◽  
J. Grant Burgess
Keyword(s):  
Fatty Acids ◽  
Type Strain ◽  
Anaerobic Respiration ◽  
Anaerobic Growth ◽  
Rrna Gene ◽  
Carbon Cloth ◽  
Gene Sequence Analysis ◽  
Mid Atlantic Ridge ◽  
Psychrotolerant Bacterium ◽  
Type Strains

Strains MAR441T and MAR445 were isolated from Mid-Atlantic Ridge sediments from a depth of 2734 m, and were found to belong to the genus Shewanella. The strains were rod-shaped, pigmented, non-motile and capable of anaerobic growth either by fermentation of carbohydrates or by anaerobic respiration. The strains utilized a variety of electron acceptors, including nitrate and ferric compounds, and could utilize peptone when grown anaerobically in a two-chambered microbial fuel cell, which used carbon cloth electrodes and delivered a stable power output of ∼150–200 mW m− 2. The major fatty acids were typical of the genus Shewanella, with major components C13 : 0, iso-C13 : 0, iso-C15 : 0, C16 : 0, C16 : 1ω7c, C18 : 1ω7c and C20 : 5ω3 fatty acids. The DNA G+C content of strains MAR441T and MAR445 was 42.4 mol%. 16S rRNA gene sequence analysis indicated that strains MAR441T and MAR445 were most closely related to Shewanella olleyana (sequence similarities 97.9  % to the type strain). DNA–DNA hybridization demonstrated only 15.6–37.2  % relatedness between strain MAR441T and the type strains of related species of the genus Shewanella. Phenotypic characteristics confirmed that these isolates constituted a novel species of the genus Shewanella, for which the name Shewanella electrodiphila sp. nov. is proposed; the type strain is MAR441T ( = ATCC BAA-2408T = DSM 24955T).

scholarly journals Microbacterium ulmi sp. nov., a xylanolytic, phosphate-solubilizing bacterium isolated from sawdust of Ulmus nigra

2004 ◽  
Vol 54 (2) ◽  
pp. 513-517 ◽  
Author(s):  
Raúl Rivas ◽  
Martha E. Trujillo ◽  
Manuel Sánchez ◽  
Pedro F. Mateos ◽  
Eustoquio Martínez-Molina ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Rrna Gene ◽  
The Novel ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
Phosphate Solubilizing ◽  
Type Strains

A xylanolytic and phosphate-solubilizing bacterium isolated from sawdust of Ulmus nigra in Salamanca was characterized by a polyphasic approach. The novel strain, designated XIL02T, was Gram-positive, aerobic, catalase- and oxidase-negative, rod-shaped and non-motile. Phylogenetically and chemotaxonomically, it was related to members of the genus Microbacterium. According to 16S rRNA gene sequence analysis, it is closely related to Microbacterium arborescens and Microbacterium imperiale; however, DNA–DNA hybridization showed reassociation values less than 70 % with the type strains of these species. In chemotaxonomic analyses, the major menaquinones detected were MK-12, MK-13 and MK-11 and the major fatty acids were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0; the peptidoglycan was of the type B2β. The G+C content determined was 69 mol%. Based on the present data, it is proposed that strain XIL02T (=LMG 20991T=CECT 5976T) be classified as the type strain of a novel Microbacterium species, for which the name Microbacterium ulmi sp. nov. is proposed.

scholarly journals Pseudomonas guineae sp. nov., a novel psychrotolerant bacterium from an Antarctic environment

2007 ◽  
Vol 57 (11) ◽  
pp. 2609-2612 ◽  
Author(s):  
Núria Bozal ◽  
M. Jesús Montes ◽  
Elena Mercadé
Keyword(s):  
Dna Hybridization ◽  
Cellular Fatty Acid ◽  
South Shetland Islands ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Shetland Islands ◽  
Gene Sequence Analysis ◽  
Psychrotolerant Bacterium ◽  
The Antarctic ◽  
Type Strains

Two Gram-negative, cold-adapted, aerobic bacteria, designated strains M8T and M6, were isolated from soil collected from the South Shetland Islands. The organisms were rod-shaped, catalase- and oxidase-positive and motile by means of polar flagella. These two psychrotolerant strains grew between −4 and 30 °C. 16S rRNA gene sequence analysis placed strains M8T and M6 within the genus Pseudomonas. DNA–DNA hybridization experiments between the Antarctic isolate M8T and type strains of phylogenetically related species, namely Pseudomonas peli and Pseudomonas anguilliseptica, revealed levels of relatedness of 33 and 37 %, respectively. Strain M6 showed 99 % DNA similarity to strain M8T. Several phenotypic characteristics, together with data on cellular fatty acid composition, served to differentiate strains M8T and M6 from related pseudomonads. On the basis of the polyphasic taxonomic evidence presented in this study, it can be concluded that strains M8T and M6 belong to the same genospecies, representing a novel species of the genus Pseudomonas, for which the name Pseudomonas guineae sp. nov. is proposed. The type strain is M8T (=LMG 24016T=CECT 7231T).

scholarly journals Kordiimonas lacus sp. nov., isolated from a ballast water tank, and emended description of the genus Kordiimonas

2011 ◽  
Vol 61 (2) ◽  
pp. 422-426 ◽  
Author(s):  
Xue-Wei Xu ◽  
Ying-Yi Huo ◽  
Xue-Dong Bai ◽  
Chun-Sheng Wang ◽  
Aharon Oren ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Ballast Water ◽  
Type Strain ◽  
Carbon Sources ◽  
Rrna Gene ◽  
Water Tank ◽  
Respiratory Quinone ◽  
Light Yellow ◽  
Gene Sequence Analysis ◽  
Emended Description

A Gram-negative, motile, rod-shaped bacterial strain, designated S3-22T, was isolated from a sediment sample collected from a ballast water tank of a commercial ship and subjected to a polyphasic taxonomic characterization. The isolate formed small, light-yellow, semi-translucent and circular colonies on solid complex media. The strain was oxidase- and catalase-positive and metabolized a large number of carbon sources. Chemotaxonomic analysis showed ubiquinone Q-10 as predominant respiratory quinone, phosphatidylglycerol and an unidentified glycolipid as major polar lipids and iso-C17 : 1 ω9c, iso-C15 : 0, C16 : 1 ω7c and/or iso-C15 : 0 2-OH, C16 : 0, iso-C17 : 0 and C18 : 1 ω7c as major fatty acids and the hydroxy fatty acids iso-C17 : 0 3-OH and C16 : 0 3-OH. The genomic DNA G+C content was 54.9 mol%. 16S rRNA gene sequence analysis revealed that the isolate has 96.1 % similarity to the type strain of Kordiimonas gwangyangensis, the sole described species within the order Kordiimonadales, and less than 91.0 % similarity to other recognized species. On the basis of phenotypic and genotypic data, strain S3-22T represents a novel species of the genus Kordiimonas, for which the name Kordiimonas lacus sp. nov. is proposed, with the type strain S3-22T (=CGMCC 1.9109T =JCM 16261T). An emended description of the genus Kordiimonas is also presented.

scholarly journals Mucilaginibacter myungsuensis sp. nov., isolated from a mesotrophic artificial lake

2011 ◽  
Vol 61 (7) ◽  
pp. 1506-1510 ◽  
Author(s):  
Yochan Joung ◽  
Kiseong Joh
Keyword(s):  
Fatty Acids ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Artificial Lake ◽  
Respiratory Quinone ◽  
Major Respiratory Quinone ◽  
Type Strains

A non-motile, pale-yellow bacterium, designated strain HMD1056T, was isolated from an artificial lake located within the campus of Hankuk University of Foreign Studies, Yongin, Korea. The major fatty acids were summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c; 49.1 %) and iso-C15 : 0 (22.4 %). The major respiratory quinone was MK-7. The DNA G+C content was 46.9 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain HMD1056T formed a lineage within the genus Mucilaginibacter and was closely related to the type strains of Mucilaginibacter ximonensis (95.4 % sequence similarity), Mucilaginibacter kameinonensis (94.5 %) and Mucilaginibacter paludis (93.4 %). On the basis of the evidence presented in this study, strain HMD1056T represents a novel species of the genus Mucilaginibacter, for which the name Mucilaginibacter myungsuensis sp. nov. is proposed. The type strain is HMD1056T ( = KCTC 22746T  = CECT 7550T).

scholarly journals Knoellia flava sp. nov., isolated from pig manure

2012 ◽  
Vol 62 (2) ◽  
pp. 384-389 ◽  
Author(s):  
Xiang Yu ◽  
Yan Du ◽  
Gejiao Wang
Keyword(s):  
Fatty Acids ◽  
Genomic Dna ◽  
Type Strain ◽  
Novel Species ◽  
Diaminopimelic Acid ◽  
Pig Manure ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Dna Relatedness ◽  
Type Strains

A Gram-positive, aerobic, non-spore-forming actinobacterial strain, designated strain TL1T, was isolated from pig manure in Wuhan, China. The cell wall peptidoglycan contained meso-diaminopimelic acid. The major polar lipids were phosphatidylethanolamine, phosphatidylinositol and diphosphatidylglycerol. The predominant menaquinone was MK-8(H4). The major fatty acids (>10 %) were iso-C16 : 0, iso-C15 : 0 and C17 : 1ω8c. The genomic DNA G+C content was 70.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain TL1T was most closely related to the type strains of Knoellia sinensis (98.5 %), Knoellia subterranea (98.2 %) and Knoellia aerolata (96.9 %). DNA–DNA relatedness values of strain TL1T with the type strains of K. sinensis and K. subterranea were 27.3 and 34.0 %, respectively. Comparison of phenotypic, chemotaxonomic and phylogenetic characteristics among strain TL1T and related organisms revealed that the isolate represents a novel species of the genus Knoellia, for which the name Knoellia flava sp. nov. is proposed; the type strain is TL1T ( = CGMCC 1.10749T = KCTC 19810T).

scholarly journals Pseudoalteromonas marina sp. nov., a marine bacterium isolated from tidal flats of the Yellow Sea, and reclassification of Pseudoalteromonas sagamiensis as Algicola sagamiensis comb. nov.

2007 ◽  
Vol 57 (1) ◽  
pp. 12-18 ◽  
Author(s):  
Young-Do Nam ◽  
Ho-Won Chang ◽  
Ja Ryeong Park ◽  
Hyuk-Yong Kwon ◽  
Zhe-Xue Quan ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Sequence Similarity ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Closely Related Species ◽  
Gene Sequence Analysis ◽  
Pseudoalteromonas Marina ◽  
Type Strains

Two Gram-negative, motile and strictly aerobic marine bacteria were isolated from a tidal flat sediment sample obtained from Dae-Chun, Chung-Nam, Korea. They were preliminarily identified as Pseudoalteromonas-like bacteria, based on 16S rRNA gene sequence analysis showing nearly identical sequences (>99.7 % sequence similarity) and the highest similarity (98.4 %) to the species Pseudoalteromonas undina. Some phenotypic features of the newly isolated strains were similar to those of members of the genus Pseudoalteromonas, but several physiological and chemo-taxonomical properties readily distinguished the new isolates from previously described species. DNA–DNA hybridization with type strains of phylogenetically closely related species demonstrated that the isolates represent a novel Pseudoalteromonas species, for which the name Pseudoalteromonas marina sp. nov. is proposed, with the type strain mano4T (=KCTC 12242T=DSM 17587T). In addition, on the basis of this study and polyphasic data obtained from previous work, it is proposed that the species Pseudoalteromonas sagamiensis should be reclassified as Algicola sagamiensis comb. nov. and that strain B-10-31T (=DSM 14643T=JCM 11461T) be designated the type strain.

scholarly journals Marinobacter nitratireducens sp. nov., a halophilic and lipolytic bacterium isolated from coastal surface sea water

2015 ◽  
Vol 65 (Pt_7) ◽  
pp. 2056-2063 ◽  
Author(s):  
Bhumika Vaidya ◽  
Ravinder Kumar ◽  
Suresh Korpole ◽  
Naga Radha Srinivas Tanuku ◽  
Anil Kumar Pinnaka
Keyword(s):  
Type Strain ◽  
Sea Water ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Pairwise Sequence Similarity ◽  
The Mean ◽  
Type Strains

A novel Gram-stain-negative, rod-shaped, motile bacterium, designated strain AK21T, was isolated from coastal surface sea water at Visakhapatnam, India. The strain was positive for oxidase, catalase, lipase, l-proline arylamidase and tyrosine arylamidase activities. The predominant fatty acids were C12:0, C12:0 3-OH, C16:0, C16:1ω9c, C18:1ω9c and summed feature 3 (C16:1ω7c and/or iso-C15:0 2-OH). The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, one unidentified aminophospholipid, two unidentified phospholipids and one unidentified lipid. Q-10 was the predominant respiratory quinone. The DNA G+C content of the strain was 54.6 mol%. 16S rRNA gene sequence analysis indicated that strain AK21T was a member of the genus Marinobacter and was closely related to Marinobacter xestospongiae, with pairwise sequence similarity of 97.2 % to the type strain, with similarity to other members of the genus of 94.0–96.8 %. The mean DNA–DNA relatedness of strain AK21T with M. xestospongiae JCM 17469T was 34.5 %, and relatedness with Marinobacter mobilis JCM 15154T was 40.5 %. Phylogenetic analysis showed that strain AK21T clustered with the type strains of M. xestospongiae and M. mobilis at distances of 2.9 and 2.8 % (97.1 and 97.2 % similarity), respectively. Based on the phenotypic characteristics and on phylogenetic inference, it appears that strain AK21T represents a novel species of the genus Marinobacter, for which the name Marinobacter nitratireducens sp. nov. is proposed. The type strain of Marinobacter nitratireducens is AK21T ( = MTCC 11704T = JCM 18428T).

Halovivax ruber sp. nov., an extremely halophilic archaeon isolated from Lake Xilinhot, Inner Mongolia, China

2007 ◽  
Vol 57 (5) ◽  
pp. 1024-1027 ◽  
Author(s):  
A. M. Castillo ◽  
M. C. Gutiérrez ◽  
M. Kamekura ◽  
Y. Xue ◽  
Y. Ma ◽  
...  
Keyword(s):  
Inner Mongolia ◽  
Type Strain ◽  
Lipid Analysis ◽  
Rrna Gene ◽  
Halophilic Archaeon ◽  
Physiological Characterization ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Extremely Halophilic Archaeon ◽  
Type Strains

A Gram-negative, pleomorphic, extremely halophilic archaeon, designated strain XH-70T, was isolated from the saline Lake Xilinhot, in Inner Mongolia, China. It formed small (0.9–1.5 mm), red-pigmented, elevated colonies on agar medium. The strain required at least 2.5 M NaCl and 5 mM Mg2+ for growth. The 16S rRNA gene sequence analysis indicated that strain XH-70T belongs to the family Halobacteriaceae, showing 99.5 % similarity to the type strain of Halovivax asiaticus and 94.7 and 94.6 % similarity, respectively, to the type strains of Natronococcus amylolyticus and Natronococcus occultus. Polar lipid analysis supported the placement of strain XH-70T in the genus Halovivax. DNA–DNA hybridization studies (32 % with Halovivax asiaticus CGMCC 1.4248T), as well as biochemical and physiological characterization, allowed strain XH-70T to be differentiated from Halovivax asiaticus. A novel species, Halovivax ruber sp. nov., is therefore proposed to accommodate this strain. The type strain is XH-70T (=CGMCC 1.6204T=DSM 18193T=JCM 13892T).

scholarly journals Dyella yeojuensis sp. nov., isolated from greenhouse soil in Korea

2006 ◽  
Vol 56 (9) ◽  
pp. 2079-2082 ◽  
Author(s):  
Byung-Yong Kim ◽  
Hang-Yeon Weon ◽  
Kang-Hyo Lee ◽  
Soon-Ja Seok ◽  
Soon-Wo Kwon ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Sequence Analyses ◽  
Greenhouse Soil ◽  
Gram Negative ◽  
Type Strains

A novel strain, R2A16-10T, was isolated from greenhouse soil in Yeoju, Korea. The taxonomy of strain R2A16-10T was studied by using polyphasic methods. On the basis of 16S rRNA gene sequence analyses, strain R2A16-10T was found to be phylogenetically related to type strains of Dyella species (96.7–96.9 %), Frateuria aurantia DSM 6220T (96.5 %), Fulvimonas soli LMG 19981T (96.3 %) and Rhodanobacter species (94.9–95.7 %). Strain R2A16-10T, which produced yellow-coloured colonies, was Gram-negative, rod-shaped (0.3–0.4×1.5–3.5 μm) and motile. The predominant fatty acids were 17 : 1 iso ω9c (25.5 %), 15 : 0 iso (18.7 %) and 17 : 0 iso (14.6 %), and the major hydroxy fatty acids were 11 : 0 iso 3-OH (5.0 %), 13 : 0 iso 3-OH (3.4 %) and 17 : 0 iso 3-OH (1.0 %). The major isoprenoid quinone was Q-8. The G+C content of the DNA of the type strain was 63.0 mol%. On the basis of the data from this study, strain R2A16-10T represents a novel species of the genus Dyella, for which the name Dyella yeojuensis sp. nov. is proposed. The type strain is R2A16-10T (=KACC 11405T=DSM 17673T).

scholarly journals Paraburkholderia solitsugae sp. nov. and Paraburkholderia elongata sp. nov., phenolic acid-degrading bacteria isolated from forest soil and emended description of Paraburkholderia madseniana

2020 ◽  
Vol 70 (9) ◽  
pp. 5093-5105 ◽  
Author(s):  
Roland C. Wilhelm ◽  
K. Taylor Cyle ◽  
Carmen Enid Martinez ◽  
David C. Karasz ◽  
Jeffrey D. Newman ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Forest Soil ◽  
Type Strain ◽  
Type Species ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Degrading Bacteria ◽  
Gene Similarity ◽  
Type Strains

Two bacterial strains, 1NT and 5NT, were isolated from hemlock forest soil using a soluble organic matter enrichment. Cells of 1NT (0.65×1.85 µm) and 5NT (0.6×1.85 µm) are Gram-stain-negative, aerobic, motile, non-sporulating and exist as single rods, diplobacilli or in chains of varying length. During growth in dilute media (≤0.1× tryptic soy broth; TSB), cells are primarily motile with flagella. At higher concentrations (≥0.3× TSB), cells of both strains increasingly form non-motile chains, and cells of 5NT elongate (0.57×~7 µm) and form especially long filaments. Optimum growth of 1NT and 5NT occurred at 25–30 °C, pH 6.5–7.0 and <0.5% salinity. Results of comparative chemotaxonomic, genomic and phylogenetic analyses revealed that 1NT and 5NT were distinct from one another and their closest related type strains: Paraburkholderia madseniana RP11T, Paraburkholderia aspalathi LMG 27731T and Paraburkholderia caffeinilytica CF1T. The genomes of 1NT and 5NT had an average nucleotide identity (91.6 and 91.3%) and in silico DNA–DNA hybridization values (45.8%±2.6 and 45.5%±2.5) and differed in functional gene content from their closest related type strains. The composition of fatty acids and patterns of substrate use, including the catabolism of phenolic acids, also differentiated strains 1NT and 5NT from each other and their closest relatives. The only ubiquinone present in strains 1NT and 5NT was Q-8. The major cellular fatty acids were C16 : 0, 3OH-C16 : 0, C17 : 0 cyclo, C19 : 0 cyclo ω8c and summed features 2 (3OH-C14 : 0 / C16 : 1 iso I), 3 (C16 : 1 ω6c/ω7c) and 8 (C18 : 1 ω7c/ω6c). A third bacterium, strain RL16-012-BIC-B, was isolated from soil associated with shallow roots and was determined to be a strain of P. madseniana (ANI, 98.8%; 16S rRNA gene similarity, 100%). Characterizations of strain RL16-012-BIC-B (DSM 110723=LMG 31706) led to proposed emendments to the species description of P. madseniana . Our polyphasic approach demonstrated that strains 1NT and 5NT represent novel species from the genus Paraburkholderia for which the names Paraburkholderia solitsugae sp. nov. (type strain 1NT=DSM 110721T=LMG 31704T) and Paraburkholderia elongata sp. nov. (type strain 5NT=DSM 110722T=LMG 31705T) are proposed.

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