- Volume 66, Issue 2, 2016
Volume 66, Issue 2, 2016
- Notification List
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Notification that new names of prokaryotes, new combinations and new taxonomic opinions have appeared in volume 65, part 11, of the IJSEM
More LessThis listing of names of prokaryotes published in a previous issue of the IJSEM is provided as a service to bacteriology to assist in the recognition of new names and new combinations. This procedure was proposed by the Judicial Commission [Minute 11(ii), Int J Syst Bacteriol 41 (1991), p. 185]. The names given herein are listed according to the Rules of priority (i.e. page number and order of valid publication of names in the original articles).
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- NEW TAXA
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- Archaea
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Halosiccatus urmianus gen. nov., sp. nov., a haloarchaeon from a salt lake
A novel, orange-pigmented, halophilic archaeon, strain DC8T, was isolated from Urmia salt lake in north-west Iran. The cells of strain DC8T were non-motile and pleomorphic, from small rods to triangular or disc shaped. The novel strain needed at least 2.5 M NaCl and 0.02 M MgCl2 for growth. Optimal growth was achieved at 4.0 M NaCl and 0.1 M MgCl2. The optimum pH and temperature for growth were pH 7.5 and 45 °C, respectively, and it was able to grow over a pH range of 7.0 to 8.5 and a temperature range of 25 to 55 °C. Analysis of the 16S rRNA gene sequence showed that strain DC8T was a member of the family Halobacteriaceae; however, its similarity was as low as 90.1 %, 89.3 % and 89.1 % to the most closely related haloarchaeal taxa, including type species of members of the genera Halosimplex, Halobaculum and Halomicrobium, respectively. The G+C content of its DNA was 68.1 mol%. Polar lipid analyses revealed that strain DC8T contained phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, phosphatidylglycerol sulfate and phosphatidic acid. One unknown phospholipid, two major glycolipids and one minor glycolipid were also detected. The only quinone present was MK-8 (II-H2). The physiological, biochemical and phylogenetic differences between strain DC8T and other extremely halophilic archaeal genera with validly published names supported that this strain represents a novel species of a new genus within the family Halobacteriaceae, for which the name Halosiccatus urmianus gen. nov., sp. nov. is proposed. The type strain is strain DC8T ( = IBRC-M 10911T = CECT 8793T).
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- Actinobacteria
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Egicoccus halophilus gen. nov., sp. nov., a halophilic, alkalitolerant actinobacterium and proposal of Egicoccaceae fam. nov. and Egicoccales ord. nov.
A novel Gram-stain-positive, non-motile, moderately halophilic and alkalitolerant actinobacterium, designated EGI 80432T, was isolated from a saline–alkaline soil of Xinjiang province, north-west China. Cells were non-endospore-forming cocci with a diameter of 0.5–0.8 μm. Strain EGI 80432T grew in the presence of 0–9 % (w/v) NaCl (optimum at 3–5 %), and also grew within the pH range 6.0–10.0 (optimum at pH 8.0–9.0) on marine 2216E medium. The peptidoglycan type was A1γ. The whole-cell hydrolysates contained glucose, galactose, mannose and three unknown sugars as major sugars. The predominant menaquinone was MK-9(H4). The major fatty acids were C17 : 1ω8c, summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), C18 : 1ω9c and iso-C15 : 0 The polar lipids comprised diphosphatidylglycerol, phosphatidylglycerol, one unknown phosphoglycolipid, three unknown phospholipids and four unknown polar lipids. The genomic DNA G+C content was 75.2 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain EGI 80432T clustered within the radius of the class Nitriliruptoria. Levels of sequence similarity between strain EGI 80432T and its phylogenetic neighbours Nitriliruptor alkaliphilus ANL-iso2T and Euzebya tangerina F10T were 94.1 and 88.1 %, respectively. Based on morphological, physiological and chemotaxonomic characteristics and phylogenetic analysis, a novel species of a new genus, Egicoccus halophilus gen. nov., sp. nov., is proposed, within the new family and new order Egicoccaceae fam. nov. and Egicoccales ord. nov. in the class Nitriliruptoria. The type strain of Egicoccus halophilus is EGI 80432T ( = CGMCC 1.14988T = KCTC 33612T).
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Monashia flava gen. nov., sp. nov., an actinobacterium of the family Intrasporangiaceae
A novel actinobacterial strain, MUSC 78T, was isolated from a mangrove soil collected from Peninsular Malaysia. The taxonomic status of this strain was determined using a polyphasic approach. Comparative 16S rRNA gene sequence analysis revealed that strain MUSC 78T represented a novel lineage within the class Actinobacteria. Strain MUSC 78T formed a distinct clade in the family Intrasporangiaceae and was related most closely to members of the genera Terrabacter (98.3–96.8 % 16S rRNA gene sequence similarity), Intrasporangium (98.2–96.8 %), Humibacillus (97.2 %), Janibacter (97.0–95.3 %), Terracoccus (96.8 %), Kribbia (96.6 %), Phycicoccus (96.2–94.7 %), Knoellia (96.1–94.8 %), Tetrasphaera (96.0–94.9 %) and Lapillicoccus (95.9 %). Cells were irregular rod-shaped or cocci and stained Gram-positive. The cell-wall peptidoglycan type was A3γ, with ll-diaminopimelic acid as the diagnostic diamino acid. The main cell-wall sugar was mannose and lower amounts of galactose and rhamnose were present. The predominant menaquinone was MK-8(H4). The polar lipid profile consisted of phosphatidylglycerol, phosphatidylinositol, phosphatidylethanolamine, diphosphatidylglycerol and phosphoglycolipid. The predominant fatty acids were iso-C15 : 0, anteiso-C15 : 0 and iso-C16 : 0. The DNA G+C content was 73.1 mol%. Based on this polyphasic study, MUSC 78T exhibited phylogenetic and phenotypic differences from members of the genera of the family Intrasporangiaceae, and therefore a novel species of a new genus, Monashia flava gen. nov., sp. nov., is proposed. The type strain of Monashia flava is MUSC 78T ( = DSM 29621T = MCCC 1K00454T = NBRC 110749T).
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Parviterribacter kavangonensis gen. nov., sp. nov. and Parviterribacter multiflagellatus sp. nov., novel members of Parviterribacteraceae fam. nov. within the order Solirubrobacterales, and emended descriptions of the classes Thermoleophilia and Rubrobacteria and their orders and families
More LessTwo Gram-type-positive, non-spore-forming bacteria, strains D16/0/H6T and A22/0/F9_1T, were isolated from Namibian semiarid savannah soils. 16S rRNA gene sequence analysis revealed 96.6 % identity between the two strains and placed them within the order Solirubrobacterales of the class Thermoleophilia. The closest phylogenetic relatives with validly published names were several strains of the genus Solirubrobacter and the species Conexibacter arvalis, with pairwise sequence similarities of ≤ 94.0 %. Cells of strain D16/0/H6T were ovoid to rod-shaped, whereas strain A22/0/F9_1T formed regular rods. Cells of both strains were motile and divided by binary fission. Colonies were pink and white to pale yellowish/brownish, respectively. Strains D16/0/H6T and A22/0/F9_1T were aerobic, chemoheterotrophic mesophiles with broad temperature (13–43 and 17–43 °C, respectively) and pH (pH 4.5–8.5 and 5.0–9.5) ranges for growth. Complex proteinaceous substrates and glucose were the preferred carbon and energy sources. Strain A22/0/F9_1T also grew on various carboxylic acids. For both strains, the peptidoglycan diamino acid was meso-2,6-diaminopimelic acid. The major quinone was MK-8. As a minor compound, MK-7 occurred in strain D16/0/H6T; strain A22/0F9_1T also contained MK-7, MK-7(H2) and MK-8(H2). Major fatty acids of strain D16/0/H6T were 10-methyl C17 : 0, iso-C16 : 0 and C18 : 1ω9c. Strain A22/0F9_1T contained C18 : 1ω9c, C17 : 1ω8c, C17 : 1ω6c and iso-C16 : 0 as major components. The DNA G+C contents of strains D16/0/H6T and A22/0/F9_1T were 72.8 and 74.0 mol%, respectively. Based on these characteristics, the two isolates are assigned to novel species of the new genus Parviterribacter gen. nov., the type species Parviterribacter kavangonensis sp. nov. (type strain D16/0/H6T = DSM 25205T = LMG 26950T) and a second species Parviterribacter multiflagellatus sp. nov. (type strain A22/0/F9_1T = DSM 25204T = LMG 26949T). As the novel genus and species cannot be clearly assigned to an established family within the order Solirubrobacterales, the novel family Parviterribacteraceae fam. nov. is proposed. Emended descriptions of the classes Thermoleophilia and Rubrobacteria and their orders and families are also provided.
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Cnuibacter physcomitrellae gen. nov., sp. nov., a novel member of the family Microbacteriaceae isolated from the moss of Physcomitrella patens
More LessA Gram-stain-positive, strictly aerobic and rod-shaped bacterium, designated strain XAT, was isolated from the moss, Physcomitrella patens, and characterized by using a polyphasic taxonomic approach. The novel strain was non-spore-forming, non-motile, catalase-positive and oxidase-negative. Its optimal temperature for growth occurred at 28–30 °C and the optimum pH for growth was 7.0–7.5. The major fatty acids comprised anteiso-C15 : 0, iso-C16 : 0, ω-cyclohexyl-C17 : 0 and anteiso-C17 : 0. The polar lipids contained diphosphatidylglycerol, phosphatidylglycerol, seven unidentified glycolipids, one unidentified phospholipid and one unidentified lipid. The major menaquinone was MK-11, followed by MK-10 and MK-12. The peptidoglycan type was B2γ and contained the amino acids 2,4-diaminobutyric acid, alanine, glycine, 3-hydroxy-glutamic acid and small amounts of glutamic acid. The genomic DNA G+C content of strain XAT was 68.2 mol%. Strain XAT exhibited highest 16S rRNA gene sequence similarity with Leifsonia lichenia 2SbT (96.3 %) and Humibacter antri D7-27T (96.2 %). However, phylogenetic analyses showed that strain XAT did not cluster with any species of the genera Leifsonia, Humibacter or other genera of the family Microbacteriaceae and the phylum Actinobacteria. Based on 16S rRNA gene sequence analyses, and the phenotypic and chemotaxonomic data, strain XAT is considered to represent a novel species of a novel genus, for which the name Cnuibacter physcomitrellae gen. nov., sp. nov. is proposed. The type strain is XAT ( = CGMCC 1.15041T = DSM 29843T).
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Streptomyces spongiicola sp. nov., an actinomycete derived from marine sponge
More LessA novel actinomycete (strain HNM0071T) was isolated from an unidentified marine sponge collected from the coast of Sanya City, PR China and its taxonomic position was investigated. The major menaquinones were MK-9 (H6) (65.6 %), MK-9 (H4) (23.8 %) and MK-9 (H8) (10.6 %). The predominant fatty acids were anteiso-C15 : 0 (25.5 %), iso-C16 : 0 (19.5 %) and iso-C15 : 0 (15.4 %). The predominant phospholipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. In addition, four unidentified phospholipids were found. The G+C content of the genomic DNA was 69.8 mol%. Based on 16S rRNA gene sequence analysis, strain HNM0071T was most closely related to Streptomyces wuyuanensis FX61T (97.3 %). The 16S rRNA gene sequence similarity to all other species of the genus Streptomyces was less than 97.0 %. DNA–DNA hybridization between strain HNM0071T and its closest phylogenetic relative, Streptomyces wuyuanensis FX61T, showed 25.0 % relatedness. Based on phenotypic and genotypic characteristics, strain HNM0071T represents a novel species of the genus Streptomyces whose name is proposed as Streptomyes spongiicola sp. nov. The type strain is HNM0071T ( = CCTCCAA2015018T = KCTC 39604T).
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Micromonospora ovatispora sp. nov. isolated from mangrove soil
More LessAn oval spore-forming actinomycete, designated 2701SIM06T, was isolated from mangrove soil in Sanya, Hainan province, China. The 16S rRNA gene sequence of strain 2701SIM06T showed highest similarity to Micromonospora pattaloongensis TJ2-2T (98.6 %), Micromonospora polyrhachis NEAU-ycm2T (98.6 %) and Micromonospora sonneratiae 274745T (98.5 %). Phylogenetic analysis based on both the 16S rRNA gene and the gyrB gene supported this relationship. The chemotaxonomic results confirmed the isolate as a member of the genus Micromonospora, but morphological, physiological and biochemical properties differentiated it from its closest relatives. Based on these observations, strain 2701SIM06T represents a novel species, for which the name Micromonospora ovatispora sp. nov. is proposed. The type strain is 2701SIM06T ( = CCTCC AA 2012009T = DSM 45759T).
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Nonomuraea thermotolerans sp. nov., a thermotolerant actinomycete isolated from mushroom compost
More LessA novel thermotolerant actinomycete, designated strain 3-33-9BT, was isolated from mushroom compost in Nanning, Guangxi province, China. The strain grew at 25–60 °C, pH 7.0–11.0 and with 0–2.0 % (w/v) NaCl. Strain 3-33-9BT formed extensively branched aerial mycelia and substrate mycelia. Spiral spore chains with one to three turns were composed of about 3–15 non-motile spores with a wrinkled surface. The organism contained meso-diaminopimelic acid as the diagnostic diamino acid in the cell-wall peptidoglycan. Whole-cell hydrolysates contained madurose, galactose, glucose and ribose. The cellular fatty acid profile mainly consisted of iso-C16 : 0 and C17 : 0. The quinone system was predominantly composed of MK-9(H4). The DNA G+C content of strain 3-33-9BT was 72.5 mol%. The organism showed a combination of morphological and chemotaxonomic properties typical of members of the genus Nonomuraea. Moreover, 16S rRNA gene sequence analysis also showed that the organism belonged to the genus Nonomuraea; in the 16S rRNA gene tree of the genus Nonomuraea, strain 3-33-9BT formed a distinct phyletic line and was most closely related to Nonomuraea fastidiosa NBRC 14680T (97.3 % 16S rRNA gene sequence similarity). However, phenotypic characteristics of strain 3-33-9BT were significantly different from N. fastidiosa NBRC 14680T, and DNA–DNA hybridization showed little relatedness (31.6–35.2 %) between the two strains. Based on the phenotypic and phylogenetic data, strain 3-33-9BT represents a novel species of the genus Nonomuraea, for which the name Nonomuraea thermotolerans sp. nov. is proposed. The type strain is 3-33-9BT ( = ATCC BAA-2629T = CGMCC 4.7161T).
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Classification of Nonomuraea sp. ATCC 39727, an actinomycete that produces the glycopeptide antibiotic A40926, as Nonomuraea gerenzanensis sp. nov.
Strain ATCC 39727, which produces the antibiotic A40926 (the natural precursor of the antibiotic dalbavancin), was isolated from a soil sample collected in India, and it was originally classified as a member of the genus Actinomadura on the base of morphology and cell-wall composition. A phylogenetic analysis based on 16S rRNA gene sequences indicates that the strain forms a distinct clade within the genus Nonomuraea, and it is most closely related to Nonomuraea angiospora DSM 43173T (98.72 % similarity) and Nonomuraea jabiensis A4036T (98.69 %). The strain forms an extensively branched substrate mycelium and aerial hyphae that form spiral chains of spores with ridged surfaces. The cell wall contains meso-diaminopimelic acid and the whole-cell sugars are glucose, ribose, galactose, mannose and madurose (madurose as the diagnostic sugar). The N-acyl type of muramic acid is acetyl. The predominant menaquinone is MK-9(H4), with minor amounts of MK-9(H2), MK-9(H6) and MK-9(H0). The polar-lipid profile includes diphosphatidylglycerol, phosphatidylethanolamine, hydroxyphosphatidylethanolamine, phosphatidylmethylethanolamine, hydroxyphosphatidylmethylethanolamine, phosphatidylinositol and a series of uncharacterized phospholipids, glycolipids and phosphoglycolipids. The major cellular fatty acids are iso-C16 : 0 and 10-methyl C17 : 0. The genomic DNA G+C content is 71.2 mol%. Significant differences in the morphological, chemotaxonomic and biochemical data, together with DNA–DNA relatedness between strain ATCC 39727 and closely related type strains, clearly demonstrated that strain ATCC 39727 represents a novel species of the genus Nonomuraea, for which the name Nonomuraea gerenzanensis sp. nov. is proposed. The type strain is ATCC 39727T ( = DSM 100948T).
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Tessaracoccus rhinocerotis sp. nov., isolated from the faeces of Rhinoceros unicornis
More LessA novel Gram-stain-positive, non-spore-forming, irregular rod-shaped, non-motile and facultatively anaerobic actinobacterium, designated strain YIM 101269T, was isolated from the faeces of Rhinoceros unicornis living in Yunnan Wild Animal Park, Yunnan province, south-west China. The isolate grew at 10–35 °C, at pH 6–12 and with 0–9 % (w/v) NaCl. The cell-wall peptidoglycan of the organism contained ll-diaminopimelic acid as the diagnostic diamino acid. The polar lipids detected were diphosphatidylglycerol, phosphatidylglycerol, three unidentified polar lipids, one unidentified aminophospholipid and three unknown glycolipids. The major cellar fatty acid was anteiso-C15 : 0.MK-10(H4) was the predominant menaquinone. The DNA G+C content was 69.5 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain YIM 101269T belonged to the genus Tessaracoccus, closely related to Tessaracoccus flavescens DSM 18582T (97.4 % similarity). Based on the evidence from the present study, strain YIM 101269T is considered to represent a novel species of the genus Tessaracoccus, for which the name Tessaracoccus rhinocerotis sp. nov. is proposed. The type strain is YIM 101269T ( = DSM 27579T = CCTCC AB 2013217T).
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Actinorectispora indica gen. nov., sp. nov. isolated from soil, a member of the family Pseudonocardiaceae
The taxonomic positions of three Gram-stain-positive, aerobic strains, designated YIM 75722, 75726 and 75728T, and isolated from a soil sample collected from Kurnool of Andhra Pradesh province, India, were assessed using a polyphasic approach. Growth was observed at pH 7.0–10.0 (optimum pH 7.0), 15–28 °C (optimum 28 °C) and 0–8 % (w/v) NaCl (grew without NaCl). Strains showed cylindrical spores with straight-chain morphology on aerial mycelium, but did not reveal sporangium-like structures or fragmentation of the substrate mycelium. Whole-cell hydrolysates of all strains contained galactose and ribose as the diagnostic sugars and meso-diaminopimelic acid as the diamino acid. The predominant menaquinone was MK-9(H4); MK-9 (H6) and MK-10 (H4) were present in smaller amounts. The phospholipid pattern consisted mainly of diphosphatidylglycerol, phosphatidylglycerol and phosphatidylcholine. The major fatty acids were i-C15 : 0, ai-C15 : 0, i-C17 : 0 and ai-C17 : 0. The genomic DNA G+C content was 68.0 mol%. Phylogenetic analysis, based on 16S rRNA gene sequences, revealed that strain YIM 75728T should be placed within the family Pseudonocardiaceae, in which the strain formed a distinct lineage. The combination of phylogenetic analysis, phenotypic characteristics and chemotaxonomic data support the conclusion that strain YIM 75728T represents a novel species of a novel genus of the family Pseudonocardiaceae for which the name Actinorectispora indica gen. nov., sp. nov., is proposed. Strain YIM 75728T ( = DSM 45410T = CCTCC AA 209065T) is the type strain of Actinorectispora indica. Strain YIM 75728T was considered as the type strain over the other two strains based on the highest sequence read length of the strain.
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Saccharothrix stipae sp. nov., an actinomycete isolated from the rhizosphere of Stipa grandis
More LessAn actinomycete, strain D34T, was isolated from a soil sample collected from the rhizosphere of Stipa grandis at Yunwu Mountain in Ningxia, north-west China. Strain D34T showed highest 16S rRNA gene sequence similarity to Saccharothrix espanaensis DSM 44229T (99.0 %), Saccharothrix texasensis NRRL B-16107T (98.7 %) and Saccharothrix variisporea NRRL B-16296T (98.6 %). The strain contained meso-diaminopimelic acid, alanine, glycine and glutamic acid as major cell-wall amino acids. Mannose, rhamnose and galactose were the characteristic whole-cell sugars. The fatty acid profile consisted predominantly of iso-C15 : 0, iso-C16 : 0, iso-C16 : 1, C17 : 1ω6c, anteiso-C17 : 0 and anteiso-C15 : 0. The phospholipid profile included phosphatidylethanolamine (typical of phospholipid pattern type II). Furthermore, a combination of some physiological and biochemical properties and low DNA–DNA relatedness values indicated that strain D34T was differentiated from members of closely related species. On the basis of these phenotypic, genotypic and chemotaxonomic data, strain D34T represents a novel species of the genus Saccharothrix, for which the name Saccharothrix stipae sp. nov. is proposed. The type strain is D34T ( = JCM 30560T = ACCC19714T).
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Kocuria arsenatis sp. nov., an arsenic-resistant endophytic actinobacterium associated with Prosopis laegivata grown on high-arsenic-polluted mine tailing
A Gram-stain-positive, aerobic, non-motile, coccoid, arsenic-resistant actinobacterial strain, designated CM1E1T, was isolated from the lateral root tissue of Prosopis laegivata grown on a mine tailing in San Luis Potosi, Mexico. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CM1E1T was clustered closely with species of the genus Kocuria, and showed the highest sequence similarity of 98.7 % to Kocuria rhizophila TA68T. The DNA G+C content of strain CM1E1T was 74.5 mol% (T m ). The major fatty acids were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C15 : 0. The peptidoglycan of the cell wall contained lysine and alanine. The major respiratory quinones were MK-7(H2) and MK-8(H2). On the basis of the phenotypic characterization, phylogenetic relationships and chemotaxonomic analyses, strain CM1E1T represents a novel species of the genus Kocuria, for which the name Kocuria arsenatis sp. nov. is proposed. The type strain is CM1E1T ( = CCBAU 101092T = HAMBI 3625T = LMG 28671T).
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Streptosporangium algeriense sp. nov., an actinobacterium isolated from desert soil
The taxonomic position of a novel actinobacterium, strain 169T, isolated from a sample of Algerian Saharan soil, was determined using a polyphasic taxonomic approach. The aerial mycelium produced non-motile, round- to oval-shaped spores, with a smooth surface, which were sessile or carried by short sporophores. Chemotaxonomically, isolate 169T showed the same results as members of the genus Streptosporangium, but madurose, the so far diagnostic sugar of the genus, was not detected in the whole-cell hydrolysate. Despite the absence of sporangia, the 16S rRNA gene sequence analysis confirmed that strain 169T was a member of the genus Streptosporangium. Strain 169T was most closely related to Streptosporangium jomthongense NBRC 110047T (99.3 % 16S rRNA gene sequence similarity), which is the only non-sporangia-forming species reported among the genus. However, DNA–DNA hybridization studies with this species showed 60 % relatedness. Based upon genotypic and phenotypic data, a novel species, Streptosporangium algeriense sp. nov., is proposed, with 169T ( = DSM 45455T = MTCC 11561T = CCUG 62974T) as the type strain.
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- Firmicutes and related organisms
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Brevibacillus sediminis sp. nov., isolated from a hot spring
Strain YIM 78300T, a novel Gram-stain-positive, moderately thermophilic, endospore-forming, rod-shaped, motile bacterium, was recovered from the sediment of a hot spring in the Tagejia Geothermal Field, Angren, Tibet province, western China. Optimum growth was observed at 50–55 °C, at pH 7.0 and with 0–1.5 % (w/v) NaCl. Phylogenetic analysis of the 16S rRNA gene sequence of strain YIM 78300T indicated that it belongs to the genus Brevibacillus. Similarity levels between the 16S rRNA gene sequences of the new isolate and those of the type strains of Brevibacillus members were 96.9–96.3 %; highest sequence similarity was with Brevibacillus thermoruber DSM 7064T. The predominant menaquinone was MK-7 and the major cellular fatty acids were iso-C15 : 0 and iso-C17 : 0. The major polar lipids were phosphatidyl-N-methylethanolamine, phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, two unidentified phospholipids, an unidentified aminophospholipid and two unidentified polar lipids. The G+C content of the genomic DNA of strain YIM 78300T was 57.9 mol%. Based on phylogenetic analyses, and physiological and biochemical characteristics, strain YIM 78300T is considered to represent a novel species of the genus Brevibacillus, for which the name Brevibacillus sediminis sp. nov. is proposed. The type strain is YIM 78300T ( = DSM 29928T = CPCC 100738T).
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Paenibacillus cavernae sp. nov., isolated from soil of a natural cave
More LessA Gram-reaction-variable, strictly aerobic, motile, rod-shaped bacterium, designated strain C4-5T, was isolated from soil of a natural cave. Cells were oxidase- and catalase-positive and formed endospores in sporangia. The 16S rRNA gene sequence comparison showed that the organism formed a distinct clade within the genus Paenibacillus and was most closely related to Paenibacillus contaminans CKOBP-6T ( = KCTC 13623T) (96.85 % 16S rRNA gene sequence similarity) followed by Paenibacillus doosanensis CAU 1005T ( = KCTC 33036T) (94.82 %). The following chemotaxonomic features of strain C4-5T are typical for the genus Paenibacillus: meso-diaminopimelic acid as the diagnostic diamino acid in the cell-wall peptidoglycan, MK-7 as the predominant menaquinone, the major fatty acids of anteiso-C15 : 0, iso-C16 : 0 and C16 : 0 and the DNA G+C content of 54.8 mol%. The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and four unidentified aminophospholipids. The phenotypic and phylogenetic data presented support that strain C4-5T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus cavernae sp. nov. is proposed. The type strain is C4-5T ( = KCTC 33652T = DSM 100100T).
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Bacillus ectoiniformans sp. nov., a halotolerant bacterium isolated from deep-sea sediments
More LessA halotolerant, Gram-positive bacterium (strain NE-14T), which was isolated from sediment samples of the South China Sea, was subjected to a taxonomic study. Strain NE-14T grew well at wide temperature and pH ranges, 10.0–45.0 °C and pH 6–10, with an optimum at 30 °C and pH 8.0, respectively. Growth of strain NE-14T was observed at total salt concentrations of 0–10 % (w/v) with optimum at 2 % (w/v). Phylogenetic analysis based on 16S rRNA gene sequence comparison indicated that the isolate belongs to the genus Bacillus. Strain NE-14T was related most closely to Bacillus shackletonii LMG 18435T, Bacillus bataviensis LMG 21833T, Bacillus idriensis SMC 4352-2T and Bacillus drentensis LMG 21831T with 16S rRNA gene sequence similarities of 96.2, 95.9, 95.8 and 95.7 %, respectively. DNA–DNA hybridization between strain NE-14T and B. shackletonii LMG 18435T, B. bataviensis LMG 21833T, B. idriensis SMC 4352-2T and B. drentensis LMG 21831T gave reassociation values of about 27.4, 22.4, 16.4 and 15.9 %, respectively. The DNA G+C content of strain NE-14T was 39.2 mol%. The predominant isoprenoid quinone was menaquinone 7 (MK-7). The cell-wall peptidoglycan contained meso-diaminopimelic acid as the diagnostic diamino acid. The predominant cellular fatty acids of strain NE-14T were iso-C15 : 0 and anteiso-C15 : 0. The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and phospholipid. Based on the phenotypic and phylogenetic characteristics, it is proposed that strain NE-14T be classified as representing a novel species of the genus Bacillus, for which the name Bacillus ectoiniformans sp. nov. is proposed. The type strain is NE-14T ( = DSM 28970T = JCM 30397T).
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Saccharibacillus deserti sp. nov., isolated from desert soil
More LessA Gram-stain-positive, facultatively anaerobic bacterial strain, designated WLJ055T, with polar and subpolar flagella was isolated from the top layer of desert soil from Erdos, Inner Mongolia, northern China. Phylogenetic analysis, based on 16S rRNA gene sequences, revealed that strain WLJ055T was a member of the genus Saccharibacillus, and shared 97.17–97.24 % 16S rRNA gene sequence similarities with Saccharibacillus sacchari GR21T and Saccharibacillus kuerlensis HR1T. The major polar lipids of strain WLJ055T were diphosphatidylglycerol, phosphatidylglycerol, an unknown aminophospholipid, two unknown glycolipids and an unknown phosphoglycolipid. MK-7 was the predominant menaquinone, while anteiso-C15 : 0, C16 : 0, iso-C16 : 0, and anteiso-C17 : 0 were the major cellular fatty acids. Its genomic DNA G+C content was 55.5 mol%. DNA–DNA hybridization revealed that strain WLJ055T showed 45 ± 5 % and 40 ± 5 % genomic DNA relatedness with its two closest relatives, S. sacchari GR21T and S. kuerlensis HR1T, respectively. The results of physiological and biochemical tests allowed the discrimination of strain WLJ055T from its phylogenetic relatives. Saccharibacillus deserti sp. nov. is therefore proposed to be a novel species of the genus Saccharibacillus, with strain WLJ055T ( = CGMCC 1.15276T = KCTC 33693T) as the type strain.
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Haloimpatiens lingqiaonensis gen. nov., sp. nov., an anaerobic bacterium isolated from paper-mill wastewater
An anaerobic bacterium, strain ZC-CMC3T, was isolated from a wastewater sample in Zhejiang, China. Cells were Gram-stain-positive, peritrichous, non-spore-forming, rod-shaped (0.6–1.2 × 2.9–5.1 μm) and catalase- and oxidase-negative. Strain ZC-CMC3T was able to grow at 25–48 °C (optimum 43 °C) and pH 5.5–8.0 (optimum pH 7.0). The NaCl concentration range for growth was 0–3 % (w/v) (optimum 0 %). The major polar lipids of the isolate were diphosphatidylglycerol, phosphatidylglycerol, several phospholipids and glycolipids. Main fermentation products from PYG medium were formate, acetate, lactate and ethanol. Substrates which could be utilized were peptone, tryptone, yeast extract and beef extract. No respiratory quinone was detected. The main fatty acids were C14 : 0, C16 : 0, C16 : 1 cis 7 and C16 : 1 cis 9. The DNA G+C content was 30.0 mol%. 16S rRNA gene sequence analysis revealed that the isolate belonged to the family Clostridiaceae. Phylogenetically, the most closely related species were Oceanirhabdus sediminicola NH-JN4T (92.8 % 16S rRNA gene sequence similarity) and Clostridium tepidiprofundi SG 508T (92.6 %). On the basis of phylogenetic, chemotaxonomic and phenotypic characteristics, strain ZC-CMC3T represents a novel species of a new genus in the family Clostridiaceae, for which the name Haloimpatiens lingqiaonensis gen. nov., sp. nov. is proposed. The type strain of the type species is ZC-CMC3T ( = KCTC 15321T = JCM 19210T = CCTCC AB 2013104T).
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Brevibacillus gelatini sp. nov., isolated from a hot spring
More LessTwo Gram-stain-positive, moderately thermophilic, endospore-forming, rod-shaped, motile bacteria designated PDF4T and PDF10, were isolated from Camkoy hot spring in the provinces of Aydın, Turkey and were characterized in order to determine their phylogenetic position. 16S rRNA gene sequence analysis revealed that the two strains belonged to the genus Brevibacillus. Strain PDF4T showed highest 16S rRNA gene sequence similarity to strain PDF10 (99.5 %), Brevibacillus brevis DSM 30T (98.9 %), Brevibacillus parabrevis DSM 8376T (98.6 %) and Brevibacillus formosus DSM 9885T (98.5 %); similarities to other species of the genus Brevibacillus were less than 98.5 %. The predominant fatty acids of strain PDF4T were anteiso-C15 : 0 (60.0 %) and iso-C15 : 0 (22.3 %). The polar lipids of strain PDF4T consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine, an unknown phospholipid, two unknown lipid, an unknown aminophospholipid and two unknown aminolipids. MK-7 was detected as a sole respiratory quinone, and the cell wall of strain PDF4T contained meso-diaminopimelic acid. The DNA G+C content of strain PDF4T was 51.7 mol%. DNA–DNA hybridization showed less than 60 % relatedness between strain PDF4T and type strains of the most closely related species given above. Based on these data, the two strains are considered to represent a novel species of the genus Brevibacillus, for which the name Brevibacillus gelatini sp. nov. is proposed. The type strain is PDF4T ( = NCCB 100559T = DSM 100115T).
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Clostridium liquoris sp. nov., isolated from a fermentation pit used for the production of Chinese strong-flavoured liquor
More LessStrain BEY10T was isolated from an old fermentation pit, which had been used for the production of Chinese strong-flavoured liquor for over 20 years. The strain was strictly anaerobic, Gram-stain positive, rod-shaped, non-motile and spore-forming. Strain BEY10T grew at temperatures of 22–47 °C (optimum 37 °C), at pH 5.5–9.0 (optimum pH 7.5–8.5) and with NaCl concentrations of 0–4 % (w/v) (optimum 0 %). The isolate was able to utilize glucose, mannitol, lactose, xylose, maltose, glycerol, cellobiose and trehalose as carbon sources for growth. The major end-products from glucose fermentation were ethanol and butyric acid. The polar lipids consisted of phosphatidylglycerol, phosphatidylethanolamine, phospholipids, a glycolipid and an aminolipid. The predominant fatty acids (>10 %) were C20 : 0, C18 : 0, C16 : 0, C12 : 0 and C14 : 0. The DNA G+C content was 34.4 mol%. Sequence analysis of the 16S rRNA gene indicated that strain BEY10T belongs to the genus Clostridium in the family Clostridiaceae. The closest phylogenetic neighbour is Clostridium lundense DSM 17049T, showing 97.6 % 16S rRNA gene sequence similarity with strain BEY10T. DNA–DNA relatedness values of strain BEY10T with Clostridium lundense DSM 17049T, Clostridium tetanomorphum DSM 4474T and Clostridium pascui DSM 10365T were 58.8 %, 57.9 % and 42.2 %, respectively. This characterization based on phylogenetic, phenotypic and chemotaxonomic evidence demonstrated that strain BEY10T represents a novel species of the genus Clostridium, for which the name Clostridium liquoris sp. nov. is proposed. The type strain is BEY10T ( = ACCC 00785T = DSM 100320T).
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Paenibacillus marchantiophytorum sp. nov., isolated from the liverwort Herbertus sendtneri
More LessA Gram-stain-positive, aerobic, motile, rod-shaped, endospore-forming bacterium, designated strain R55T, was isolated from the liverwort Herbertus sendtneri growing at Gawalong glacier, Tibet, and characterized by using a polyphasic taxonomic approach. The major fatty acids of strain R55T were anteiso-C15 : 0, C16 : 0 and iso-C16 : 0. Diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol were the predominant polar lipids and occurred along with two unidentified aminophospholipids, one unidentified phospholipid and one unidentified aminolipid. Strain R55T contained MK-7 as the dominant menaquinone and meso-diaminopimelic acid as the major diagnostic diamino acid in the cell-wall peptidoglycan. The G+C content of the genomic DNA was 36.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain R55T was affiliated to species of the genus Paenibacillus, and was related most closely to Paenibacillus ferrarius CY1T (97.1 % similarity). However, the DNA–DNA relatedness between this strain and strain R55T was only 44.1 %. Based on phenotypic, chemotaxonomic and phylogenetic properties, strain R55T is considered to represent a novel species of the genus Paenibacillus, for which the name Paenibacillus marchantiophytorum sp. nov. is proposed. The type strain is R55T ( = CGMCC 1.15043T = DSM 29850T).
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Phylogenetic comparison of Desulfotomaculum species of subgroup 1a and description of Desulfotomaculum reducens sp. nov.
More LessA genome and physiological comparison was made of the type strains of Desulfotomaculum species belonging to subgroup 1a and of ‘Desulfotomaculum reducens’ strain MI-1. Phenotypically, ‘Desulfotomaculum reducens’ strain MI-1 can be distinguished from the other described Desulfotomaculum species of subgroup 1a by its ability to grow with propionate and butyrate. In addition, the strain is able to use a variety of metals as electron acceptors. Metal reduction has not been tested in the other species, but seems likely based on our genome analysis. Phylogenetic 16S rRNA gene sequence analysis and the average nucleotide identity between the genomes of the species of subgroup 1a show that strain MI-1 represents a novel species within the Desulfotomaculum 1a subgroup, Desulfotomaculum reducens sp. nov. The type strain is MI-1T.
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Reclassification of Eubacterium rectale (Hauduroy et al. 1937) Prévot 1938 in a new genus Agathobacter gen. nov. as Agathobacter rectalis comb. nov., and description of Agathobacter ruminis sp. nov., isolated from the rumen contents of sheep and cows
Three strains of a butyrate-producing bacterium were isolated from the rumen contents of grazing sheep and cows. The strains were anaerobic, with Gram-positive cell walls, straight-to-slightly-curved, rod-shaped, non-spore-forming and single flagellate. C14 : 1, C14 : 0, C16 : 0 and C16 : 1 were the predominant fatty acids. The cell-wall peptidoglycan type was A1γ. The DNA G+C content varied from 41.4 to 42.2 mol%. 16S rRNA gene sequence similarities between the isolates and Eubacterium rectale, Roseburia hominis and Roseburia intestinalis were found to be 96, 95 and 95 %, respectively. The phylogenetic tree showed that the strains constituted a different taxon, separate from other taxa with validly published names and forming a cluster with strains of Eubacterium rectale. On the basis of phenotypic, chemotaxonomic and phylogenetic results (16S RNA, dnaK, groEL, atpA genes), the isolates are considered to represent a novel species of a new genus of the family Lachnospiraceae, for which the name Agathobacter ruminis gen. nov., sp. nov. is proposed (type strain JK623T = DSM 29029T = LMG 28559T). We also propose the transfer of Eubacterium rectale to the new genus as Agathobacter rectalis gen. nov., comb nov. This new genus represents saccharoclastic, chemo-organotrophic and obligatory anaerobic, non-spore-forming rods with Gram-positive membrane. The main fermentation products on peptone yeast glucose (PYG) medium were butyrate, acetate, hydrogen and lactate. The type species of the genus is Agathobacter rectalis gen. nov., comb nov. ( Prévot, 1938 ) with type strain ATCC 33656T ( = JCM 17463T).
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Lachnotalea glycerini gen. nov., sp. nov., an anaerobe isolated from a nanofiltration unit treating anoxic groundwater
A strictly anaerobic bacterium, strain DLD10T, was isolated from a biofilm that developed on a nanofiltration membrane treating anoxic groundwater using glycerol as substrate. Cells were straight to slightly curved rods 0.2–0.5 μm in diameter and 1–3 μm in length, non-motile and non-spore-forming. The optimum temperature and pH for growth were 30 °C and pH 7.0. Strain DLD10T was able to grow in the presence of 0.03–4.5 % (w/v) NaCl. Substrates utilized by strain DLD10T included glycerol and various carbohydrates (glucose, sucrose, fructose, mannose, arabinose, pectin, starch, xylan), which were mainly converted to ethanol, acetate, H2 and formate. Thiosulphate, sulphur and Fe(III) were used as electron acceptors, but sulphate, fumarate and nitrate were not. The predominant membrane fatty acids were C16 : 0, iso-C17 : 1 and C17 : 1ω8c. The DNA G+C content was 36.4 mol%. Strain DLD10T belongs to the family Lachnospiraceae and is distantly related to Clostridium populeti DSM 5832T, Hespellia porcina DSM 15481T and Robinsoniella peoriensis CCUG 48729T (93 % 16S rRNA gene sequence similarity). Physiological characteristics and phylogenetic analysis indicated that strain DLD10T is a representative of a novel species of a new genus, for which the name Lachnotalea glycerini gen. nov., sp. nov. is proposed. The type strain of Lachnotalea glycerini is DLD10T ( = DSM 28816T = JCM 30818T).
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Bacillus oceani sp. nov., isolated from seawater
More LessTwo Gram-staining-positive, endospore-forming, rod-shaped bacterial strains, designated strain SW109T and strain W006, were isolated from a seawater sample collected from the Indian Ocean. The strains were strictly aerobic, catalase- and oxidase-positive and motile by peritrichous flagella. The predominant cellular fatty acids (>10 %) were anteiso-C15 : 0, iso-C15 : 0 and iso-C14 : 0. The major menaquinone was menaquinone-7 (MK-7) and the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The genomic DNA G+C content of strain SW109T and strain W006 was 46.3 and 46.1 mol%, respectively. Phylogenetic analyses based on 16S rRNA gene sequences indicated that the two strains represented a novel member of the genus Bacillus, showing the highest similarity with Bacillus halodurans LMG 7121T and Bacillus okuhidensis DSM 13666T (96.4 and 96.2 % sequence similarity, respectively). On the basis of phylogenetic inference and phenotypic characteristics, it is proposed that the two strains represent a novel species of the genus Bacillus, for which the name Bacillus oceani sp. nov. is proposed. The type strain is SW109T ( = CGMCC 1.12347T = DSM 100579T).
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Paenibacillus etheri sp. nov., able to grow on media supplemented with methyl tert-butyl ether (MTBE) and isolated from hydrocarbon-contaminated soil
More LessA bacterial strain, designated SH7T, was isolated from the hydrocarbon-contaminated soil of a pilot plant (Granada, Spain). The strain was selected for its capacity to grow in media supplemented with methyl tert-butyl ether (MTBE) as sole energy and carbon source. Strain SH7T was a Gram-stain-positive, facultatively anaerobic, spore-forming, rod-shaped bacterium. Phylogenetic analysis using 16S rRNA gene sequences showed that strain SH7T belongs to a cluster comprising species of the genus Paenibacillus and was closely related to Paenibacillus borealis KK19T (97 % 16S rRNA gene sequence similarity) and Paenibacillus odorifer TOD45T (98 %). DNA–DNA hybridization tests showed low relatedness of strain SH7T with the type strains of Paenibacillus borealis (16.9 ± 1.5 %) and Paenibacillus odorifer (16.6 ± 2.1 %). The cell wall of strain SH7T contained meso-diaminopimelic acid. The predominant respiratory quinone was MK-7, and anteiso-C15 : 0 (32.9 %) and C16 : 0 (29.0 %) were the predominant cellular fatty acids. Phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol and three unknown aminophospholipids were the major phospholipids. The DNA G+C content was 44.3 mol%. Data obtained in this study indicate that strain SH7T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus etheri sp. nov. is proposed. The type strain is SH7T ( = CECT 8558T = DSM 29760T).
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Paenibacillus nasutitermitis sp. nov., isolated from a termite gut
More LessA Gram-stain-positive, non-motile, aerobic and terminal-endospore-forming rod-shaped bacterium, strain P5-1T, was isolated from the hindgut of a wood-feeding higher termite, Nasutitermes sp. Phylogenetic analysis of 16S rRNA gene sequences showed that the strain was closely related to Paenibacillus sepulcri CCM 7311T (97.5 % similarity). Growth was observed at 10–40 °C (optimum, 30 °C) and at pH 5.5–9.0 (optimum, pH 7.5). The DNA G+C content of strain P5-1T was 48.9 mol%. Cells contained menaquinone 7 (MK-7) as the sole respiratory quinone and the major fatty acids were anteiso-C15 : 0 and iso-C15 : 0. The cellular polar lipids comprised phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, one unidentified phospholipid, one unidentified glycolipid and one unidentified aminophospholipid. The diamino acid of the cell-wall peptidoglycan was meso-diaminopimelic acid. Based on the phylogenetic, chemotaxonomic and phenotypic data obtained within this study, strain P5-1T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus nasutitermitis sp. nov. is proposed. The type strain is P5-1T ( = CGMCC 1.15178T = NBRC 111536T).
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Advenella alkanexedens sp. nov., an alkane-degrading bacterium isolated from biogas slurry samples
More LessA novel aerobic bacterium, designated strain LAM0050T, was isolated from a biogas slurry sample, which had been enriched with diesel oil for 30 days. Cells of strain LAM0050T were gram-stain-negative, non-motile, non-spore-forming and coccoid-shaped. The optimal temperature and pH for growth were 30–35 °C and 8.5, respectively. The strain did not require NaCl for growth, but tolerated up to 5.3 % (w/v) NaCl. Phylogenetic analysis of 16S rRNA gene sequences revealed that strain LAM0050T was a member of the genus Advenella, and was most closely related to Advenella faeciporci KCTC 23732T, Advenella incenata CCUG 45225T, Advenella kashmirensis DSM 17095T and Advenella mimigardefordensis DSM 17166T, with 98.1, 96.6, 96.6 and 96.3 % sequence similarity, respectively. The DNA–DNA hybridization relatedness between strain LAM0050T and A. faeciporci KCTC 23732T was 41.7 ± 2.4 %. The genomic DNA G+C content was 51.2 mol%, as determined by the T m method. The major fatty acids of strain LAM0050T were C16 : 0, C17 : 0 cyclo, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c). The predominant ubiquinone was Q-8. The main polar lipids were diphosphatidyglycerol, phosphatidylethanolamine, phosphatidylmethylethanolamine and four unidentified phospholipids. Based on the phenotypic and genotypic properties, strain LAM0050T is suggested to represent a novel species of the genus Advenella, for which the name Advenella alkanexedens sp. nov., is proposed, the type strain is LAM0050T ( = ACCC 06485T = JCM 30465T).
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Sellimonas intestinalis gen. nov., sp. nov., isolated from human faeces
More LessA Gram-stain-positive and obligately anaerobic bacterial strain, BR72T, forming ivory yellow colonies was isolated from a faecal sample of a healthy Korean woman. 16S rRNA gene sequence analysis indicated that strain BR72T belongs to Clostridium cluster XIVa and represents a distinct phyletic line within the family Lachnospiraceae. The most closely related strains were Clostridium nexile DSM 1787T (94.1 % 16S rRNA gene sequence similarity), Coprococcus comes ATCC 27758T (93.5 %), Ruminococcus torques ATCC 27756T (93.5 %), Ruminococcus lactaris ATCC 29176T (93.5 %), Clostridium aerotolerans DSM 5434T (93.1 %) and Eubacterium fissicatena DSM 3598T (92.9 %). The DNA G+C content of strain BR72T based on its genome sequence was 45.3 mol%. The major cellular fatty acids were C16 : 0, C14 : 0, and iso-C17 : 1 I and/or anteiso-C17 : 1 B. Acetic acid was produced from glucose fermentation. Other physiological and biochemical comparisons allowed the phenotypic differentiation of strain BR72T from the members of the family Lachnospiraceae. Based on the phylogenetic and phenotypic findings, this strain is considered to represent a novel species of a new genus belonging to the family Lachnospiraceae and the name Sellimonas intestinalis gen. nov., sp. nov. is proposed. The type strain of Sellimonas intestinalis is BR72T ( = KCTC 15479T = JCM 30749T).
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Description of Domibacillus iocasae sp. nov., isolated from deep-sea sediment, and emended description of the genus Domibacillus
Qing-Lei Sun and Li SunIn this study, we report a novel Gram-stain-positive bacterium, designated strain S6T, isolated from deep-sea sediment in Okinawa Trough. Growth of strain S6T occurred at 10–45 °C (optimum, 35 °C), at pH 6.0–11.0 (optimum, 8.0) and with 0–8 % (w/v) NaCl (optimum, 3 %). Phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain S6T belonged to the genus Domibacillus. The closest phylogenetic neighbours of strain S6T were Domibacillus robiginosus WS 4628T ( = DSM 25058T) (98.6 %16S rRNA gene sequence similarity), D. indicus SD111T ( = DSM 28032T) (97.6 %), D. enclensis NIO-1016T ( = DSM 25145T) (97.6 %), and ‘D. tundrae’ PAMC 80007 ( = DSM 29572) (97.6 %). Levels of similarity between strain S6T and other close relatives were below 96 %. The levels of DNA–DNA relatedness between strain S6T and its closest relatives in the genus Domibacillus were well below 70 %. The genomic DNA G+C content of strain S6T was 44.4 mol%. The major menaquinone was MK-6. The polar lipids of strain S6T contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol mannosides, phosphatidylethanolamine and three unknown phospholipids. Strain S6T harboured meso-diaminopimelic acid as the diagnostic diamino acid and an A1γ type of peptidoglycan. The major cell-wall sugars of strain S6T were xylose and glucose. Phylogenetic, physiological, biochemical and morphological analyses suggest that this strain represents a novel species of the genus Domibacillus, for which the name Domibacillus iocasae sp. nov. is proposed. The type strain is S6T ( = DSM 29979T = CCTCC AB 2015183T). An emended description of the genus Domibacillus is also provided.
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Proposal to restrict the genus Clostridium Prazmowski to Clostridium butyricum and related species
More LessThe genus Clostridium as presently constituted is phylogenetically and phenotypically incoherent. Data from polyphasic taxonomic studies indicate that the genus comprises a collection of very heterogeneous species. Numerous phylogenetic studies, principally based on sequencing of the 16S rRNA gene, indicate that the genus Clostridium should be restricted to Clostridium cluster I as Clostridium sensu stricto. Despite these findings, authors continue to add novel species to the genus Clostridium that do not fall within the radiation of cluster I and the type species Clostridium butyricum, thus perpetuating the confusion associated with the taxonomy of this group. Here, we formally propose that members of the genus Clostridium Prazmowski be restricted to the type species C. butyricum and cluster I species. Eubacterium moniliforme, Eubacterium tarantellae, Sarcina maxima and Sarcina ventriculi should be transferred to the genus Clostridium as Clostridium moniliforme comb. nov., Clostridium tarantellae comb. nov., Clostridium maximum comb. nov. and Clostridium ventriculi comb. nov. A novel genus, Hathewaya gen. nov., is proposed for the species Clostridium histolyticum, Clostridium limosum and Clostridium proteolyticum as Hathewaya histolytica gen. nov. comb. nov., Hathewaya limosa comb. nov. and Hathewaya proteolytica comb. nov. The type species of the genus Hathewaya is Hathewaya histolytica.
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Bacillus cucumis sp. nov. isolated from the rhizosphere of cucumber (Cucumis sativus)
A facultative anaerobic, Gram-positive staining, endospore-forming bacterium, isolated from the rhizosphere of cucumber (Cucumis sativus), was taxonomically investigated. Based on 16S rRNA gene sequence similarity comparisons, strain AP-6T clustered together with other species of the genus Bacillus and showed highest similarities with Bacillus drentensis LMG 21831T (99.1 %), Bacillus vireti LMG 21834T (98.7 %) and Bacillus soli LMG 21838T (98.5 %). The 16S rRNA gene sequence similarity to the sequences of the type strains of other species of the genus Bacillus was 98.5 % or less. Chemotaxonomic features supported the grouping of the strain in the genus Bacillus; for example, the major fatty acids were anteiso-C15 : 0, iso-C15 : 0 and C16 : 0, the polar lipid profile contained the major components diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and an unidentified glycolipid, the major quinone was menaquinone MK-7 and the major compound in the polyamine pattern was spermidine. Additionally, DNA–DNA hybridization with B. drentensis LMG 21831T, B. vireti LMG 21834T and B. soli LMG 21838T resulted in relatedness values that were clearly below 70 %. Physiological and biochemical test results were also different from those of the most closely related species. As a consequence, AP-6T represents a novel species of the genus Bacillus, for which the name Bacillus cucumis sp. nov. is proposed, with AP-6T ( = CIP 110974T = CCM 8651T) as the type strain.
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Streptococcus oricebi sp. nov., isolated from the oral cavity of tufted capuchin
More LessA Gram-stain-positive, catalase-negative, coccus-shaped organism was isolated from the oral cavity of tufted capuchin (Cebus apella). Comparative 16S rRNA gene sequence analysis suggested classification of the organism within the genus Streptococcus. Strain M8T was related most closely to Streptococcus oralis ATCC 35037T (96.17 % similarity) followed by Streptococcus massiliensis CCUG 49690T (95.90 %) based on the 16S rRNA gene. Strain M8T was related most closely to S. massiliensis CCUG 49690T (86.58 %) based on the RNA polymerase β subunit-encoding gene (rpoB), and to Streptococcus tigurinus AZ_3aT (81.26 %) followed by S. massiliensis CCUG 49690T (80.45 %) based on the 60 kDa heat-shock protein gene (groEL). The phylogenetic trees of 16S rRNA, rpoB and groEL gene sequences showed that strain M8T was most closely related to S. massiliensis. Based on phenotypic characterization as well as 16S rRNA gene and housekeeping gene (rpoB and groEL) sequence data, a novel taxon, Streptococcus oricebi sp. nov. (type strain M8T = JCM 30719T = DSM 100101T), is proposed.
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- Proteobacteria
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Description of ‘Candidatus Berkiella aquae’ and ‘Candidatus Berkiella cookevillensis’, two intranuclear bacteria of freshwater amoebae
Two novel bacteria of the phylum Proteobacteria were isolated during searches for amoeba-resistant micro-organisms in natural and constructed water systems. Strain HT99 was isolated from amoebae found in the biofilm of an outdoor hot tub in Cookeville, Tennessee, USA, and strain CC99 was isolated from amoebae in the biofilm of a cooling tower in the same city. Both bacteria were Gram-stain-negative cocci to coccobacilli, unculturable on conventional laboratory media, and were found to be intranuclear when maintained in Acanthamoeba polyphaga. The genomes of both isolates were completely sequenced. The genome of CC99 was found to be 3.0 Mbp with a 37.9 mol% DNA G+C content, while the genome of HT99 was 3.6 Mbp with a 39.5 mol% DNA G+C content. The 16S rRNA gene sequences of the two isolates were 94 % similar to each other. Phylogenetic comparisons of the 16S rRNA, mip and rpoB genes, the DNA G+C content and the fatty acid composition demonstrated that both bacteria are members of the order Legionellales, and are most closely related to Coxiella burnetii. The phenotypic and genetic evidence supports the proposal of novel taxa to accommodate these strains; however, because strains HT99 and CC99 cannot be cultured outside of the amoeba host, the respective names ‘Candidatus Berkiella aquae’ and ‘Candidatus Berkiella cookevillensis’ are proposed.
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Arcobacter pacificus sp. nov., isolated from seawater of the South Pacific Gyre
More LessA Gram-stain-negative, rod-shaped, slightly curved, non-spore-forming strain, designated SW028T, was isolated from surface seawater (26° 29′ S 137° 56′ W) of the South Pacific Gyre during the Integrated Ocean Drilling Program Expedition 329. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain SW028T belonged to the genus Arcobacter and it showed the highest sequence similarity with Arcobacter molluscorum LMG 25693T (95.50 %). The dominant fatty acids of strain SW028T were C18 : 1ω7c, C16 : 1ω7c and C16 : 0. The only respiratory quinone detected was menaquinone-6. The major polar lipids were phosphatidylglycerol, phosphatidylethanolamine and an unidentified phospholipid. The DNA G+C content was 27.1 mol%. The phylogenetic position of the novel strain was further confirmed by analysis of the housekeeping genes rpoB, gyrB and atpA. On the basis of phenotypic, chemotaxonomic and phylogenetic analyses, strain SW028T represents a novel species of the genus Arcobacter, for which the name Arcobacter pacificus is proposed. The type strain is SW028T ( = DSM 25018T = JCM 17857T = LMG 26638T = CGMCC NO.1.11011T).
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Testudinibacter aquarius gen. nov., sp. nov., a member of the family Pasteurellaceae isolated from the oral cavity of freshwater turtles
A total of 13 Pasteurellaceae isolates from healthy freshwater turtles were characterized by genotypic and phenotypic tests. Phylogenetic analysis of partial 16S rRNA and rpoB gene sequences showed that the isolates investigated formed a monophyletic group. The closest related species based on 16S rRNA gene sequencing was Chelonobacter oris CCUG 55632T with 94.4 % similarity and the closest related species based on rpoB gene sequence comparison was [Pasteurella] testudinis CCUG 19802T with 91.5 % similarity. All the investigated isolates exhibited phenotypic characteristics of the family Pasteurellaceae. However, they could be separated from existing genera of the Pasteurellaceae by the following test results: indole, ornithine decarboxylase and Voges–Proskauer positive; and methyl red, urease and PNPG (α-glucosidase) negative. No X- or V-factor requirement was observed. A zone of β-haemolysis surrounded the colonies after 24 h of incubation on bovine blood agar at 37 °C. Acid was produced from l-arabinose, dulcitol, d-mannitol, sucrose and trehalose. Representative strain ELNT2xT had a fatty acid profile that was characteristic for members of the Pasteurellaceae. ELNT2xT expressed only one respiratory quinone, ubiquinone-8 (100 %). The DNA G+C content of strain ELNT2xT was 42.8 mol%. On the basis of both phylogenetic and phenotypic evidence, it is proposed that the strains should be classified as representatives of a novel species of a new genus, Testudinibacter aquarius gen. nov., sp. nov. The type strain of Testudinibacter aquarius is ELNT2xT ( = CCUG 65146T = DSM 28140T), which was isolated from the oral cavity of a captive eastern long-necked turtle (Chelodina longicollis) in Denmark in 2012.
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Thalassobius abyssi sp. nov., a marine bacterium isolated from cold-seep sediment
More LessA novel marine bacterial strain, designated JAMH 043T, was isolated from cold-seep sediment in Sagami Bay, Japan. Cells were Gram-stain-negative, rod-shaped, non-motile and aerobic chemo-organotrophs. The isolate grew optimally at 25 °C, at pH 7.0–7.5 and with 3 % (w/v) NaCl. The major respiratory quinone was ubiquinone-10 (Q-10). The predominant fatty acid was C18 : 1ω7c. On the basis of 16S rRNA gene sequence analysis, the isolated strain was closely affiliated to members of the genus Thalassobius in the class Alphaproteobacteria, and 16S rRNA gene sequence similarity of the novel isolate with the type strain of its closest related species, Thalassobius aestuarii JC2049T, was 98.4 %. The DNA G+C content of the novel strain was 58.0 mol%. The hybridization values for DNA–DNA relatedness between strain JAMH 043T and reference strains belonging to the genus Thalassobius were less than 14.1 ± 2.2 %. Based on differences in taxonomic characteristics, the isolated strain represents a novel species of the genus Thalassobius, for which the name Thalassobius abyssi sp. nov. is proposed. The type strain is JAMH 043T ( = JCM 30900T = DSM 100673T).
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Tagaea marina gen. nov., sp. nov., a marine bacterium isolated from shallow coastal water
More LessA Gram-negative, heterotrophic, marine bacterium, designated strain TT1T, was isolated from seawater collected from the shallow coastal region of Anping Harbour, Tainan, Taiwan. Cells grown in broth cultures were straight rods that were motile by means of a single polar flagellum. The isolate required NaCl for growth and exhibited optimal growth at 30–35 °C, 2–4 % NaCl and pH 7–8. Strain TT1T grew aerobically and was not capable of anaerobic growth by fermentation of glucose or other carbohydrates. Q-10 was the sole major isoprenoid quinone. Cellular fatty acids were dominated by C18 : 1ω7c (47.5 %), C18 : 1 2-OH (16.3 %) and C19 : 0ω8c cyclo (10.6 %). The DNA G+C content was 56.4 mol%. Phylogeny based on 16S rRNA gene sequences showed that strain TT1T formed a distinct genus-level lineage in the family Rhodospirillaceae of the class Alphaproteobacteria and exhibited the highest sequence similarity with species of the genera Thalassobaculum (89.9–90.0 % 16S rRNA gene sequence similarity), Oceanibaculum (89.4–89.9 %) and Nisaea (89.1–89.7 %). Strain TT1T could be distinguished from species of these phylogenetically closest genera based on differences in DNA G+C contents (56.4 mol% vs 60.0–68.0 mol%), fatty acid profiles and some physiological characteristics. On the basis of the polyphasic taxonomic data from this study, strain TT1T is considered to represent a novel species of a new genus in the family Rhodospirillaceae, for which the name Tagaea marina gen. nov., sp. nov. is proposed. The type strain of the type species is TT1T ( = JCM 18659T = BCRC 80493T).
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Roseovarius atlanticus sp. nov., isolated from surface seawater
A taxonomic study was carried out on strain R12BT, which was isolated from surface seawater of the Atlantic Ocean. The bacterium was observed to be rod-shaped, Gram-stain-negative, oxidase-positive and weakly positive for catalase. Growth was observed at salinities of 0.5–15 % and at temperatures of 4–45 °C. The isolate was incapable of nitrate reduction and hydrolysis of gelatin, Tween 80 and aesculin. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain R12BT belonged to the genus Roseovarius, with highest sequence similarity to Roseovarius indicus B108T (97.2 % 16S rRNA gene sequence similarity), followed by Roseovarius halotolerans HJ50T (96.8 %); other species of genus Roseovarius shared 93.0–96.2 % sequence similarities. The DNA–DNA hybridization estimate value between strain R12BT and R. indicus B108T was 23.2 ± 2.4 %. The average nucleotide identity between strain R12BT and R. indicus B108T was 77.1 %. The principal fatty acids were summed feature 8 (C18 : 1ω7c/ω6c) and C16 : 0. The G+C content of the chromosomal DNA was 63.6 mol%. The respiratory quinone was determined to be Q-10. Diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, two aminolipids, two phospholipids and some unidentified lipids were present. The combined genotypic and phenotypic data show that strain R12BT represents a novel species of the genus Roseovarius, for which the name Roseovarius atlanticus sp. nov. is proposed, with the type strain R12BT ( = MCCC 1A09786T = KCTC 42506T).
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Description of Luteimonas pelagia sp. nov., isolated from marine sediment, and emended descriptions of Luteimonas aquatica, Luteimonas composti, Luteimonas mephitis, Lysobacter enzymogenes and Lysobacter panaciterrae
An aerobic, Gram-stain-negative, non-motile, rod-shaped bacterium, designated strain CC-VAM-7T, was isolated from a marine sediment sample collected at Kending, Taiwan. The isolate grew optimally at pH 7.0 and 30 °C and in the presence of 4 % (w/v) NaCl. The most closely related strains in terms of 16S rRNA gene sequence similarity were the type strains of Luteimonas huabeiensis (95.2 %) and Lysobacter defluvii (95.0 %). Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain CC-VAM-7T clustered with members of the genus Luteimonas. Strain CC-VAM-7T possessed C15 : 1ω5c, C16 : 1ω5c, iso-C11 : 0, iso-C15 : 0, iso-C16 : 0, iso-C17 : 0, iso-C11 : 0 3-OH and summed feature 9 (10-methyl C16 : 0 and/or iso-C17 : 1ω9c) as predominant fatty acids. The polar lipid profile contained major amounts of diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine and moderate amounts of an unidentified phospholipid. The genomic DNA G+C content was 73.4 mol%. Ubiquinone 8 (Q-8) was the predominant respiratory quinone. According to its distinct phylogenetic, phenotypic and chemotaxonomic features, which were in line with those of other members of the genus Luteimonas, strain CC-VAM-7T is proposed to represent a novel species within the genus Luteimonas, for which the name Luteimonas pelagia sp. nov. is proposed. The type strain is CC-VAM-7T ( = BCRC 80558T = JCM 18792T). In addition, we propose emended descriptions of Luteimonas aquatica Chou et al. 2008 , Luteimonas composti Young et al. 2007 , Luteimonas mephitis Finkmann et al. 2000 , Lysobacter enzymogenes Christensen and Cook 1978 and Lysobacter panaciterrae Ten et al. 2009 .
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Marivivens donghaensis gen. nov., sp. nov., isolated from seawater
More LessA Gram-stain-negative, non-flagellated, aerobic and coccoid, ovoid or rod-shaped bacterium, designated AM-4T, was isolated from seawater collected from the East Sea, South Korea and subjected to a taxonomic study using a polyphasic approach. The novel strain grew optimally at 30–35 °C, at pH 7.0–8.0 and in the presence of 1.0–3.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences showed that strain AM-4T forms a distinct evolutionary lineage independent of other taxa of the family Rhodobacteraceae. Strain AM-4T exhibited 16S rRNA gene sequence similarities of 95.1–95.5 % to the type strains of Aestuariihabitans beolgyonensis, Donghicola eburneus and Pseudooctadecabacter jejudonensis, and of less than 94.9 % to the type strains of other taxa. Strain AM-4T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c and C16 : 0 as the major fatty acids. The major polar lipids detected in strain AM-4T were phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, one unidentified lipid, one unidentified aminolipid and one unidentified glycolipid. The fatty acid and polar lipid profiles of strain AM-4T were distinguished from those of the phylogenetically related taxa. The DNA G+C content of strain AM-4T was 57.2 mol%. On the basis of the phylogenetic, chemotaxonomic and other phenotypic properties, strain AM-4T represents a novel species of a new genus in the family Rhodobacteraceae, for which the name Marivivens donghaensis gen. nov., sp. nov., is proposed. The type strain of the type species is AM-4T ( = KCTC 42776T = CECT 8947T).
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Novosphingobium colocasiae sp. nov., isolated from a taro field
More LessA novel bacterial strain, designated Teta-03T, was isolated from a taro field in Taiwan and characterized using a polyphasic taxonomic approach. Cells of strain Teta-03T were aerobic, Gram-stain-negative, rod-shaped and non-motile and formed bright yellow colonies. Growth occurred at 10–37 °C (optimum, 20 °C), with 0–1.0 % (w/v) NaCl (optimum, 0 %) and at pH 3.0–9.0 (optimum, pH 7.0–8.0). The major fatty acids (>10 %) of strain Teta-03T were C18 : 1ω7c, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 0. The polar lipid profile consisted of phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine, phosphatidyldimethylethanolamine, sphingoglycolipid, phosphatidylcholine, an uncharacterized glycolipid and an uncharacterized aminolipid. The major polyamine was spermidine. The major isoprenoid quinone was Q-10. The DNA G+C content was 65.0 mol%. On the basis of 16S rRNA gene sequence analysis, strain Teta-03T was shown to belong to the genus Novosphingobium and showed highest similarity to Novosphingobium barchaimii LL02T (96.8 %). Phenotypic characteristics of the novel strain also differed from those of the closest related species of the genus Novosphingobium. On the basis of the genotypic, chemotaxonomic and phenotypic data, strain Teta-03T represents a novel species of the genus Novosphingobium, for which the name Novosphingobium colocasiae sp. nov. is proposed. The type strain is Teta-03T ( = LMG 27385T = KCTC 32255T).
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Inmirania thermothiophila gen. nov., sp. nov., a thermophilic, facultatively autotrophic, sulfur-oxidizing gammaproteobacterium isolated from a shallow-sea hydrothermal vent
A novel thermophilic, facultatively autotrophic bacterium, strain S2479T, was isolated from a thermal spring located in a tidal zone of a geothermally heated beach (Kuril Islands, Russia). Cells of strain S2479T were rod-shaped and motile with a Gram-negative cell-wall type. The temperature range for growth was 35–68 °C (optimum 65 °C), and the pH range for growth was pH 5.5–8.8 (optimum pH 6.5). Growth of strain S2479T was observed in the presence of NaCl concentrations ranging from 0.5 to 3.5 % (w/v) (optimum 1.5–2.0 %). The strain oxidized sulfur and thiosulfate as sole energy sources for autotrophic growth under anaerobic conditions with nitrate as electron acceptor. Strain S2479T was also capable of heterotrophic growth by reduction of nitrate with oxidation of low-chain fatty acids and a limited number of other carboxylic acids or with complex proteinaceous compounds. Nitrate was reduced to N2. Sulfur compounds were oxidized to sulfate. Strain S2479T did not grow aerobically during incubation at atmospheric concentration of oxygen but was able to grow microaerobically (1 % of oxygen in gas phase). Phylogenetic analysis based on 16S rRNA gene sequences indicated that the strain was a member of the family Ectothiorhodospiraceae, order Chromatiales, class Gammaproteobacteria. On the basis of phylogenetic and phenotypic properties, strain S2479T represents a novel species of a new genus, for which the name Inmirania thermothiophila gen. nov., sp. nov. is proposed. The type strain of the type species is S2479T ( = DSM 100275T = VKM B-2962T).
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Massilia violacea sp. nov., isolated from riverbank soil
A bacterial strain designated CAVIOT was isolated during the course of a study of culturable bacteria in a riverbank soil sample from Tlaxcala, Mexico. The strain was subjected to a polyphasic taxonomic characterization. Strain CAVIOT was aerobic, Gram-stain-negative, non-spore-forming and rod-shaped. Colonies grown on R2A agar at 28 °C were pale violet, mucoid, rounded, smooth and glossy. The strain was motile and catalase- and oxidase-positive, and maximum growth temperature was 35 °C. Strain CAVIOT was classified within the genus Massilia as its 16S rRNA gene sequence was closely related to those of Massilia umbonata LP01T (97.5 % similarity), Massilia dura 16T (97.2 %) and Massilia plicata 76T (97.1 %). The predominant respiratory quinone was Q8. The major fatty acids were summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), C16 : 0 and summed feature 8 (C18 : 1ω7c/C18 : 1ω6c). The predominant polar lipids were phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol and an unknown phospholipid. The DNA G+C content was 65.0 mol% (Tm). DNA–DNA hybridization results showed values below 25 % with respect to the type strains of the closest related species. Therefore, strain CAVIOT can be differentiated from previously described species of the genus Massilia and represents a novel species, for which the name Massilia violacea sp. nov. is proposed. The type strain is CAVIOT ( = CECT 8897T = LMG 28941T).
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Tianweitania sediminis gen. nov., sp. nov., a member of the family Phyllobacteriaceae, isolated from subsurface sediment core
More LessA bacterial strain, designated Z8T, was isolated from the terrestrial sediment of the Mohe Basin in north-east China. Phylogenetic analyses of 16S rRNA genes showed that this strain belonged to the family Phyllobacteriaceae, and was most closely related to Phyllobacterium bourgognense, with a sequence similarity of 96.9 %. The major cellular fatty acids were summed feature 4 (iso-C17 : 1 I and/or anteiso-C17 : 1 B) and summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c). The major respiratory quinone was ubiquinone-10. The three major polar lipids of strain Z8T consisted of glycolipids, phosphatidylethanolamine and phosphatidylmethylethanolamine. The DNA G+C content was 59.6 mol%. The chemotaxonomic characteristics of strain Z8T differed in some respects from those of members of the family Phyllobacteriaceae. Based on phylogenetic, phenotypic and chemotaxonomic data, strain Z8T is considered to represent a novel species of a novel genus within the family Phyllobacteriaceae, for which the name Tianweitania sediminis gen. nov., sp. nov. is proposed. The type strain is Z8T ( = CGMCC 1.12944T = JCM 30358T).
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Halomonas garicola sp. nov., isolated from saeu-jeot, a Korean salted and fermented shrimp sauce
More LessA Gram-stain-negative, moderately halophilic and facultatively aerobic bacterium capable of respiration with nitrate, designated strain JJ-M1T, was isolated from saeu-jeot, a traditional Korean fermented shrimp sauce. Cells of the strain were non-motile short rods showing oxidase-negative and catalase-positive reactions and the production of pale-yellow pigments. Growth of strain JJ-M1T was observed at 20–37 °C (optimum, 30 °C), pH 5.5–9.5 (optimum, pH 7.0) and in the presence of 3–22.5 % (w/v) sea salts (optimum, 10 %). Strain JJ-M1T contained ubiquinone 9 (Q-9) as the predominant isoprenoid quinone and summed feature 8 (comprising C18 : 1ω7c and/or C18 : 1ω6c), C16 : 0, summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c) and C12 : 0 3-OH as the major cellular fatty acids. The polar lipids consisted of phosphatidylglycerol, phosphatidylethanolamine, phosphoglycolipid, diphosphatidylglycerol and four unidentified phospholipids. The genomic DNA G+C content of strain JJ-M1T was 62.4 mol%. Phylogenetic and comparative analyses, based on 16S rRNA gene sequences, indicated that strain JJ-M1T formed a tight phyletic lineage with Halomonas jeotgali HwaT within the genus Halomonas and was most closely related to Halomonas jeotgali HwaT with 96.2 % 16S rRNA gene sequence similarity. Based on phylogenetic, phenotypic and chemotaxonomic features, strain JJ-M1T represents a novel species of the genus Halomonas, for which the name Halomonas garicola sp. nov. is proposed. The type strain is JJ-M1T ( = KACC 18117T = JCM 30151T).
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Glaciimonas frigoris sp. nov., a psychrophilic bacterium isolated from ancient Siberian permafrost sediment, and emended description of the genus Glaciimonas
More LessThe bacterial strain N1-38T was isolated from ancient Siberian permafrost sediment. The strain was Gram-reaction-negative, motile by gliding, rod-shaped and psychrophilic, and showed good growth over a temperature range of − 5 to 25 °C. Phylogenetic analysis of 16S rRNA gene sequences revealed that strain N1-38T was most closely related to members of the genus Glaciimonas and shared the highest 16S rRNA gene sequence similarities with the type strains of Glaciimonas alpina (99.3 %), Glaciimonas immobilis (98.9 %) and Glaciimonas singularis (96.5 %). The predominant cellular fatty acids of strain N1-38T were summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH), C16 : 0 and C18 : 1ω7c. The major respiratory quinone was ubiquinone 8 and the major polar lipids were phosphatidylethanolamine and diphosphatidylglycerol. The genomic DNA G+C content was 53.0 mol%. Combined data of phenotypic, phylogenetic and DNA–DNA relatedness studies demonstrated that strain N1-38T represents a novel species of the genus Glaciimonas, for which the name Glaciimonas frigoris sp. nov. is proposed. The type strain is N1-38T ( = LMG 28868T = CCOS 838T). An emended description of the genus Glaciimonas is also provided.
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Comamonas piscis sp. nov., isolated from the intestine of a Korean rockfish, Sebastes schlegelii
A novel Gram-stain-negative, obligately aerobic, non-motile and coccus-shaped bacterium, designated strain CN1T, was isolated from the intestine of a Korean rockfish, Sebastes schlegelii. The optimum growth condition for strain CN1T was 25 °C, pH 7 and 0–1 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain CN1T was in the genus Comamonas and that the nearest type strain was Comamonas koreensis YH12T with 98.65 % 16S rRNA gene sequence similarity. The primary cellular fatty acids of strain CN1T were summed feature 3 (comprised of C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0 and summed feature 8 (comprised of C18 : 1ω6c and/or C18 : 1ω7c). The predominant isoprenoid quinone was ubiquinone Q-8. The polar lipids were phosphatidylglycerol, phosphatidylethanolamine, an unidentified lipid, an unidentified phospholipid and two aminophospholipids. The DNA G+C content was 65.5 mol%. The phenotypic, phylogenetic and genotypic analyses indicated that strain CN1T represents a novel species of the genus Comamonas, for which the name Comamonas piscis sp. nov. is proposed. The type strain is CN1T ( = KACC 18403T = JCM 30718T).
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Volumes and issues
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Volume 74 (2024)
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Volume 69 (2019)
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