scholarly journals Snuella lapsa gen. nov., sp. nov., isolated from tidal flat sediment

2011 ◽  
Vol 61 (10) ◽  
pp. 2469-2474 ◽  
Author(s):  
Hana Yi ◽  
Jongsik Chun
Keyword(s):  
Tidal Flat ◽  
Phylogenetic Analyses ◽  
Gliding Motility ◽  
Phenotypic Traits ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Tidal Flat Sediment ◽  
The Family ◽  
Phyletic Line ◽  
Sequence Similarities

A yellow-coloured, rod-shaped, Gram-reaction-negative, aerobic bacterial strain, designated JC2132T, was isolated from a tidal flat sediment sample from Ganghwa Island, Korea. The isolate required sea salts for growth. Cells produced non-diffusible carotenoid pigments, but flexirubin-type pigments were absent. Gliding motility was observed. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain JC2132T represented a distinct phyletic line that reflected a novel generic status within the family Flavobacteriaceae with relatively low sequence similarities (<95 %) to members of other genera with validly published names. The predominant isoprenoid quinone (MK-6) and DNA G+C content (35 mol%) were consistent with assignment of the isolate to the family Flavobacteriaceae, but overall phenotypic traits demonstrated that strain JC2132T was not closely affiliated with any previously described genera. Based on taxonomic data obtained using a polyphasic approach, it is proposed that strain JC2132T represents a novel species in a new genus belonging to the family Flavobacteriaceae, for which the name Snuella lapsa gen. nov., sp. nov. is proposed; the type strain of the type species is JC2132T ( = KACC 14152T = JCM 17111T).

scholarly journals Pontirhabdus pectinivorans gen. nov., sp. nov., isolated from seawater

2011 ◽  
Vol 61 (10) ◽  
pp. 2475-2481 ◽  
Author(s):  
Hana Yi ◽  
Jang-Cheon Cho ◽  
Jongsik Chun
Keyword(s):  
Phylogenetic Analyses ◽  
Gliding Motility ◽  
Phenotypic Traits ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
The Family ◽  
Phyletic Line ◽  
Taxonomic Approach ◽  
Sequence Similarities

A yellow-coloured, rod-shaped, Gram-reaction-negative and aerobic bacterial strain, designated JC2675T, was isolated from a seawater sample from Jeju Island, Korea. The isolate required sea salts for growth. Gliding motility was observed. Flexirubin-type pigments were absent. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain JC2675T represented a distinct phyletic line that reflected a novel generic status within the family Flavobacteraceae with relatively low gene sequence similarities (<95.7 %) to other recognized genera. The predominant isoprenoid quinone (MK-6) and DNA G+C content (30 mol%) were consistent with the assignment of the novel strain to the family Flavobacteriaceae, but overall phenotypic traits demonstrated that the novel strain was not closely affiliated with any previously described genus. Based on data from a study using a polyphasic taxonomic approach, it is proposed that strain JC2675T represents a new genus and novel species belonging to the family Flavobacteriaceae, for which the name Pontirhabdus pectinivorans gen. nov., sp. nov. is proposed. The type strain of the type species is JC2675T ( = KACC 14153T = JCM 17107T).

scholarly journals Flavivirga jejuensis gen. nov., sp. nov., and Flavivirga amylovorans sp. nov., new members of the family Flavobacteriaceae isolated from seawater, and emended descriptions of the genera Psychroserpens and Lacinutrix

2012 ◽  
Vol 62 (Pt_5) ◽  
pp. 1061-1068 ◽  
Author(s):  
Hana Yi ◽  
Jang-Cheon Cho ◽  
Jongsik Chun
Keyword(s):  
Type Strain ◽  
New Genus ◽  
Phylogenetic Analyses ◽  
Gliding Motility ◽  
Phenotypic Traits ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
The Family

Two yellow, rod-shaped, Gram-reaction-negative, strictly aerobic bacterial strains, designated JC2682T and JC2681T, were isolated from a seawater sample of Jeju Island, Korea. The isolates required sea salts for growth and showed gliding motility. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strains JC2682T and JC2681T shared 96.9 % similarity and formed a robust monophyletic group within the radiation encompassing the family Flavobacteriaceae . This distinct clade, which had varying branch positions depending on the tree-making algorithm used, represents a new genus within the family Flavobacteriaceae . The predominant isoprenoid quinone (menaquinone 6, MK-6) and DNA G+C content (27–33 mol%) were consistent with its assignment to the family Flavobacteriaceae , but the polar lipid profile, fatty acid composition and overall phenotypic traits demonstrated that the test strains were not closely affiliated to any recognized genera. Based on data from the present polyphasic taxonomic study, strains JC2682T and JC2681T are considered to represent two novel species of a new genus in the family Flavobacteriaceae , for which the names Flavivirga jejuensis gen. nov., sp. nov. and Flavivirga amylovorans sp. nov. are proposed, respectively. The type strain of Flavivirga jejuensis is JC2682T ( = KACC 14158T  = JCM 17113T). The type strain of Flavivirga amylovorans is JC2681T ( = KACC 14157T  = JCM 17112T). Amended descriptions of the genera Psychroserpens and Lacinutrix are provided.

scholarly journals Soonwooa buanensis gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from seawater

2010 ◽  
Vol 60 (9) ◽  
pp. 2061-2065 ◽  
Author(s):  
Yochan Joung ◽  
Jaeho Song ◽  
Kiyoung Lee ◽  
Hyun-Myung Oh ◽  
Kiseong Joh ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Elizabethkingia Meningoseptica ◽  
The Family ◽  
Novel Genus And Species ◽  
Phyletic Line ◽  
Sequence Similarities

A Gram-negative, non-motile, non-gliding, strictly aerobic, pale yellow colony-forming, rod-shaped bacterial strain, designated HM0024T, was isolated from coastal seawater of the Yellow Sea and subjected to a polyphasic taxonomy study. Based on 16S rRNA gene sequence similarities, strain HM0024T was most closely related to Chryseobacterium balustinum LMG 8329T (94.4 %), Chryseobacterium scophthalmum LMG 13028T (94.4 %), Chryseobacterium piscium LMG 23089T (94.3 %) and Elizabethkingia meningoseptica ATCC 13253T (94.0 %) and shared less than 92 % sequence similarity with other members of the family Flavobacteriaceae. Phylogenetic analyses showed that strain HM0024T formed an independent phyletic line of descent within the family Flavobacteriaceae. The DNA G+C content of the strain was 29.6 mol% and its major cellular fatty acids (>10 %) were iso-C15 : 0, iso-C17 : 0 3-OH, iso-C17 : 1 ω7c and summed feature 3 (C16 : 1 ω6c and/or C16 : 1 ω7c). The major isoprenoid quinone was MK-6 and the major polar lipids were phosphatidylethanolamine and several aminolipids. Strain HM0024T was differentiated from phylogenetically related members of the family by having lower DNA G+C content, larger proportions of summed feature 3, anteiso-C15 : 0 and iso-C16 : 0 3-OH and particular phenotypic characteristics. On the basis of phenotypic and phylogenetic data, strain HM0024T is classified as a representative of a novel genus and species, for which the name Soonwooa buanensis gen. nov., sp. nov. is proposed. The type strain of Soonwooa buanensis is HM0024T (=KCTC 22689T =CECT 7503T).

scholarly journals Zhihengliuella aestuarii sp. nov., isolated from tidal flat sediment

2011 ◽  
Vol 61 (7) ◽  
pp. 1671-1676 ◽  
Author(s):  
Keun Sik Baik ◽  
Chae Hong Lim ◽  
Seong Chan Park ◽  
Han Na Choe ◽  
Ho Jun Kim ◽  
...  
Keyword(s):  
Tidal Flat ◽  
Type Strain ◽  
Novel Species ◽  
Rrna Gene ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Cellular Fatty Acids ◽  
Tidal Flat Sediment ◽  
The Family ◽  
Zhihengliuella Aestuarii

A Gram-stain-positive, ovoid to short rod-shaped, yellow-pigmented bacterium, designated strain DY66T, was isolated from tidal-flat sediment collected from Deukryang Bay (Republic of Korea), and its taxonomic position was investigated by using a polyphasic approach. Strain DY66T grew optimally at 30 °C and pH 8–9 and in 2 % (w/v) NaCl. The peptidoglycan type was A4α, l-Lys–l-Ala–d-Glu, and tyvelose and glucose were the major cell-wall sugars. The predominant menaquinones were MK-10 and MK-9. Major cellular fatty acids (>10 % of total) were anteiso-C15 : 0 and iso-C15 : 0. The polar lipids were diphosphatidylglycerol, phosphatidylcholine, phosphatidylglycerol, an unknown aminophospholipid and three unknown aminolipids. The DNA G+C content was 59.1 mol%. This chemotaxonomic profile supported the assignment of strain DY66T to the genus Zhihengliuella. Phylogenetic analysis based on 16S rRNA gene sequences also indicated that strain DY66T belonged to the family Micrococcaceae and was related to the genus Zhihengliuella. On the basis of the evidence presented in this study, strain DY66T represents a novel species of the genus Zhihengliuella, for which the name Zhihengliuella aestuarii sp. nov. is proposed. The type strain is strain DY66T ( = KCTC 19557T  = JCM 16364T).

scholarly journals Hoppeia youngheungensis gen. nov., sp. nov., a member of the Flavobacteriaceae isolated from tidal flat sediment, and emended descriptions of the genus Sediminibacter and Sediminibacter furfurosus

2014 ◽  
Vol 64 (Pt_6) ◽  
pp. 2053-2059 ◽  
Author(s):  
Yong Min Kwon ◽  
Donghee Choi ◽  
Sung-Hyun Yang ◽  
Kae Kyoung Kwon ◽  
Sang-Jin Kim
Keyword(s):  
Tidal Flat ◽  
Type Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Content Type ◽  
Link Type ◽  
Tidal Flat Sediment ◽  
The Family

A Gram-reaction-negative, proteorhodopsin-containing, yellow-pigmented, rod-shaped, non-gliding and strictly aerobic bacterium, designated strain YIK12T, was isolated from tidal flat sediment of Yeongheung Island at the coast of the West Sea of Korea. Cells produced non-diffusible carotenoid pigments, but not flexirubin-type pigment. Phylogenetic analyses based on 16S rRNA gene sequences indicated that the isolate was affiliated to the family Flavobacteriaceae and showed highest similarity to Sediminibacter furfurosus MAOS-86T (93.3 %). Growth was observed at 24–44 °C (optimum 30 °C), at pH 6.5–8.0 (optimum 7.0) and in the presence of 1.5–7.0 % sea salts (optimum 2 %). The DNA G+C content was 40.4 mol% and the predominant cellular fatty acids were iso-C15 : 0, iso-C15 : 1 G, iso-C17 : 0 3-OH, iso-C16 : 0 3-OH, anteiso-C15 : 0 and iso-C15 : 0 3-OH. The major respiratory quinone was MK-6. On the basis of data from the present polyphasic taxonomic study, strain YIK12T is considered to represent a novel species of a new genus in the family Flavobacteriaceae , for which the name Hoppeia youngheungensis gen. nov., sp. nov. is proposed. The type strain of H. youngheungensis is YIK12T ( = KCCM 43023T = JCM 19488T). Emended descriptions of the genus Sediminibacter and Sediminibacter furfurosus are given.

Sediminihaliea albiluteola gen. nov., sp. nov., a new member of the family Halieaceae, isolated from marine sediment

2021 ◽  
Vol 71 (8) ◽  
Author(s):  
Shan Jiang ◽  
Feng-Bai Lian ◽  
You-Yang Sun ◽  
Xiao-Kui Zhang ◽  
Zong-Jun Du
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Gene Sequences ◽  
Unidentified Phospholipid ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Sequence Similarities

A Gram-stain-negative, rod-shaped and facultatively aerobic bacterial strain, designated F7430T, was isolated from coastal sediment collected at Jingzi Wharf in Weihai, PR China. Cells of strain F7430T were 0.3–0.4 µm wide, 2.0–2.6 µm long, non-flagellated, non-motile and formed pale-beige colonies. Growth was observed at 4–40 °C (optimum, 30 °C), pH 6.0–9.0 (optimum, pH 7.5–8.0) and at NaCl concentrations of 1.0–10.0 % (w/v; optimum, 1.0 %). The sole respiratory quinone of strain F7430T was ubiquinone 8 and the predominant cellular fatty acids were summed feature 8 (C18 : 1  ω7c / C18 : 1  ω6c; 60.7 %), summed feature 3 (C16 : 1  ω7c/C16 : 1  ω6c; 30.2 %) and C15 : 0 iso (13.9 %). The polar lipids of strain F7430T consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, one unidentified phospholipid and three unidentified lipids. Results of 16S rRNA gene sequences analyses indicated that this strain belonged to the family Halieaceae and had high sequence similarities to Parahaliea aestuarii JCM 51547T (95.3 %) and Halioglobus pacificus DSM 27932T (95.2 %) followed by 92.9–95.0 % sequence similarities to other type species within the aforementioned family. The rpoB gene sequences analyses indicated that the novel strain had the highest sequence similarities to Parahaliea aestuarii JCM 51547T (82.2 %) and Parahaliea mediterranea DSM 21924T (82.2 %) followed by 75.2–80.5 % sequence similarities to other type species within this family. Phylogenetic analyses showed that strain F7430T constituted a monophyletic branch clearly separated from the other genera of family Halieaceae . Whole-genome sequencing of strain F7430T revealed a 3.3 Mbp genome size with a DNA G+C content of 52.6 mol%. The genome encoded diverse metabolic pathways including the Entner–Doudoroff pathway, assimilatory sulphate reduction and biosynthesis of dTDP-l-rhamnose. Based on results from the current polyphasic study, strain F7430T is proposed to represent a novel species of a new genus within the family Halieaceae , for which the name Sediminihaliea albiluteola gen. nov., sp. nov. is proposed. The type strain of the type species is F7430T (=KCTC 72873T=MCCC 1H00420T).

Roseibium litorale sp. nov., isolated from a tidal flat sediment and proposal for the reclassification of Labrenzia polysiphoniae as Roseibium polysiphoniae comb. nov.

2021 ◽  
Author(s):  
Yang Liu ◽  
Tao Pei ◽  
Juan Du ◽  
Meijie Chao ◽  
Ming-Rong Deng ◽  
...  
Keyword(s):  
Tidal Flat ◽  
Type Strain ◽  
Type Species ◽  
Phylogenetic Analyses ◽  
Phylogenomic Analysis ◽  
Rrna Gene ◽  
Species Definition ◽  
Content Type ◽  
Link Type ◽  
Tidal Flat Sediment

A novel Gram-stain-negative, facultatively anaerobic, rod-shaped and non-motile bacterial strain, designated as 4C16AT, was isolated from a tidal flat sediment and characterized by using a polyphasic taxonomic approach. Strain 4C16AT was found to grow at 10–40 °C (optimum, 28 °C), at pH 5.0–10.0 (optimum, pH 6.0–7.0) and in 0–6 % (w/v) NaCl (optimum, 1 %). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain 4C16AT fell into the genus Roseibium , and shared the highest identity of 98.9 % with the closest type strain Roseibium suaedae KACC 13772T and less than 98.0 % identity with other type strains of recognized species within this genus. The phylogenomic analysis indicated that strain 4C16AT formed an independent branch within this genus. The 28.6 % digital DNA–DNA hybridization estimate and 85.0 % average nucleotide identity between strains 4C16AT and R. suaedae KACC 13772T were the highest, but still far below their respective threshold for species definition, implying that strain 4C16AT should represent a novel genospecies. The predominant cellular fatty acid was summed feature 8; the polar lipids were diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol and phosphatidylmonomethylethanolamine; the respiratory quinones were Q-9 and Q-10. The genomic DNA G+C content was 59.8mol %. Based on phylogenetic analyses and phenotypic and chemotaxonomic characteristics, strain 4C16AT is concluded to represent a novel species of the genus Roseibium , for which the name Roseibium litorale sp. nov. is proposed. The type strain of the species is 4C16AT (=GDMCC 1.1932T=KACC 22078T). We also propose the reclassification of Labrenzia polysiphoniae as Roseibium polysiphoniae comb. nov. and ‘Labrenzia callyspongiae’ as Roseibium callyspongiae sp. nov.

scholarly journals Niabella tibetensis sp. nov., isolated from soil, and emended description of the genus Niabella

2011 ◽  
Vol 61 (5) ◽  
pp. 1201-1205 ◽  
Author(s):  
Jun Dai ◽  
Fan Jiang ◽  
Yang Wang ◽  
Bo Yu ◽  
Huan Qi ◽  
...  
Keyword(s):  
Novel Species ◽  
Rrna Gene ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
The Family ◽  
Emended Description ◽  
Taxonomic Approach ◽  
Physiological And Biochemical ◽  
Sequence Similarities ◽  
Biochemical Features

Strain 15-4T, a Gram-stain-negative, rod-shaped, non-motile bacterial strain that produced flexirubin-type pigments, was isolated from Tibet Province, China, and characterized by using a polyphasic taxonomic approach. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolate belonged to the family Chitinophagaceae, phylum ‘Bacteroidetes’, and was related to members of the genus Niabella, with sequence similarities ranging from 94.1 to 96.4 %. Strain 15-4T contained MK-7 as the predominant menaquinone and its DNA G+C content was 46.9 mol%. The major fatty acids of strain 15-4T were iso-C15 : 0 (41.3 %), iso-C15 : 1 G (14.9 %), iso-C17 : 0 3-OH (13.2 %) and summed feature 3 (comprising C16 : 1ω7c and/or iso-C15 : 0 2-OH, 16.0 %). These chemotaxonomic data supported the affiliation of strain 15-4T to the genus Niabella. However, a number of physiological and biochemical features enabled the isolate to be differentiated phenotypically from recognized species of the genus Niabella. On the basis of the evidence presented, it is proposed that strain 15-4T represents a novel species, Niabella tibetensis sp. nov.; the type strain is 15-4T ( = CCTCC AB 209167T = NRRL B-59394T). On the basis of these data, an emended description of the genus Niabella is also proposed.

scholarly journals Planifilum fimeticola gen. nov., sp. nov. and Planifilum fulgidum sp. nov., novel members of the family ‘Thermoactinomycetaceae’ isolated from compost

2005 ◽  
Vol 55 (5) ◽  
pp. 2101-2104 ◽  
Author(s):  
Kouta Hatayama ◽  
Hirofumi Shoun ◽  
Yasuichi Ueda ◽  
Akira Nakamura
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Phylogenetic Analyses ◽  
Morphological Characters ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Fatty Acid Profiles ◽  
16S Rrna Gene Sequences ◽  
The Family ◽  
Type Strains

Four thermophilic, Gram-positive strains, designated H0165T, 500275T, C0170 and 700375, were isolated from a composting process in Japan. The isolates grew aerobically at about 65 °C on a solid medium with formation of substrate mycelia; spores were produced singly along the mycelia. These morphological characters resembled those of some type strains of species belonging to the family ‘Thermoactinomycetaceae’, except that aerial mycelia were not formed. Phylogenetic analyses based on 16S rRNA gene sequences indicated that the closest related species to the isolates were members of the family ‘Thermoactinomycetaceae’, but that the isolates formed an independent phylogenetic lineage. Some chemotaxonomic characters of the isolates, such as DNA G+C contents of 58·7–60·3 mol%, MK-7 as the major menaquinone and cellular fatty acid profiles, differed from those of members of the family ‘Thermoactinomycetaceae’. DNA–DNA hybridization showed that the isolates could be divided into two genomic groups, strain H0165T and the other three strains. These results indicated that the four isolates should be classified into two species of a novel genus in the family ‘Thermoactinomycetaceae’, for which the names Planifilum fimeticola gen. nov., sp. nov. (type strain H0165T=ATCC BAA-969T=JCM 12507T) and Planifilum fulgidum sp. nov. (type strain 500275T=ATCC BAA-970T=JCM 12508T) are proposed.

scholarly journals Pseudonocardia eucalypti sp. nov., an endophytic actinobacterium with a unique knobby spore surface, isolated from roots of a native Australian eucalyptus tree

2011 ◽  
Vol 61 (4) ◽  
pp. 742-746 ◽  
Author(s):  
Onuma Kaewkla ◽  
Christopher M. M. Franco
Keyword(s):  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Spore Surface ◽  
Biochemical Tests ◽  
Liquid Culture Medium ◽  
Endophytic Actinobacterium ◽  
The Family ◽  
The Media ◽  
Sequence Similarities

A novel strain, designated EUM 374T, was isolated from the root of a native Australian eucalyptus tree, Eucalyptus microcarpa, and subjected to a range of morphological, phylogenetic and chemotaxonomic analyses. The strain was Gram-reaction-positive with well-developed aerial mycelia, which fragmented into rod-shaped spores that had unique knobby protrusions on the spore surface. Substrate mycelia were not present in the media used. Strain EUM 374T grew as a film on the surface of static liquid culture medium but did not grow under shaking conditions. Phylogenetic evaluation based on 16S rRNA gene sequences identified the new isolate as belonging to the family Pseudonocardiaceae with sequence similarities of 96.1 and 96.3 % to Pseudonocardia acaciae GMKU095T and Pseudonocardia spinosispora LM 141T, respectively, and 93–96 % sequence similarity to other members of the genus Pseudonocardia. The results of comprehensive phylogenetic analyses, including physiological and biochemical tests, differentiated strain EUM 374T from related members of the genus Pseudonocardia. Based on the phenotypic, phylogenetic and chemotaxonomic evidence, strain EUM 374T represents a novel species of the genus Pseudonocardia, for which the name Pseudonocardia eucalypti sp. nov. is proposed. The type strain is EUM 374T ( = DSM 45351T  = ACM 5285T).

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