scholarly journals Auraticoccus monumenti gen. nov., sp. nov., an actinomycete isolated from a deteriorated sandstone monument

2011 ◽  
Vol 61 (5) ◽  
pp. 1098-1103 ◽  
Author(s):  
Pablo Alonso-Vega ◽  
Lorena Carro ◽  
Eustoquio Martínez-Molina ◽  
Martha E. Trujillo
Keyword(s):  
New Genus ◽  
Gene Sequence ◽  
Diaminopimelic Acid ◽  
Physiological Data ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Public ◽  
The Family ◽  
Chemotaxonomic Markers

A Gram-type-positive, strictly aerobic actinobacterium, designated strain MON 2.2T, was isolated from the surface of a sandstone monument. Cells with a coccoid shape, arranged in pairs or clusters, were non-motile and did not produce spores. The 10 closest 16S rRNA gene sequence matches (~95 % similarity) found in the public databases were uncultured actinobacteria, while the closest cultured members indicated a phylogenetic relationship with members of the family Propionibacteriaceae (92–95 % similarity). Subsequent phylogenetic analysis placed the new isolate within the radiation of the genera Friedmanniella and Microlunatus, but forming an independent branch. Chemotaxonomic markers were consistent with the classification of strain MON 2.2T in the family Propionibacteriaceae, amongst the genera containing ll-diaminopimelic acid in their peptidoglycan. Characteristic fatty acids iso-C15 : 0 and anteiso-C15 : 0 also supported its affiliation to this taxon; however, polar lipid and menaquinone compositions clearly differentiated strain MON 2.2T from other genera in the family. On the basis of these results and additional physiological data obtained in the present study, it is proposed that strain MON 2.2T be classified in a novel species in a new genus, for which the name Auraticoccus monumenti gen. nov., sp. nov. is proposed. The type strain of Auraticoccus monumenti is MON 2.2T ( = CECT 7672T  = DSM 23257T  = LMG 25551T).

scholarly journals Pseudokineococcus lusitanus gen. nov., sp. nov., and reclassification of Kineococcus marinus Lee 2006 as Pseudokineococcus marinus comb. nov.

2011 ◽  
Vol 61 (10) ◽  
pp. 2515-2519 ◽  
Author(s):  
Valme Jurado ◽  
Leonila Laiz ◽  
Alberto Ortiz-Martinez ◽  
Ingrid Groth ◽  
Cesareo Saiz-Jimenez
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
New Genus ◽  
Gene Sequence ◽  
Diaminopimelic Acid ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
The Family

A Gram-reaction-positive, motile, coccus-shaped actinobacterium, designated strain T2A-S27T, was isolated from a roof tile in Oporto (Portugal) and studied using a polyphasic approach. The 16S rRNA gene sequence of the novel isolate showed high similarity to that of Kineococcus marinus KST3-3T (97.8 % sequence similarity). Strain T2A-S27T showed lower 16S rRNA gene sequence similarities with other members of the genus Kineococcus and members of the family Kineosporiaceae (<94 %). A phylogenetic tree, based on 16S rRNA gene sequences, showed that strain T2A-S27T formed a coherent clade with the type strain of K. marinus and Quadrisphaera granulorum. The isolate was characterized by the presence of meso-diaminopimelic acid in the cell-wall peptidoglycan, MK-9(H2) as the predominant menaquinone and a polar lipid profile consisting of diphosphatidylglycerol and phosphatidylglycerol. The fatty acid profile was dominated by anteiso-C15 : 0. The DNA G+C content was 76.9 mol%. The low level of DNA–DNA relatedness to K. marinus (46–47 %) and the results of the chemotaxonomic and physiological studies clearly distinguished strain T2A-S27T from recognized species of the genus Kineococcus. On the basis of its phylogenetic position and phenotypic traits, strain T2A-S27T ( = LMG 24148T  = CECT 7306T  = DSM 23768T) represents a novel species of a new genus in the family Kineosporiaceae, for which the name Pseudokineococcus lusitanus gen. nov., sp. nov. is proposed. The misclassified species K. marinus is transferred to the new genus as Pseudokineococcus marinus comb. nov. The type strain of Pseudokineococcus marinus is KST3-3T ( = KCCM 42250T  = NRRL B-24439T).

scholarly journals Perexilibacter aurantiacus gen. nov., sp. nov., a novel member of the family ‘Flammeovirgaceae’ isolated from sediment

2007 ◽  
Vol 57 (5) ◽  
pp. 964-968 ◽  
Author(s):  
Jaewoo Yoon ◽  
Shu Ishikawa ◽  
Hiroaki Kasai ◽  
Akira Yokota
Keyword(s):  
New Genus ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
The Family ◽  
Republic Of Palau ◽  
The 16S Rrna Gene

A strictly aerobic, Gram-negative, gliding, dull-orange-pigmented, rod-shaped bacterium, designated strain Shu-F-UV2-2T, was isolated from sediment (Carp Island, Republic of Palau) and was the focus of a polyphasic taxonomic study. Phylogenetic analyses based on the 16S rRNA gene sequence revealed that the novel isolate was affiliated to the family ‘Flammeovirgaceae’ of the phylum Bacteroidetes and that it showed highest sequence similarity (85.5 %) to Flammeovirga yaeyamensis NBRC 100898T. The novel isolate could be differentiated phenotypically and physiologically from recognized members of the family ‘Flammeovirgaceae’. The G+C content of the DNA was 43.0 mol%, MK-7 was the major menaquinone and iso-C15 : 0, C16 : 1 ω7c and C16 : 1 ω5c were the major fatty acids. On the basis of this polyphasic evidence, it was concluded that strain Shu-F-UV2-2T represents a novel species in a new genus of the family ‘Flammeovirgaceae’, for which the name Perexilibacter aurantiacus gen. nov., sp. nov. is proposed. The type strain is Shu-F-UV2-2T (=MBIC06993T=IAM 15413T=KCTC 12867T).

scholarly journals Salininema proteolyticum gen. nov., sp. nov., a halophilic rare actinomycete isolated from wetland soil, and emended description of the family Glycomycetaceae

2015 ◽  
Vol 65 (Pt_10) ◽  
pp. 3727-3733 ◽  
Author(s):  
Mahdi Moshtaghi Nikou ◽  
Mohaddaseh Ramezani ◽  
Mohammad Ali Amoozegar ◽  
Mehrnoush Rasouli ◽  
Seyed Abolhassan Shahzadeh Fazeli ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
New Genus ◽  
Diaminopimelic Acid ◽  
Wetland Soil ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Family ◽  
Emended Description

A Gram-stain-positive actinobacterial strain, Miq-4T, was isolated from soil around Meighan wetland in the centre of Iran. Strain Miq-4T was strictly aerobic, catalase- and oxidase-positive. The isolate grew in the presence of 3–15 % (w/v) NaCl, at 20–40 °C and pH 6.0–11.0. The optimum NaCl, temperature and pH for growth were 7.0 %, 30 °C and 7.0–8.5, respectively. The cell wall of strain Miq-4T contained meso-diaminopimelic acid as the diamino acid and glucose and ribose as the whole-cell sugars. The polar lipid pattern consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and phosphatidylinositol mannoside. Strain Miq-4T synthesized cellular fatty acids of anteiso- and iso-branched types, including anteiso-C17 : 0, anteiso- C15 : 0 and iso-C16 : 0, and the major respiratory quinone was MK-9(H4). The G+C content of the genomic DNA was 68.2 mol%. Phylogenetic analysis based on 16S rRNA gene sequences and characteristic patterns of 16S rRNA gene signature nucleotides revealed that strain Miq-4T belongs to the family Glycomycetaceae and showed the closest phylogenetic similarity with Haloglycomyces albus YIM 92370T (94.1 % 16S rRNA gene sequence similarity). On the basis of phylogenetic analysis and phenotypic and chemotaxonomic characteristics, strain Miq-4T represents a novel species of a new genus in the family Glycomycetaceae, for which the name Salininema proteoliyticum gen. nov., sp. nov. is proposed. The type strain of the type species is Miq-4T ( = IBRC-M 10908T = LMG 28391T). An emended description of the family Glycomycetaceae is also proposed in order to include features of the new genus.

scholarly journals Classification of organisms previously reported as the SP and Stewart–Letscher groups, with descriptions of Necropsobacter gen. nov. and of Necropsobacter rosorum sp. nov. for organisms of the SP group

2011 ◽  
Vol 61 (8) ◽  
pp. 1829-1836 ◽  
Author(s):  
H. Christensen ◽  
B. M. Korczak ◽  
A. M. Bojesen ◽  
P. Kuhnert ◽  
W. Frederiksen ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
New Genus ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Family ◽  
Group Strain

To allow classification of bacteria previously reported as the SP group and the Stewart–Letscher group, 35 isolates from rodents (21), rabbits (eight), a dog and humans (five) were phenotypically and genotypically characterized. Comparison of partial rpoB sequences showed that 34 of the isolates were closely related, demonstrating at least 97.4 % similarity. 16S rRNA gene sequence comparison of 20 selected isolates confirmed the monophyly of the SP group and revealed 98.5 %–100 % similarity between isolates. A blast search using the 16S rRNA gene sequences showed that the highest similarity outside the SP group was 95.5 % to an unclassified rat isolate. The single strain, P625, representing the Stewart–Letscher group showed the highest 16S rRNA gene similarity (94.9–95.5 %) to members of the SP group. recN gene sequence analysis of 11 representative strains resulted in similarities of 97–100 % among the SP group strains, which showed 80 % sequence similarity to the Stewart–Letscher group strain. Sequence similarity values based on the recN gene, indicative for whole genome similarity, showed the SP group being clearly separated from established genera, whereas the Stewart–Letscher group strain was associated with the SP group. A new genus, Necropsobacter gen. nov., with only one species, Necropsobacter rosorum sp. nov., is proposed to include all members of the SP group. The new genus can be separated from existing genera of the family Pasteurellaceae by at least three phenotypic characters. The most characteristic properties of the new genus are that haemolysis is not observed on bovine blood agar, positive reactions are observed in the porphyrin test, acid is produced from (+)-l-arabinose, (+)-d-xylose, dulcitol, (+)-d-galactose, (+)-d-mannose, maltose and melibiose, and negative reactions are observed for symbiotic growth, urease, ornithine decarboxylase and indole. Previous publications have documented that both ubiquinones and demethylmenaquinone were produced by the proposed type strain of the new genus, Michel A/76T, and that the major polyamine of representative strains (type strain not included) of the genus is 1,3-diaminopropane, spermidine is present in moderate amounts and putrescine and spermine are detectable only in minor amounts. The major fatty acids of strain Michel A/76T are C14 : 0, C16 : 0, C16:1ω7c and summed feature C14 : 0 3-OH/iso-C16 : 1 I. This fatty acid profile is typical for members of the family Pasteurellaceae. The G+C content of DNA of strain Michel A/76T was estimated to be 52.5 mol% in a previous investigation. The type strain is P709T ( = Michel A/76T  = CCUG 28028T  = CIP 110147T  = CCM 7802T).

Wenyingzhuangia marina gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from a recirculating mariculture system

2014 ◽  
Vol 64 (Pt_2) ◽  
pp. 469-474 ◽  
Author(s):  
Ying Liu ◽  
Liang-Zi Liu ◽  
Hong-Can Liu ◽  
Yu-Guang Zhou ◽  
Fang-Jun Qi ◽  
...  
Keyword(s):  
Type Species ◽  
New Genus ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Optimum Ph

A Gram-stain-negative, strictly aerobic and heterotrophic bacterial strain, designed strain D1T, was isolated from a recirculating mariculture system in Tianjin, China. Its taxonomic position was determined using a polyphasic approach. Cells of strain D1T were non-flagellated short rods, 0.3–0.5 µm wide and 0.5–1.0 µm long. Growth was observed at 15–30 °C (optimum, 25 °C), at pH 5.5–9.0 (optimum, pH 6.5–7.0) and in the presence of 1–8 % (w/v) NaCl (optimum, 2–3 %). Cells contained carotenoid pigments but not flexirubin-type pigments. Strain D1T contained MK-6 as the sole menaquinone and phosphatidylethanolamine (PE) as the sole phospholipid and four unidentified lipids. The major cellular fatty acids (>10 %) were iso-C15 : 0 (23.2 %), iso-C17 : 0 3-OH (15.2 %), C16 : 1ω7c/C16 : 1ω6c (14.3 %), iso-C15 : 0 3-OH (13.5 %) and iso-C15 : 1 G (10.8 %). 16S rRNA gene sequence analyses indicated that strain D1T belonged to the family Flavobacteriaceae and showed closest phylogenetic relationship to the genus Lutibacter , with highest sequence similarity to Lutibacter aestuarii MA-My1T (92.2 %). The DNA G+C content of strain D1T was 35.9 mol%. On the basis of phenotypic, chemotaxonomic and phylogenetic data, strain D1T was considered to represent a novel species in a new genus of the family Flavobacteriaceae , for which the name Wenyingzhuangia marina gen. nov., sp. nov. is proposed. The type strain of the type species is D1T ( = CGMCC 1.12162T = JCM 18494T).

scholarly journals Phytohabitans suffuscus gen. nov., sp. nov., an actinomycete of the family Micromonosporaceae isolated from plant roots

2010 ◽  
Vol 60 (11) ◽  
pp. 2652-2658 ◽  
Author(s):  
Yuki Inahashi ◽  
Atsuko Matsumoto ◽  
Hirofumi Danbara ◽  
Satoshi Ōmura ◽  
Yōko Takahashi
Keyword(s):  
Type Species ◽  
New Genus ◽  
Gene Sequence ◽  
Novel Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Okinawa Prefecture ◽  
Actinomycete Strain

An actinomycete strain, K07-0523T, was isolated from the roots of an orchid collected in Okinawa prefecture, Japan. 16S rRNA gene sequence analysis indicated that the new strain belonged to the family Micromonosporaceae and the similarity values between strain K07-0523T and the type species of 24 genera in the family Micromonosporaceae were 93.3–97.7 %. Strain K07-0523T contained d-glutamic acid, glycine, d-alanine, meso-diaminopimelic acid, hydroxydiaminopimelic acid and l-lysine in the cell wall. The major menaquinones were MK-9(H6), MK-10(H4) and MK-10(H6). Galactose, glucose, mannose, ribose and xylose were present in the whole-cell sugars. The acyl type of the peptidoglycan was glycolyl. Major fatty acids were anteiso-C17 : 0, iso-C17 : 0, iso-C16 : 0 and iso-C15 : 0. Phosphatidylethanolamine was detected as the major phospholipid and corresponded to phospholipid type II. The G+C content of the genomic DNA was 73 mol%. On the basis of phylogenetic and chemotaxonomic data, the new strain represents a member of a new genus and novel species, namely Phytohabitans suffuscus gen. nov., sp. nov., in the family Micromonosporaceae. The type strain of the type species is K07-0523T (=DSM 45306T=NBRC 105367T).

scholarly journals Winogradskyella thalassocola gen. nov., sp. nov., Winogradskyella epiphytica sp. nov. and Winogradskyella eximia sp. nov., marine bacteria of the family Flavobacteriaceae

2005 ◽  
Vol 55 (1) ◽  
pp. 49-55 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Suk Kyun Han ◽  
Cindy Snauwaert ◽  
Marc Vancanneyt ◽  
...  
Keyword(s):  
Type Strain ◽  
New Genus ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Respiratory Quinone ◽  
Peter The Great ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Major Respiratory Quinone

Three novel heterotrophic, Gram-negative, yellow-pigmented, aerobic, gliding, oxidase- and catalase-positive bacteria were isolated from algae collected in the Gulf of Peter the Great, Sea of Japan. 16S rRNA gene sequence analysis revealed that the strains studied represented members of the family Flavobacteriaceae and showed 93·5–93·8 % similarity with their closest relative, Psychroserpens burtonensis. The DNA G+C content of the strains was 34–37 mol%. The major respiratory quinone was MK-6. The predominant fatty acids were iso-C15 : 0, anteiso-C15 : 0, iso-C15 : 1, iso-C16 : 0-3OH and iso-C17 : 0-3OH. On the basis of their phenotypic, chemotaxonomic, genotypic and phylogenetic characteristics, the newly described bacteria have been assigned to the new genus Winogradskyella gen. nov., as Winogradskyella thalassocola sp. nov. (type strain, KMM 3907T=KCTC 12221T=LMG 22492T=DSM 15363T), Winogradskyella epiphytica sp. nov. (type strain, KMM 3906T=KCTC 12220T=LMG 22491T=CCUG 47091T) and Winogradskyella eximia sp. nov. (type strain, KMM 3944T (=KCTC 12219T=LMG 22474T).

scholarly journals Paraglycomyces xinjiangensis gen. nov., sp. nov., a halophilic actinomycete

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 4263-4269 ◽  
Author(s):  
Xiao-Xia Luo ◽  
Xiao-Xue Han ◽  
Fei Zhang ◽  
Chuan-Xing Wan ◽  
Li-Li Zhang
Keyword(s):  
New Genus ◽  
Gene Sequence ◽  
Aerial Mycelium ◽  
Rrna Gene ◽  
West China ◽  
North West ◽  
The Family ◽  
Nacl Concentration ◽  
Halophilic Actinomycete ◽  
Sequence Similarities

A novel halophilic actinobacterium, designated strain TRM 49201T, was isolated from a hypersaline soil in Xinjiang Province, north-west China. The strain was aerobic, Gram-stain-positive and halophilic. The aerial mycelium was chaotic with irregular branches, and spherical sporangia containing several spherical spores developed at mycelial aggregations. The strain had an optimum NaCl concentration for growth of 8–13 % (w/v). The whole-cell sugar pattern of strain TRM 49201T consisted of xylose and ribose. The predominant menaquinones were MK-9(H4), MK-9(H6) and MK-10(H2). The polar lipids were diphosphatidylglycerol, phosphatidylinositol mannoside, phosphatidylinositol, phosphatidylglycerol, phosphatidylcholine and four unknown phospholipids. The major fatty acids were anteiso-C15 : 0, iso-C16 : 0 and anteiso-C17 : 0. The G+C content of the genomic DNA was 70 mol%. Phylogenetic analysis showed that strain TRM 49201T can be distinguished from representatives of Glycomyces, Stackebrandtia and Haloglycomyces, the three existing genera in the family Glycomycetaceae, based on low 16S rRNA gene sequence similarities ( < 94.42 %). Strain TRM 49201T is thus considered to represent a novel species of a new genus in the family Glycomycetaceae, for which the name Paraglycomyces xinjiangensis gen. nov., sp. nov. is proposed. The type strain of Paraglycomyces xinjiangensis is TRM 49201T ( = NRRL B-24926T = CCTCC AA 2013002T = KACC 17683T).

scholarly journals Thermasporomyces composti gen. nov., sp. nov., a thermophilic actinomycete isolated from compost

2011 ◽  
Vol 61 (1) ◽  
pp. 86-90 ◽  
Author(s):  
Shuhei Yabe ◽  
Yoshifumi Aiba ◽  
Yasuteru Sakai ◽  
Masaru Hazaka ◽  
Akira Yokota
Keyword(s):  
Cell Wall ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Diaminopimelic Acid ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Optimum Growth ◽  
Rrna Gene Sequence ◽  
The Family

A thermophilic, Gram-positive bacterium that formed a branched vegetative mycelium was isolated from compost. The strain, designated I3T, grew at temperatures between 35 and 62 °C, with optimum growth at 50–55 °C. No growth was observed below 29 °C or above 65 °C. The pH range for growth was 5.7–10.0, the pH for optimum growth was 7.0 and no growth was observed below pH 5.6 or above pH 10.8. The DNA G+C content of strain I3T was 69.2 mol%. The major fatty acids found were C15 : 0 iso (14.2 %), C15 : 0 anteiso (12.1 %), C17 : 0 iso (16.3 %) and C17 : 0 anteiso (21.7 %). The major menaquinones were MK-9(H4), MK-10(H4) and MK-11(H4). The cell wall contained glutamic acid, glycine, alanine and ll-diaminopimelic acid in a molar ratio of 1.0 : 3.9 : 0.6 : 0.5. The polar lipids consisted of ninhydrin-positive phosphoglycolipids, phosphatidylglycerol, diphosphatidylglycerol and an unknown glycolipid. The cell-wall sugars were rhamnose and arabinose. 16S rRNA gene sequence analysis assigned this actinomycete to the family Nocardioidaceae, but its 16S rRNA gene sequence shared no more than 95.5 % similarity with those of other members of the family. The chemotaxonomic and phenotypic characteristics of strain I3T differed in some respects from those of members of the genus Actinopolymorpha, the most closely related genus. Therefore, strain I3T represents a novel species in a new genus of the family Nocardioidaceae, for which the name Thermasporomyces composti gen. nov., sp. nov. is proposed. The type strain of the type species is I3T (=JCM 16421T=DSM 22891T).

scholarly journals Sphingobacterium daejeonense sp. nov., isolated from a compost sample

2006 ◽  
Vol 56 (9) ◽  
pp. 2031-2036 ◽  
Author(s):  
Kyoung-Ho Kim ◽  
Leonid N. Ten ◽  
Qing-Mei Liu ◽  
Wan-Taek Im ◽  
Sung-Taik Lee
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Rrna Gene Sequence ◽  
Phenotypic Properties ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
The Family

A Gram-negative, strictly aerobic, rod-shaped, non-motile, non-spore-forming bacterial strain, designated TR6-04T, was isolated from compost and characterized taxonomically by using a polyphasic approach. The organism grew optimally at 30 °C and at pH 6.5–7.0. The isolate was positive for catalase and oxidase tests but negative for gelatinase, indole and H2S production. Comparative 16S rRNA gene sequence analysis showed that strain TR6-04T fell within the radiation of the cluster comprising Sphingobacterium species and clustered with Sphingobacterium mizutaii ATCC 33299T (96.7 % sequence similarity); the similarity to sequences of other species within the family Sphingobacteriaceae was less than 92.0 %. The G+C content of the genomic DNA was 38.7 mol%. The predominant respiratory quinone was MK-7. The major fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 4 (iso-C15 : 0 2-OH and/or C16 : 1 ω7c). These chemotaxonomic data supported the affiliation of strain TR6-04T to the genus Sphingobacterium. However, on the basis of its phenotypic properties and phylogenetic distinctiveness, strain TR6-04T (=KCTC 12579T=LMG 23402T=CCUG 52468T) should be classified as the type strain of a novel species, for which the name Sphingobacterium daejeonense sp. nov. is proposed.

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