vitamin-mk-8 and menaquinone-9

Four novel strains (592

Topics: Actinobacteria; Animals; Antelopes; Bacterial Typing Techniques; Base Composition; Diaminopimelic Acid; DNA, Bacterial; Fatty Acids; Feces; Lagomorpha; Nucleic Acid Hybridization; Peptidoglycan; Phospholipids; Phylogeny; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Tibet; Vitamin K 2

Topics: Arthrobacter; Bacterial Typing Techniques; Base Composition; Cell Wall; DNA, Bacterial; Micrococcaceae; Peptidoglycan; Phosphatidylethanolamines; Phylogeny; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Vitamin K 2

A novel Gram-staining-positive, aerobic, non-motile and coccus-shaped bacterium, designated strain TBS-100T, was isolated from the faeces of a crested ibis, Nipponia nippon. The phylogenetic analysis based on the 16S rRNA gene sequences showed that the closest relative of TBS-100T was Flexivirga alba DSM 24460T with 97.11 % sequence similarity, and that strain TBS-100T belonged to the genus Flexivirga. The optimum growth conditions for strain TBS-100T were 30 °C, at a pH of 7 and in the presence of 0 % (w/v) NaCl. The primary cellular fatty acids of strain TBS-100T were anteiso-C17 : 0 and iso-C17 : 0. The predominant isoprenoid quinones were MK-8 (H4) (70.2 %) and MK-8 (H6) (29.7 %). The polar lipids were diphosphatidylglycerol, phosphatidylinositol, seven unidentified lipids and an unidentified phospholipid. The whole-cell sugars of strain TBS-100T were ribose, glucose, galactose, rhamnose and mannose. The peptidoglycan contained alanine, lysine, glutamic acid, glycine and aspartic acid. The DNA G+C content was 64.8 mol%. The phenotypic, phylogenetic and genotypic analyses indicated that strain TBS-100T represents a novel species of the genus Flexivirga for which the name Flexivirga lutea sp. nov. is proposed. The type strain is TBS-100T (=KCTC 39625T=JCM 31200T). In addition, an emended description of the genus Flexivirga is proposed.

Topics: Actinomycetales; Animals; Bacterial Typing Techniques; Base Composition; Birds; Cell Wall; DNA, Bacterial; Fatty Acids; Feces; Peptidoglycan; Phospholipids; Phylogeny; Republic of Korea; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Vitamin K 2

The novel endophytic actinomycete strain PA1-07T was isolated from the stem of Phyllanthus amarus. The strain displayed the consistent characteristics of members of the genus Streptomyces. The strain produced short spiral spore chains on aerial mycelia. It grew at pH 5-9, at 40 °C and with a maximum of 5 % (w/v) NaCl. It contained ll-diaminopimelic acid, glucose and ribose in the whole-cell hydrolysate. The major cellular menaquinones were MK-9(H4), MK-9(H6) and MK-9(H8), while the major cellular fatty acids were C16 : 0, iso-C14 : 0, iso-C16 : 0 and anteiso-C15 : 0. The polar lipids were composed of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol mannoside and four unknown lipids. The DNA G+C content of the strain was 71 mol%. The strain showed the highest 16S rRNA gene sequence similarity with Streptomyces curacoi JCM 4219T (98.77 %). The DNA-DNA relatedness values between strain PA1-07T and S. curacoi JCM 4219T were lower than 70 %, the cut-off level for assigning strains to the same species. On the basis of these phenotypic and genotypic characteristics, the strain could be distinguished from closely related species of the genus Streptomyces and thus represents a novel species of the genus Streptomyces, for which the name Streptomyces phyllanthi sp. nov. is proposed. The type strain is PA1-07T (=JCM 30865T=KCTC 39785T=TISTR 2346T).

Topics: Bacterial Typing Techniques; Base Composition; Diaminopimelic Acid; DNA, Bacterial; Fatty Acids; Nucleic Acid Hybridization; Phospholipids; Phyllanthus; Phylogeny; Plant Stems; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Streptomyces; Thailand; Vitamin K 2

A Gram-stain-positive, facultatively anaerobic, non-spore-forming, non-flagellated and rod-shaped or ovoid bacterial strain, GHD-1T, was isolated from a tidal flat sediment on the Yellow Sea, South Korea. It grew optimally at 30 °C, at pH 6.5-8.0 and in the presence of 1.0-2.0 % (w/v) NaCl. A neighbour-joining phylogenetic tree based on 16S rRNA gene sequences revealed that strain GHD-1T fell within the cluster comprising the type strains of species of the genus Demequina. Strain GHD-1T exhibited 16S rRNA gene sequence similarity values of 97.0-98.8 % to the type strains of Demequinaglobuliformis, D. salsinemoris, D. flava, D. sediminicola and D. activiva, and of 95.5-96.9 % to the type strains of the other species of the genus Demequina. The peptidoglycan type of strain GHD-1T is A4β based on l-Orn-l-Ser-l-Asp. It contained DMK-9(H4) and DMK-8(H4) as the major menaquinones and anteiso-C15 : 0, C16 : 0, iso-C16 : 0 and anteiso-C17 : 0 as the major fatty acids. The major polar lipids were phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannoside and one unidentified glycolipid. The DNA G+C content of strain GHD-1T was 68.7 mol%, and its DNA-DNA relatedness values with the type strains of five phylogenetically related species of the genus Demequina were 13-29 %. The differential phenotypic properties, together with the phylogenetic and genetic distinctiveness, revealed that strain GHD-1T is separated from other recognized species of the genus Demequina. On the basis of the data presented, strain GHD-1T is considered to represent a novel species of the genus Demequina, for which the name Demequina litorisediminis sp. nov. is proposed. The type strain is GHD-1T (=KCTC 52260T=NBRC 112299T).

Topics: Actinomycetales; Bacterial Typing Techniques; Base Composition; DNA, Bacterial; Fatty Acids; Geologic Sediments; Nucleic Acid Hybridization; Phospholipids; Phylogeny; Republic of Korea; RNA, Ribosomal, 16S; Seawater; Sequence Analysis, DNA; Vitamin K 2

A Gram-stain-positive, aerobic, non-motile, coccoid bacterial strain, 36AT, was isolated from Munnar, in India. Based on the results of 16S rRNA gene sequence analysis, this strain was identified as representing a member of the genus Tersicoccus and was most closely related to the type strain of Tersicoccus phoenicis (98.9 %, sequence similarity), the only other member of the genus, and to members of the related genus Arthrobacter (<96.1 %, sequence similarity). However, the DNA-DNA relatedness of strain 36AT with T. phoenicis DSM 30849T was only 31.9±0.8. The DNA G+C content of strain 36AT was 70.9 mol%. Strain 36AT was an aerobic microbe with optimal growth at 37 °C, pH 6.0-8.0 and NaCl 0.5-3 % (w/v). Cell-wall peptidoglycan of strain 36AT was of type A11.20 (Lys-Ser-Ala2). Polar lipids present were phosphatidylglycerol, diphosphatidylglycerol, phosphatidylinositol, two phospholipids, a glycolipid and four unknown lipids. The major isoprenoid quinones were MK-9 (H2) and MK-8 (H2). Major fatty acids of strain 36AT were anteiso-C15 : 0, anteiso-C17 : 0, iso-C16 : 0 and iso-C15 : 0. The results of phylogenetic, chemotaxonomic and biochemical tests allowed a clear differentiation of strain 36AT, which represents a novel member of the genus Tersicoccus, for which the name Tersicoccus solisilvae sp. nov., is proposed. The type strain is 36AT (=KCTC 33776T=CGMCC 1.15480T).

Topics: Bacterial Typing Techniques; Base Composition; DNA, Bacterial; Fatty Acids; Forests; India; Micrococcaceae; Nucleic Acid Hybridization; Peptidoglycan; Phospholipids; Phylogeny; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Soil Microbiology; Vitamin K 2

A novel, obligately chemolithoautotrophic, sulfur-oxidizing bacterial strain, designated strain gps52(T), was isolated from a rock sample collected near the hydrothermal vents of the Suiyo Seamount in the Pacific Ocean. The cells possessed a Gram-stain-negative-type cell wall and contained menaquinone-8(H4) and menaquinone-9(H4) as respiratory quinones, and C16 : 1ω7c, C16 : 0 and C18 : 1ω7c as major cellular fatty acids. Neither storage compounds nor extensive internal membranes were observed in the cells. Strain gps52(T) grew using carbon dioxide fixation and oxidation of inorganic sulfur compounds with oxygen as electron acceptor. Optimal growth was observed at 32 °C, pH 6.5 and with 3 % (w/v) NaCl. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain gps52(T) belongs to the family Ectothiorhodospiraceae and is different from any other known bacteria, with sequence similarities of less than 93 %. Based on phenotypic and phylogenetic findings, the isolate is considered to represent a novel genus and species in the family Ectothiorhodospiraceae, and the name Thiogranum longum gen. nov., sp. nov. is proposed. The type strain is gps52(T) ( = NBRC 101260(T) = DSM 19610(T)). An emended description of the genus Thiohalomonas is also proposed.

Topics: Bacterial Typing Techniques; Base Composition; Chemoautotrophic Growth; DNA, Bacterial; Ectothiorhodospiraceae; Fatty Acids; Hydrothermal Vents; Molecular Sequence Data; Pacific Ocean; Phylogeny; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Sulfur; Vitamin K 2

A Gram-staining-positive, aerobic, motile and non-spore-forming actinobacteria, designated strain F10(T), was isolated from a deep-sea sediment of the western Pacific Ocean. Phylogenetic and phenotypic properties of the organism supported that it belonged to the genus Nesterenkonia. Strain F10(T) shared highest 16S rRNA gene sequence similarity of 96.8 % with Nesterenkonia aethiopica DSM 17733(T), followed by Nesterenkonia xinjiangensis YIM 70097(T) (96.7 %) and Nesterenkonia alba CAAS 252(T) (96.6 %). The organism grew at 4-50 °C, at pH 7.0-12.0 and in the presence of 0-12 % (w/v) NaCl, with optimal growth occurring at 40 °C, at pH 9.0 and in the presence of 1 % (w/v) NaCl. The peptidoglycan type was A4(alpha), l-Lys-Gly-l-Glu. The polar lipid profile of strain F10(T) consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, two unknown glycolipids and two unknown lipids. The isolate contained MK-9 (92 %) and MK-8 (5.8 %) as the major components of the menaquinone system, and anteiso-C17 : 0 (50.9 %) and anteiso-C15 : 0 (29.8 %) as the predominant fatty acids. The G+C content of the genomic DNA of strain F10(T) was 66.2 mol%. Based on phenotypic, genotypic and phylogenetic analyses, strain F10(T) represents a novel species of the genus Nesterenkonia for which the name Nesterenkonia alkaliphila sp. nov. is proposed. The type strain is F10(T) ( = LMG 28112(T) = CGMCC 1.12781(T) = JCM 19766(T) = MCCC 1A09946(T)).

Topics: Actinobacteria; Bacterial Typing Techniques; Base Composition; DNA, Bacterial; Fatty Acids; Geologic Sediments; Micrococcaceae; Molecular Sequence Data; Nucleic Acid Hybridization; Pacific Ocean; Peptidoglycan; Phylogeny; RNA, Ribosomal, 16S; Seawater; Sequence Analysis, DNA; Vitamin K 2

A Gram-stain-positive, pleomorphic, oxidase-negative, non-motile isolate from the trachea of a white stork from Poland, designated strain 136/3(T), was subjected to a comprehensive taxonomic investigation. A comparative analysis of the 16S rRNA gene sequence showed highest similarities to Corynebacterium mustelae , Corynebacterium pseudotuberculosis , Corynebacterium vitaeruminis and Corynebacterium ulcerans (96.0-96.3%). The quinone system consisted of major amounts of MK-8(H2), minor amounts of MK-9(H2) and traces of MK-8 and MK-9. The polar lipid profile of strain 136/3(T) contained phosphatidylinositol and phosphatidylinositol-mannoside as major lipids and phosphatidylglycerol and an acidic glycolipid in moderate amounts. In addition small amounts of diphosphatidylglycerol, a phospholipid, an aminolipid and two lipids of unknown group affiliation were found. The polyamine pattern was composed of the major components spermidine and spermine. Putrescine, 1,3-diaminopropane, cadaverine, sym-homospermidine and tyramine were found in minor or trace amounts. The diamino acid of the peptidoglycan was meso-diaminopimelic acid. In the fatty acid profile straight-chain, saturated and mono-unsaturated fatty acids predominated (C(18 : 1)ω9c, C(16 : 1)ω7c, C16 : 0, C(18  : 0)). Corynemycolic acids were detected. Physiological traits as well as unique traits of the polar lipid profile and the fatty acid pattern distinguished strain 136/3(T) from the most closely related species. All these results indicate that strain 136/3(T) represents a novel species of the genus Corynebacterium for which we propose the name Corynebacterium pelargi sp. nov. The type strain is 136/3(T) ( =CIP 110778(T) =CCM 8517(T) =LMG 28174(T)).

Topics: Animals; Bacterial Typing Techniques; Birds; Corynebacterium; Diaminopimelic Acid; DNA, Bacterial; Fatty Acids; Glycolipids; Molecular Sequence Data; Peptidoglycan; Phospholipids; Phylogeny; Poland; Polyamines; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Trachea; Vitamin K 2

A novel Gram-reaction-positive, aerobic and non-spore-forming rod-shaped bacterial strain, YS17T, was isolated from ripened Pu'er tea. Growth of the strain was observed at 15-50 °C (optimum 30-37 °C) and at pH 5.5-10.5 (optimum 6.0-9.5). Phylogenetic analysis of 16S rRNA gene sequences indicated that the strain represented a member of the genus Aeromicrobium. The strains most closely related to YS17T were Aeromicrobium erythreum DSM 8599T, Aeromicrobium alkaliterrae JCM 13518T and Aeromicrobium ginsengisoli JCM 14732T, with 16S rRNA gene sequence similarities of 96.8, 96.8 and 96.7 %, respectively. DNA-DNA hybridization of YS17T with the type strains of the most closely related species, A. erythreum DSM 8599T, A. alkaliterrae JCM 13518T and A. ginsengisoli JCM 14732T, yielded reassociation values of 10.9, 16.8 and 10.9 %, respectively. The diagnostic diamino acid of the cell wall peptidoglycan was ll-diaminopimelic acid. The predominant menaquinones were menaquinone MK-9(H4) (76 %) and MK-8(H4) (17 %). The major fatty acids were C16 : 0, 10-methyl C18 : 0 and C18 : 1ω9c. The DNA G+C content of YS17T was 66 mol%. YS17T could be differentiated from recognized species of the genus Aeromicrobium on the basis of phenotypic characteristics, chemotaxonomic differences, phylogenetic analysis and DNA-DNA hybridization data. On the basis of evidence from the polyphasic analyses performed as part of this study a novel species, Aeromicrobium camelliae sp. nov., is proposed, with strain YS17T ( = CGMCC 1.12942T = JCM 30952T) as the type strain.

Topics: Actinomycetales; Bacterial Typing Techniques; Base Composition; China; Diaminopimelic Acid; DNA, Bacterial; Fatty Acids; Molecular Sequence Data; Nucleic Acid Hybridization; Peptidoglycan; Phylogeny; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Tea; Vitamin K 2

A novel anaerobic propionigenic bacterium, strain ADRI(T), was isolated from sediment of an acid rock drainage environment (Tinto River, Spain). Cells were small (0.4-0.6×1-1.7 µm), non-motile and non-spore-forming rods. Cells possessed a Gram-negative cell-wall structure and were vancomycin-resistant. Strain ADRI(T) utilized yeast extract and various sugars as substrates and formed propionate, lactate and acetate as major fermentation products. The optimum growth temperature was 30 °C and the optimum pH for growth was pH 6.5, but strain ADRI(T) was able to grow at a pH as low as 3.0. Oxidase, indole formation, and urease and catalase activities were negative. Aesculin and gelatin were hydrolysed. The predominant cellular fatty acids of strain ADRI(T) were anteiso-C15 : 0 (30.3 %), iso-C15 : 0 (29.2 %) and iso-C17 : 0 3-OH (14.9 %). Major menaquinones were MK-8 (52 %) and MK-9 (48 %). The genomic DNA G+C content was 39.9 mol%. Phylogenetically, strain ADRI(T) was affiliated to the family Porphyromonadaceae of the phylum Bacteroidetes. The most closely related cultured species were Paludibacter propionicigenes with 16S rRNA gene sequence similarity of 87.5 % and several species of the genus Dysgonomonas (similarities of 83.5-85.4 % to the type strains). Based on the distinctive ecological, phenotypic and phylogenetic characteristics of strain ADRI(T), a novel genus and species, Microbacter margulisiae gen. nov., sp. nov., is proposed. The type strain is ADRI(T) ( = JCM 19374(T) = DSM 27471(T)).

Topics: Acids; Bacterial Typing Techniques; Bacteroidetes; Base Composition; DNA, Bacterial; Fatty Acids; Geologic Sediments; Molecular Sequence Data; Phylogeny; Ponds; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Spain; Vitamin K 2

Two groups of Gram-stain positive, aerobic bacterial strains were isolated from raw cow's milk, from a milking machine and from bulk tank milk. Based on their 16S rRNA gene sequences these isolates formed two distinct groups within the genus Corynebacterium. The sequence similarities of the isolates to the type strains of species of the genus Corynebacterium were below 98.4%. The presence of menaquinones MK-8(H2) and MK-9(H2), the predominant fatty acid 18:1 cis 9 and a polar lipid pattern with several phospholipids but without aminolipids was in accord with the characteristics of this genus. The results of DNA-DNA hybridization, biochemical tests and chemotaxonomic properties allowed genotypic and phenotypic differentiation of the strains from all known species of the genus Corynebacterium. Therefore, the isolates were assigned to two novel species of this genus for which the names Corynebacterium frankenforstense sp. nov. (type strain ST18(T) =DSM 45800(T) = CCUG 63371(T)), and Corynebacterium lactis sp. nov. (type strain RW2-5(T) = DSM 45799(T) = CCUG 63372(T)) are proposed, respectively.

Topics: Animals; Bacterial Typing Techniques; Cattle; Corynebacterium; DNA, Bacterial; Fatty Acids; Food Microbiology; Milk; Molecular Sequence Data; Nucleic Acid Hybridization; Peptidoglycan; Phospholipids; Phylogeny; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Vitamin K 2

A novel actinomycete strain, 7402J-48(T), was isolated from an air sample collected from Jeju island, Republic of Korea. Cells were gram-positive, aerobic, flagellated, short rods. Strain 7402J-48(T) showed highest 16S rRNA gene sequence similarity (98.6 %) with Angustibacter luteus TT07R-79(T), and had relatively low sequence similarities (below 95.1 %) with other members of the family Kineosporiaceae. The cell wall of strain 7402J-48(T) contained alanine, glutamic acid and 2,6-diaminopimelic acid, suggesting A1γ-type peptidoglycan. The menaquinones were MK-9(H(4)) and MK-8(H(4)). The acyl type of the cell-wall muramic acid was acetyl. Diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannoside and an unknown lipid were present. The cellular fatty acid profile comprised a large amount of anteiso-C(15 : 0), moderate amounts of C(16 : 0), summed feature 3 (including C(16 : 1)ω7c and/or C(16 : 1)ω6c), C(17 : 0), iso-C(15 : 0), C(16 : 0) N alcohol and C(17 : 1)ω8c, and small amounts of other fatty acids. The DNA G+C content of strain 7402J-48(T) was 73 mol%. Based on its phenotypic and genotypic characteristics, strain 7402J-48(T) ( = KACC 15527(T) = NBRC 108730(T)) is proposed as the type strain of a novel species, Angustibacter aerolatus sp. nov. An emended description of the genus Angustibacter is provided.

Topics: Actinomycetales; Air Microbiology; Bacterial Typing Techniques; Base Composition; Cell Wall; DNA, Bacterial; Fatty Acids; Molecular Sequence Data; Phylogeny; Republic of Korea; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Vitamin K 2

Two strains of aerobic, non-motile, Gram-reaction-positive cocci were independently isolated from geographically distinct spacecraft assembly clean room facilities (Kennedy Space Center, Florida, USA and Centre Spatial Guyanais, Kourou, French Guiana). A polyphasic study was carried out to delineate the taxonomic identity of these two isolates (1P05MA(T) and KO_PS43). The 16S rRNA gene sequences exhibited a high similarity when compared to each other (100 %) and lower than 96.7 % relatedness with Arthrobacter crystallopoietes ATCC 15481(T), Arthrobacter luteolus ATCC BAA-272(T), Arthrobacter tumbae DSM 16406(T) and Arthrobacter subterraneus DSM 17585(T). In contrast with previously described Arthrobacter species, the novel isolates maintained their coccidal morphology throughout their growth and did not exhibit the rod-coccus life cycle typically observed in nearly all Arthrobacter species, except A. agilis. The distinct taxonomic identity of the novel isolates was confirmed based on their unique cell-wall peptidoglycan type (A.11.20; Lys-Ser-Ala2) and polar lipid profile (presence of phosphatidylglycerol, diphosphatidylglycerol, phosphatidylinositol, an unknown phospholipid and two unknown glycolipids). The G+C content of the genomic DNA was 70.6 mol%. The novel strains revealed MK-9(H2) and MK-8(H2) as dominant menaquinones and exhibited fatty acid profiles consisting of major amounts of anteiso-C15 : 0 and anteiso-C17 : 0 and moderate amounts of iso-C15 : 0 discriminating them again from closely related Arthrobacter species. Based on these observations, the authors propose that strains 1P05MA(T) and KO_PS43 be assigned into a separate genus Tersicoccus gen. nov. For this new taxon, comprising strains 1P05MA(T) and KO_PS43, we propose the name Tersicoccus phoenicis gen. nov., sp. nov. (the type species of Tersicoccus), represented by the type strain Tersicoccus phoenicis 1P05MA(T) ( = NRRL B-59547(T) = DSM 30849(T)).

Topics: Arthrobacter; Bacterial Typing Techniques; Base Composition; DNA, Bacterial; Environment, Controlled; Environmental Microbiology; Fatty Acids; Florida; French Guiana; Micrococcaceae; Molecular Sequence Data; Peptidoglycan; Phospholipids; Phylogeny; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Spacecraft; Vitamin K 2

A novel coryneform bacterium, designated strain GIMN1.010T, was isolated from a sand sample collected in the desert in the west of China. Cells were Gram-stain-positive, non-spore-forming, catalase-positive, irregular rods. Comparative 16S rRNA gene sequence analysis demonstrated that strain GIMN1.010T belonged to the genus Corynebacterium and was related closely to Corynebacterium glutamicum ATCC 13032T (98.4 % similarity). However, the level of DNA-DNA relatedness between strain GIMN1.010T and C. glutamicum ATCC 13032T was only 22.4±1.72 %, showing that strain GIMN1.010T represented a genomic species distinct from C. glutamicum. On the basis of phenotypic and phylogenetic data, strain GIMN1.010T is considered to represent a novel species of the genus Corynebacterium, for which the name Corynebacterium deserti sp. nov. is proposed. The type strain is GIMN1.010T (=CCTCC AB 2010341T=NRRL B-59552).

Topics: Base Composition; China; Corynebacterium; Desert Climate; DNA, Bacterial; Fatty Acids; Molecular Sequence Data; Nucleic Acid Hybridization; Phylogeny; RNA, Ribosomal, 16S; Silicon Dioxide; Soil Microbiology; Vitamin K 2