- Volume 69, Issue 10, 2019
Volume 69, Issue 10, 2019
- Notification List
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- New Taxa
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- Actinobacteria
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Geodermatophilus marinus sp. nov., isolated from the marine sponge Leucetta chagosensis
More LessA novel actinobacterium, designated LHW52908T, was isolated from a marine sponge, Leucettachagosensis, collected in the South China Sea. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain LHW52908T was member of the family Geodermatophilaceae , with highest similarities to Geodermatophilus obscurus DSM 43160T (97.7 %), Geodermatophilus siccatus CF6T (97.6 %) and Geodermatophilus chilensis B12T (97.5 %). Multilocus sequence analysis confirmed that the strain should be a member of genus Geodermatophilus . Chemotaxonomic characteristics confirmed the genus-level affiliation of strain LHW52908T. Based on phylogenetic data, average nucleotide identity and digital DNA–DNA hybridization results, strain LHW52908T could be distinguished from its closest neighbours, representing a novel species of the genus Geodermatophilus , for which the name Geodermatophilus marinus sp. nov. is proposed, with the type strain LHW52908T (=DSM 106570T=CCTCC AA 2018014T).
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Marinitenerispora sediminis gen. nov., sp. nov., a member of the family Nocardiopsaceae isolated from marine sediment
More LessThree novel actinobacterial strains, designated as TPS16T, TPS81 and TPS83, were isolated from a sample of marine sediment collected from Tioman Island, Malaysia. The strains formed abundant branched substrate mycelia without fragmentation along with production of blue spores and blue diffusible pigment on soybean meal agar. The strains could grow at pH ranging from pH 6 to 12 and in 0–8 % (w/v) NaCl. Cell-wall hydrolysis showed the presence of meso-diaminopimelic acid. The strains were closely related to Marinactinospora thermotolerans SCSIO 00652T (97.60 %) and Marinactinospora endophytica YIM 690053T (96.87 %) based on phylogenetic analysis of 16S rRNA gene sequences. Multilocus sequence analysis including gyrB, recA and rpoB genes further confirmed that strain TPS16T represented a distinct branch within the family Nocardiopsaceae . The predominant menaquinones were MK-11(H2), MK-10(H2), MK-11(H4) and MK-10(H4), while the major fatty acids were found to be iso-C16 : 0, anteiso-C17 : 0, iso-C15 : 0 and C18 : 1ω9c. Genome sequencing revealed genome sizes of approximately 6 Mb and G+C contents of 73.8 mol%. A new genus, Marinitenerispora gen. nov., is proposed within the family Nocardiopsaceae based on polyphasic data and the type species is Marinitenerispora sediminis gen. nov., sp. nov. The type strain is TPS16T (=DSM 46825T=TBRC 5138T).
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Alloscardovia theropitheci sp. nov., isolated from the faeces of gelada baboon, the 'bleeding heart' monkey (Theropithecus gelada)
A novel irregularly shaped and slightly curved rod bacterial strain, GLDI4/2T, showing activity of fructose 6-phosphate phosphoketolase was isolated from a faecal sample of an adult gelada baboon (Theropithecus gelada). Phylogenetic analyses based on 16S rRNA genes as well as multilocus sequences (representing fusA, gyrB and xfp genes) and the core genome revealed that GLDI4/2T exhibited phylogenetic relatedness to Alloscardovia omnicolens DSM 21503T and to Alloscardovia macacae DSM 24762T. Comparative analysis of 16S rRNA gene sequences confirmed the phylogenetic results showing the highest gene sequence identity with strain A. omnicolens DSM 21503T (96.0 %). Activities of α- and β-gluco(galacto)sidases were detected in strain GLDI4/2T, which is characteristic for almost all members of the family Bifidobacteriaceae . Compared to other Alloscardovia species its DNA G+C content (43.8 mol%) was very low. Phylogenetic studies and the evaluation of phenotypic characteristics, including the results of biochemical, physiological and chemotaxonomic analyses, confirmed the novel species status for strain GLDI4/2T, for which the name Alloscardovia theropitheci sp. nov. is proposed. The type strain is GLDI4/2T (=DSM 106019T=JCM 32430T).
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Actinomadura roseirufa sp. nov., producer of semduramicin, a polyether ionophore
More LessThe taxonomic position of ‘ Actinomadura roseorufa’ LMG 30035T, a semduramicin-producing mutant of strain ATCC 53666P, which was isolated from a soil sample collected in Yamae Village, Kamamoto, Japan, was clarified in the present study using a polyphasic approach. This Gram-positive, aerobic actinomycete formed a well-developed, extensively branched, non-fragmenting substrate and aerial mycelia which differentiated into single, smooth-appearing spores. Based on analysis of nearly complete 16S rRNA gene sequence, strain LMG 30035T was found to be closely related to the type strains of Actinomadura fibrosa ATCC 49459T (98.88 %) and Actinomadura formosensis JCM 7474T (98.82 %) (pairwise similarity values in parentheses). Digital DNA–DNA hybridisation experiments revealed unambiguously that strain LMG 30035T represents a novel Actinomadura species (OrthoANIu values less than 83.1 %; dDDH values less than 27.2 % with type strains of validly named Actinomadura species). Analysis of the cell wall revealed the presence of meso-diaminopimelic acid in the peptidoglycan. The whole-cell sugars were glucose, madurose, galactose, ribose and rhamnose. The major polar lipids included phosphatidylinositol and diphosphatidylglycerol. The predominant menaquinones were MK-9(H6), MK-9(H8), MK-9(H4) and MK-9(H2). The major fatty acids were C16 : 00, 10-methyl C18 : 0, C18 : 1 ω9c and C18 : 00. The DNA G+C content of its genome was 72.5 mol%. In summary, these characteristics distinguish strain LMG 30035T from validly named species of the genus Actinomadura , and therefore, we propose to classify this strain formally as the novel species Actinomadura roseirufa sp. nov. with LMG 30035T (=CECT 9808T,=ATCC 53664T) as the type strain.
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Gandjariella thermophila gen. nov., sp. nov., a new member of the family Pseudonocardiaceae, isolated from forest soil in a geothermal area
Six mycelium-forming actinomycete strains were isolated from forest soil near the Cisolok geysers in West Java, Indonesia. The 16S rRNA gene sequences of these strains showed high similarity to members of genera in the family Pseudonocardiaceae with values less than 96.0 %, and most closely related to the genus Thermotunica , T. guangxiensis AG2-7T(94.6–95.2 % similarity). The type strain, designated SL3-2-4T, was aerobic, thermophilic, Gram-stain-positive that formed branched, non-fragmented substrate mycelia and unbranched aerial mycelia with long-chain, oval-shaped spores on International Streptomyces Project (ISP) 3 medium. It produced light-orange substrate mycelia and light-orange diffusible pigments on ISP 3 medium with 2 % gellan gum, grown at 30–55 °C, with optimum growth at 45 °C. The pH range for growth was 4.0–8.0, with optimum growth at pH 7.0. Strain SL3-2-4T was able to hydrolyze casein, esculin, gelatin, guanine, hypoxanthine, starch, L-tyrosine, and xanthine, but not adenine, carboxymethyl-cellulose, cellulose, chitin, Tween 20, or xylan. The major fatty acid was iso-C16 : 0, and the major menaquinone was MK-8 (H4). The detected polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidyl-N-methylethanolamine, unidentified aminophospholipids, unidentified glycolipids, and unidentified phospholipids. The cell wall hydrolysate of SL3-2-4T contained meso-2,4-diaminopimelic acid. The whole cell sugars were arabinose and galactose. The DNA G+C content was 71.6 mol%. Phenotypic features and phylogenetic data differentiated SL3-2-4T from members of the family Pseudonocardiaceae . Therefore, the strain SL3-2-4T is proposed as a representative of a novel species in a novel genus, Gandjariella thermophila gen. nov., sp. nov. The type strain is SL3-2-4T (=UICC B-83T=NRRL B-67478T=InaCC A981T).
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Arthrobacter celericrescens sp. nov., isolated from forest soil
A novel bacterial strain, designated NEAU-SA2T, was isolated from forest soil collected from the Zhangjiajie city, Hunan Province, PR China and characterised using a polyphasic approach. The cells were aerobic, Gram-stain-positive, non-flagellated and rod-coccus-shaped. The strain grew optimally at 28 °C, pH 7.0 and with 0 % NaCl (w/v). Phylogenetic analysis based on the 16S rRNA gene sequence indicated that the organism should be assigned to the genus Arthrobacter and was closely related to Arthrobacter cupressi DSM 24664T (98.89 %) and Arthrobacter silvisoli CCTCC AB 2017271T (98.41 %), which was further confirmed by multilocus sequence analysis. The major cellular fatty acids were anteiso-C15 : 0, anteiso-C17 : 0 and C16 : 0; MK-9(H2) was the predominant respiratory quinone. The polar lipids comprised diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and an unidentified glycolipid. The peptidoglycan type was A3α, and the cell-wall sugars were glucose and galactose. The genomic G+C content of strain NEAU-SA2T was 67.04 mol%. The average nucleotide identity values between NEAU-SA2T and A. cupressi DSM 24664T and A. silvisoli CCTCC AB 2017271T were 88.57–90.94 %. The digital DNA–DNA hybridisation values between strain NEAU-SA2T and its most closely related species were 37.00 and 41.10 %, respectively, again indicating that they belong to different taxa. Therefore, strain NEAU-SA2T represents a novel species of the genus Arthrobacter , for which the name Arthrobacter celericrescens sp. nov. is proposed. The type strain is NEAU-SA2T (=DSM 106718T=CCTCC AB 2017272T).
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Nocardia yunnanensis sp. nov., an actinomycete isolated from a soil sample
A novel actinomycete strain, designated CFH S0054T, was isolated from a soil sample collected from Xiaokongshan in Tengchong, Yunnan Province, in south-west PR China. Phylogenetic analysis based on its 16S rRNA gene sequence indicated that strain CFH S0054T belonged to the genus Nocardia . Based on the results of 16S rRNA gene sequence analysis, strain CFH S0054T was most closely related to Nocardia concava IFM 0354T (98.3 %), Nocardia inohanensis NBRC 100128T (97.9 %), Nocardia otitidiscaviarum NBRC 14405T (97.9 %) and Nocardia heshunensis CFH S0067T (97.8 %). Strain CFH S0054T contained C16 : 0, C18 : 1 ω9c, C18 : 0 10-methyl (TBSA) and summed feature 3 as major cellular fatty acids and MK-8 (H4ω-cycl) as the major respiratory quinone. The polar lipid profile included phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannoside and unknown phospholipids. The cell wall contained meso-diaminopimelic acid, and the whole-cell hydrolysates were arabinose, galactose, glucose, fructose, ribose and mannose. The genome of strain CFH S0054T was 7.9 Mbp with a G+C content of 68.4 mol%, the average nucleotide identity (ANI) values between strain CFH S0054T and N. concava IFM0354T were low (ANIm<87.7 % and ANIb=84.1 %). On the basis of phylogenetic, physiological and chemotaxonomic data, strain CFHS0054T is considered to represent a novel species of the genus Nocardia , for which the name Nocardia yunnanensis sp. nov. is proposed, The type strain is CFH S0054T (DSM 46763T=JCM 30082T).
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Rhodococcus subtropicus sp. nov., a new actinobacterium isolated from a cave
More LessA novel Gram-stain-positive actinobacterial strain, designated C9-28T, was isolated from soil sampled in a natural cave on Jeju Island, Republic of Korea. Strain C9-28T morphologically exhibited a rod–coccus life cycle and grew at 10–37 °C (optimum, 30 °C), pH 6–9 (optimum, pH 7) and 0–3 % (optimum, absence of NaCl). In the maximum-likelihood tree based on 16S rRNA gene sequences, strain C9-28T formed a sublineage between a Rhodococcus equi– Rhodococcus soli– Rhodococcus agglutinans clade and the type strain of Rhodococcus defluvii . The closest relatives of strain C9-28T were the type strains of R. defluvii (98.88 % 16S rRNA gene sequence similarity), R. equi (98.88 %) and R. soli (98.60 %). The phylogenomic tree based on whole genome sequences supported the distinct position of the novel strain within the genus Rhodococcus . The following chemotaxonomic characteristics also supported the assignment to the genus: meso-diaminopimelic acid; arabinose and galactose in whole-cell hydrolysates; the predominant menaquinone of MK-8(H2); and polar lipids including diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannoside, three unidentified glycolipids and two unidentified lipids. The predominant cellular fatty acids were C16 : 0, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), C18 : 1ω9c and C14 : 0. Based on the values of average nucleotide identity and digital DNA–DNA hybridization from whole genome sequences, and in vitro DNA–DNA hybridization between the isolate and the closest relatives, strain C9-28T (=KACC 19823T=DSM 107559T) represents a novel species of the genus Rhodococcus , for which the name Rhodococcus subtropicus sp. nov. is proposed.
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Agromyces tardus sp. nov., an actinobacterium isolated from the rhizosphere soil of wheat (Triticum aestivum L.)
A Gram-stain-positive, aerobic, heterotrophic, non-spore-forming and rod-shaped strain, designated SJ-23T, was isolated from rhizosphere soil of wheat (Triticum aestivum L.) collected from Langfang, Hebei Province, central PR China and characterized using a polyphasic approach. Morphological and chemotaxonomic characteristics were consistent with those of members of the genus Agromyces . The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, glycolipid and three unidentified lipids. The predominant menaquinones detected were MK-12, MK-11 and MK-10. Major fatty acids were identified as anteiso-C17 : 0, anteiso-C15 : 0 and iso-C16 : 0. The 16S rRNA gene sequence analysis showed that strain SJ-23T belongs to the genus Agromyces with high sequence similarities to Agromyces ramosus DSM 43045T (99.2 %), Agromycescerinus subsp. cerinus DSM 8595T (98.8 %) and Agromyces cerinus subsp. nitratus DSM 8596T (98.6 %). Results of phylogenetic analysis based on 16S rRNA gene sequences indicated that the strain formed a separate branch in the genus Agromyces . Furthermore, the combination of DNA–DNA hybridization results and some phenotypic characteristics demonstrated that strain SJ-23T could be distinguished from its closest relatives. Therefore, it is proposed that strain SJ-23T represents a novel species of the genus Agromyces , for which the name Agromyces tardus sp. nov. is proposed. The type strain is SJ-23T (=CGMCC 4.7419T=DSM 105049T).
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Cryobacterium melibiosiphilum sp. nov., a psychrophilic bacterium isolated from glacier ice
More LessA psychrophilic, Gram-stain-positive, rod-shaped bacterium, designated Hh39T, was isolated from Xinjiang No. 1 glacier in PR China. Strain Hh39T was catalase-positive, oxidase-negative and could grow at 0–18 °C, pH 6.0–11.0 and in the presence of 0–2.5 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain Hh39T belonged to the genus Cryobacterium . The highest level of 16S rRNA gene sequence similarities were found to the type strains of Cryobacterium levicorallinum (99.01 %), Cryobacterium luteum (98.90 %), Cryobacterium aureum (98.90 %) and Cryobacterium roopkundense (98.75 %). However, the low average nucleotide identity (80.65–81.89 %) and digital DNA–DNA hybridization values (22.1–23.8 %) between strain Hh39T and its four closest relatives indicated that it represents a novel species of the genus Cryobacterium . The predominant fatty acids were anteiso-C15:0, anteiso-C15:1, iso-C16:0 and anteiso-C17:0. The major menaquinone was MK-10. The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, one unidentified lipid and one unidentified glycolipid. On the basis of results of phenotypic, genotypic and phylogenetic analyses, a novel species, Cryobacterium melibiosiphilum sp. nov., is proposed, with Hh39T (=NBRC 107884T=CGMCC 1.11212T) as the type strain.
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- Archaea
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Halostella limicola sp. nov., isolated from saline soil sampled at the Tarim Basin
More LessA halophilic archaeaon, strain LT12T, was isolated from saline soil sampled at the Tarim Basin, PR China. The novel strain stained Gram-negative, cells were rod-shaped, and formed light red-pigmented colonies on agar plate. Strain LT12T grew optimally at 3.1 M NaCl, 0.05 M MgCl2, 37 °C and pH 7.5. The cells lysed in distilled water and the minimal NaCl concentration to prevent cell lysis was 1.4 M. Based on the results of phylogenetic analyses of the 16S rRNA and rpoB′ genes, strain LT12T was most closely related to Halostella salina CBA1114T(94.4–95.9 and 93.6 % similarities, respectively). The average nucleotide identity and in silico DNA–DNA hybridization values between strain LT12T and H. salina CBA1114T were 81.0 and 24.3 %, respectively. The major polar lipids of strain LT12T were phosphatidic acid, phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester and three unidentified glycolipids. The DNA G+C content was 67.2 mol % (genome). Based on the phenotypic, chemotaxonomic and phylogenetic properties, strain LT12T represents a novel species of the genus Halostella for which the name Halostella limicola sp. nov. is proposed. The type strain is LT12T (=CGMCC 1.14941T=JCM 30667T).
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- Bacteroidetes
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Mucilaginibacter terrenus sp. nov., isolated from manganese mine soil
More LessStrain ZH6T is a Gram-stain-negative, rod-shaped, aerobic bacterium isolated from manganese mine soil. Strain ZH6T had highest 16S rRNA gene sequence similarities to Mucilaginibacter yixingensis YX-36T (96.9 %) and Mucilaginibacter psychrotolerans NH7-4T (96.8 %). The genome size of strain ZH6T was 4.61 Mb with a DNA G+C content of 44.0 mol%. The average nucleotide identity and digital DNA–DNA hybridization values between strain ZH6T and M. yixingensis DSM 26809T were 70.6 and 19.2 %, respectively. Strain ZH6T had menaquinone-7 as a major quinone and main cellular fatty acids of iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c). The polar lipids of strain ZH6T were a phosphatidylethanolamine, an unidentified glycolipid, an unidentified phospholipid, three unidentified aminophospholipids and four unidentified lipids. Based on the phenotypic, chemotaxonomic and phylogenetic results, strain ZH6T represents a novel species of the genus Mucilaginibacter , for which the name Mucilaginibacter terrenus sp. nov., is proposed. The type strain is ZH6T (=CCTCC AB 2018373T=KCTC 72075T).
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- Firmicutes and Related Organisms
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Geobacillus proteiniphilus sp. nov., a thermophilic bacterium isolated from a high-temperature heavy oil reservoir in China
A rod-shaped, spore-forming, thermophilic, chemoorganotrophic, aerobic or facultatively anaerobic bacterial strain, 1017T, was isolated from production water sampled at the Dagang oilfield (PR China), and was characterized by using a polyphasic approach. The strain is capable of anaerobic glucose fermentation. Nitrate is reduced to nitrite. Optimal growth was observed at 60–65 °C, at pH between pH 7.0 and 7.5, and with 1–2 % (w/v) NaCl. The major cellular fatty acids were iso-C17 : 0, anteiso-C17 : 0, iso-C15 : 0, iso-C16 : 0 and C16 : 0. The predominant polar lipids were diphosphatidylglycerol and phosphatidylethanolamine. Phylogenetic analysis based on the 16S rRNA, gyrB and parE gene sequences indicated that the isolate belonged to the genus Geobacillus and was most closely related to Geobacillus thermoleovorans KCTC 3570T (99.5, 96.1 and 97.9 % sequence similarity, respectively). Genome sequencing revealed a genome size of 3.57495 Mb and a DNA G+C content of 51.8 mol%. The average nucleotide identity and digital DNA–DNA hybridization values between the genomes of strain 1017T and G. thermoleovorans KCTC 3570T were 95.9 and 64.9 %, respectively. Results of phylogenomic metrics analysis of the genome and 1172 core genes of strain 1017T and its physiological and biochemical characteristics confirmed that strain 1017T represented a novel species of the genus Geobacillus , for which the name Geobacillus proteiniphilus sp. nov. is proposed. The type strain is 1017T (=VKM B-3132T=KCTC 33986T).
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Streptococcus hillyeri sp. nov., isolated from equine trachea
More LessStrain 28462T, which had Gram-stain-positive, catalase-negative coccus-shaped cells, was isolated from a routine tracheal sample from a 3 year old thoroughbred horse. 16S rRNA gene sequence analysis revealed it to be most closely related to, but distinct from, Streptococcus henryi (95.7 % identity), Streptococcus plurextorum (95.8 %), Streptococcus porci (96.4 %) and Streptococcus caprae (95.1 %). Similarity values derived from sequences from sodA and rpoB genes were consistent with strain 28462T belonging to a species distinct from these four streptococci. At the whole genome level, strain 28462T had an average nucleotide identity value <95 % and an inferred DNA–DNA hybridization value <70 % when compared to S. henryi , Streptococcus plurextorum and S. porci with no S. caprae genome sequence being available. Finally, various phenotypic characteristics distinguish strain 28462T from each of these species. Based on the genotypic and phenotypic results, it is proposed that strain 28462T is a novel species, with the name Streptococcus hillyeri sp. nov. The type strain is 28462T (=DSM 107591T=CCUG 72762T).
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Two novel species of the family Bacillaceae: Oceanobacillus piezotolerans sp. nov. and Bacillus piezotolerans sp. nov., from deep-sea sediment samples of Yap Trench
Two novel strains, designated YLB-02T and YLB-04T, were isolated from the deep-sea sediments of Yap Trench located in the Pacific Ocean. Cells of the strains were Gram-stain-positive, oxidase- and catalase-positive and rod-shaped. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain YLB-02T belonged to the genus Oceanobacillus and strain YLB-04T belonged to the genus Bacillus . Strain YLB-02T showed similarities of 96.9 % with Ornithinibacillus contaminans CCUG 53201T, 96.3 % with Oceanobacillus profundus CL-MP28T, 96.1 % with Oceanobacillus halophilus J8BT and 95.7 % with Oceanobacillus bengalensis Ma-21T. Strain YLB-04T showed the highest sequence similarity of 97.4 % with Bacillus notoginsengisoli SYP-B691T. The average nucleotide identity (ANI) and the DNA–DNA hybridisation (DDH) estimate values for strain YLB-02T and YLB-04T with their related type strains were below the respective threshold for species differentiation. The G+C contents of strains YLB-02T and YLB-04T were 37.3 and 45.4 mol%. The predominant (>10 %) cellular fatty acids of strain YLB-02T were iso-C14 : 0, iso-C15 : 0, iso-C16 : 0 and C16 : 1ω7c alcohol, and those of strain YLB-04T were C16 : 0, iso-C15 : 0, anteiso-C15 : 0 and C18 : 0. Their predominant ubiquinone was MK-7. The cell-wall peptidoglycan of strain YLB-02T contained glutamic acid, alanine, aspartic acid, lysine and ornithine, but no meso-diaminopimelic acid, while strain YLB-04T contained meso-diaminopimelic acid, glutamic acid, alanine, aspartic acid, lysine and ornithine. In addition to diphosphatidylglycerol (DPG) and phosphatidylglycerol (PG), the polar lipids of strain YLB-02T also consisted of an unidentified glycolipid (GL), two unidentified polar lipids (L1 and L2) and two unidentified phospholipids (PL1 and PL2), and those of strain YLB-04T also consisted of phosphatidylethanolamine (PE) and an unidentified phospholipid (PL). Based on phenotypic, genotypic and chemotaxonomic characteristics, two novel species are proposed, Oceanobacillus piezotolerans sp. nov. with YLB-02T (=MCCC 1A12699T=JCM 32870T) and Bacillus piezotolerans sp. nov. with YLB-04T (=MCCC 1A12711T=JCM 32872T) as the type strains.
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Aquibacillus sediminis sp. nov., a moderately halophilic bacterium isolated from saltern soil
More LessA Gram-stain-positive, moderately halophilic bacterium, designated strain BH258T, was isolated from solar saltern sediment sampled at Shinan in the Republic of Korea. Cells of strain BH258T were found to be strictly aerobic, motile, endospore-forming rods which could grow at 15–45 °C (optimum, 35 °C), at pH 5.5–9.0 (pH 7.0) and at salinities of 0.5–20 % (w/v) NaCl (7–10%). Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain BH258T belongs to the genus Aquibacillus , showing highest sequence similarity to Aquibacillus koreensis BH30097T (96.1 %), Aquibacillus albus YIM 93624T (95.9 %), Aquibacillus halophilus B6BT (95.6 %) and Aquibacillus salifodinae WSY08-1T (95.1 %). The predominant isoprenoid quinone was identified as menaquinone-7, and the cell-wall peptidoglycan was found to contain meso-diaminopimelic acid as the diagnostic diamino acid. The major fatty acids were identified as anteiso-C15 : 0, iso-C16 : 0, anteiso-C17 : 0 and iso-C15 : 0. The major polar lipids were identified as phosphatidylglycerol, diphosphatidylglycerol and three unidentified phospholipids. The DNA G+C content of this novel isolate was determined to be 37.35 mol%. On the basis of the results of phylogenetic, phenotypic and chemotaxonomic analyses in this study, strain BH258T is considered to represent a novel species of the genus Aquibacillus , for which the name Aquibacillus sediminis sp. nov. is proposed. The type strain is BH258T (=KACC 18680T=NBRC 111875T).
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Lactobacillus yilanensis sp. nov., Lactobacillus bayanensis sp. nov., Lactobacillus keshanensis sp. nov., Lactobacillus kedongensis sp. nov., Lactobacillus baiquanensis sp. nov., Lactobacillus jidongensis sp. nov., Lactobacillus hulinensis sp. nov., Lactobacillus mishanensis sp. nov. and Lactobacillus zhongbaensis sp. nov., isolated from Chinese traditional pickle and yogurt
More LessFourteen Gram-stain-positive bacterial strains were isolated from Chinese traditional pickle and yogurt. The strains were characterised using a polyphasic taxonomic approach, including 16S rRNA gene sequence analysis, pheS gene sequence analysis, rpoA gene sequence analysis, determination of DNA G+C content, determination of average nucleotide identity, fatty acid methyl ester analysis and an analysis of phenotypic features. The data demonstrated that the fourteen strains represented nine novel species belonging to the genus Lactobacillus , strains 54-2T, 54-5T, 33-7T, 116-2T, 184-8T, 204-8T, 8-1(1)T, 256-3T and M1575T were designated as the type strains. Strain 54-2T was phylogenetically related to the type strains of Lactobacillus composti and Lactobacillus floricola , having 96.5 and 91.6 % 16S rRNA gene sequence similarities, less than 74.6 % pheS gene sequence similarities, less than 81.6 % rpoA gene sequence similarities and less than 72.5 % ANI values. Strain 54-5T was phylogenetically related to the type strains of Lactobacillus dextrinicus and Lactobacillus concavus , exhibiting 99.1 and 97.3 % 16S rRNA gene sequence similarities, less than 83.1 % pheS gene sequence similarities, less than 93.1 % rpoA gene sequence similarities and less than 79.9 % ANI values. Strains 33-7T, 116-2T, 184-8T, 204-8T, 8-1(1)T, 256-3T and M1575T were phylogenetically related to the type strains of Lactobacillus tucceti , Lactobacillus nodensis , Lactobacillus insicii , Lactobacillus allii , Lactobacillus metriopterae , Lactobacillus terrae , Lactobacillus versmoldensis and Lactobacillus furfuricola , sharing 95.6–100 % 16S rRNA gene sequence similarities, less than 91.6 % pheS gene sequence similarities, less than 98.2 % rpoA gene sequence similarities and less than 89.4 % ANI values. Based upon the data of polyphasic characterisation obtained in the present study, nine novel species, Lactobacillus yilanensis sp. nov., Lactobacillus bayanensis sp. nov., Lactobacillus keshanensis sp. nov., Lactobacillus kedongensis sp. nov., Lactobacillus baiquanensis sp. nov., Lactobacillus jidongensis jidongensis sp. nov., Lactobacillus hulinensis sp. nov., Lactobacillus mishanensis sp. nov. and Lactobacillus zhongbaensis sp. nov., are proposed and the type strains are 54-2T (=NCIMB 15154T=CCM 8896T=KCTC 21120T=LMG 31058T), 54-5T (=NCIMB 15151T=CCM 8894T), 33-7T (=NCIMB 15153T=CCM 8936T=KCTC 21118T=LMG 31166T), 116-2T (=NCIMB 15158T=CCM 8899T=KCTC 21124T=LMG 31051T), 184-8T (=NCIMB 15152T=CCM 8895T=KCTC 21131T=LMG 31050T), 204-8T (=NCIMB 15159T=CCM 8900T=KCTC 21133T=LMG 31054T), 8-1(1)T (=NCIMB 15156T=CCM 8898T=KCTC 21115T=LMG 31047T), 256-3T (=NCIMB 15160T=CCM 8901T=LMG 31048T) and M1575T (=NCIMB 15149T=CCM 8892T=LMG 31045T), respectively.
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Enterococcus pingfangensis sp. nov., Enterococcus dongliensis sp. nov., Enterococcus hulanensis sp. nov., Enterococcus nangangensis sp. nov. and Enterococcus songbeiensis sp. nov., isolated from Chinese traditional pickle juice
Yu Qin Li and Chun Tao GuFive novel lactic acid bacterial strains, isolated from Chinese traditional pickle juice, were characterised by a polyphasic approach, including 16S rRNA gene sequence analysis, pheS gene sequence analysis, rpoA gene sequence analysis, determination of DNA G+C content, average nucleotide identity (ANI) analysis, in silico DNA–DNA hybridisation (isDDH), fatty acid methyl ester (FAME) analysis and an analysis of phenotypic features. Strains 241-2-2T, 63-4T and 190-7T were closely related to the type strains of Enterococcus devriesei , Enterococcus viikkiensis , Enterococcus pseudoavium , Enterococcus xiangfangensis , Enterococcus avium , Enterococcus malodoratus , Enterococcus raffinosus and Enterococcus gilvus , having 99.1–99.9 % 16S rRNA gene sequence similarities. Strain 94-2T was distantly related to the type strains of Enterococcus phoeniculicola , Enterococcus rivorum and Enterococcus faecalis , having 95.2–96.1 % 16S rRNA gene sequence similarities. Strain 85-4T was distantly related to the type strains of Enterococcus casseliflavus , Enterococcus gallinarum , Enterococcus dispar , Enterococcus canintestini , Enterococcus saigonensis , Enterococcus diestrammenae , Enterococcus asini , Enterococcus cecorum and Enterococcus columbae , having 95.7–97.8 % 16S rRNA gene sequence similarities. Less than 91.5 % ANI and 45.3 % isDDH values between strains 241-2-2T, 63-4T, 190-7T, 94-2T, 85-4T and type strains of phylogenetically related species showed that they represent five new species within the genus Enterococcus . Based upon the data of polyphasic characterisation obtained in the present study, five novel species, Enterococcus pingfangensis sp. nov., Enterococcus dongliensis sp. nov., Enterococcus hulanensis sp. nov., Enterococcus nangangensis sp. nov. and Enterococcus songbeiensis sp. nov., are proposed and the type strains are 241-2-2T (=NCIMB 15185T=CCM 8921T=LMG 31181T), 63-4T (=NCIMB 15178T=CCM 8922T), 190-7T (=NCIMB 15200T=CCM 8949T), 94-2T (=NCIMB 15180T=CCM 8920T=LMG 31180T) and 85-4T (=NCIMB 15179T=CCM 8923T=LMG 31183T), respectively.
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Lactobacillus pingfangensis sp. nov., Lactobacillus daoliensis sp. nov., Lactobacillus nangangensis sp. nov., Lactobacillus daowaiensis sp. nov., Lactobacillus dongliensis sp. nov., Lactobacillus songbeiensis sp. nov. and Lactobacillus kaifaensis sp. nov., isolated from traditional Chinese pickle
More LessSeven novel lactic acid bacterial strains, isolated from traditional Chinese pickle, were characterized using a polyphasic approach, including 16S rRNA gene sequence analysis, pheS gene sequence analysis, rpoA gene sequence analysis, determination of DNA G+C content, determination of average nucleotide identity (ANI), in silico DNA–DNA hybridization (isDDH), fatty acid methyl ester (FAME) analysis and an analysis of phenotypic features. Strains 382-1T, 116-1AT, 381-7T, 203-3T, 218-3T and 398-2T were phylogenetically related to the type strains of Lactobacillus plantarum subsp. plantarum , Lactobacillus plantarum subsp. argentoratensis , Lactobacillus pentosus , Lactobacillus paraplantarum , Lactobacillus fabifermentans , Lactobacillus herbarum , Lactobacillus mudanjiangensis , Lactobacillus xiangfangensis , Lactobacillus plajomi and Lactobacillus modestisalitolerans , having 97.1–99.9 % 16S rRNA gene sequence similarities, less than 89.9 % pheS gene sequence similarities, less than 98.0 % rpoA gene sequence similarities, less than 91.2 % ANI values and less than 43.3 % isDDH values. Strain 778-3T was phylogenetically related to the type strains of Lactobacillus hokkaidonensis , Lactobacillus wasatchensis , Lactobacillus oligofermentans , Lactobacillus nenjiangensis , Lactobacillus vaccinostercus and Lactobacillus suebicus , exhibiting 97.0–99.4 % 16S rRNA gene sequence similarities, 78.2–82.1 % pheS gene sequence similarities, 80.0–91.5 % rpoA gene sequence similarities, less than 78.6 % ANI values and less than 22.9 % isDDH values. Based upon the data of polyphasic characterization obtained in the present study, seven novel species, Lactobacillus pingfangensis sp. nov., Lactobacillus daoliensis sp. nov., Lactobacillus nangangensis sp. nov., Lactobacillus daowaiensis sp. nov., Lactobacillus dongliensis sp. nov., Lactobacillus songbeiensis sp. nov. and Lactobacillus kaifaensis sp. nov., are proposed and the type strains are 382-1T (=NCIMB 15187T=CCM 8935T=LMG 31176T), 116-1AT (=NCIMB 15181T=CCM 8934T=LMG 31171T), 381-7T (=NCIMB 15186T=CCM 8930T), 203-3T (=NCIMB 15183T=CCM 8933T=LMG 31172T), 218-3T (=NCIMB 15184T=CCM 8932T=LMG 31173T), 398-2T (=NCIMB 15189T=CCM 8931T=LMG 31174T) and 778-3T (=NCIMB 15191T=CCM 8929T=LMG 31177T), respectively.
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- Proteobacteria
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Sphingomonas aracearum sp. nov., isolated from rhizospheric soil of Araceae plants
More LessA Gram-stain-negative, single polar flagellum bacterium, WZY27T, was isolated from rhizospheric soil of Araceae plants. The results of phylogenetic analysis based on 16S rRNA gene sequences showed that this strain is closely related to Sphingomonas adhaesiva DSM 7418T (97.2 % similarity), Sphingomonas koreensis KCTC 2883 (97.1 %) and Sphingomonas ginsenosidimutans JCM 17074T (97.0 %). The genomic average nucleotide identity values between strain WZY27T and the above three strains were 75.3, 73.2 and 75.4 %, and the in silico DNA–DNA hybridization values were 19.1 , 20.1 and 20.9 %, respectively. The major fatty acids (>5 %) of strain WZY27T were summed feature 8 (C18 : 1 ω7c/C18 : 1 ω6c), C16 : 0, C14 : 0 2-OH and C18 : 1 ω7c 11-methyl. The predominant respiratory quinone and polyamine were ubiquinone Q-10 and homospermidine, respectively. The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phospholipids, glycolipids, phosphatidylcholine and sphingoglycolipid. The G+C content of the genomic DNA was 68.4 mol%. Based on the results of genotypic, chemotaxonomic and phenotypic characterization, strain WZY27T represents a novel species of the genus Sphingomonas , for which the name Sphingomonas aracearum sp. nov. is proposed. The type strain is WZY27T (=KCTC 62523T=CCTCC AB 2018056T).
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Roseomonas wenyumeiae sp. nov., isolated from faeces of Tibetan antelopes (Pantholops hodgsonii) on the Qinghai–Tibet Plateau
Two Gram-stain-negative, catalase- and oxidase-positive, non-spore-forming, aerobic, motile, flagellated, and coccus-shaped strains (Z23T and Z24) were isolated from faeces of Tibetan antelopes (Pantholops hodgsonii) on the Qinghai–Tibet Plateau, PR China. Results of the morphological, biochemical, and phylogenetic studies indicated that they were similar to each other, but distinct from existing species of the genus Roseomonas . The proposed type strain, Z23T, had 97.8, 97.1 and 96.8 % 16S rRNA similarity to Roseomonas ludipueritiae DSM 14915T, Roseomonas aerofrigidensis JCM 31878T and Roseomonas aerophila KACC 16529T. Results from further phylogenetic analyses based on the 16S rRNA gene and 857 core genes indicated that the two strains were members of Roseomonas , but clearly separated from the currently recognized species. Strains Z23T had 43.8 %, 25.0 % DNA–DNA relatedness and 91.2, 81.3 % ANI values with R. ludipueritiae DSM 14915T and R. aerophila KACC 16529T. The genomic DNA G+C content of strain Z23T was 68.6 mol%. The major cellular fatty acids of strain Z23T were C18 : 1ω7c and/or C18 : 1ω6c and C19 : 0cyclo ω8c. The cell-wall sugars included glucose, rhamnose and ribose. Q-10 was the sole respiratory quinone, and spermidine was the major polyamine component. Polar lipids present in strain Z23T were phosphatidylcholine, diphosphatidylglycerol, phosphatidylethanolamine, aminophospholipid, phosphatidylglycerol, three aminolipids, two phospholipids and two unidentified lipids. Based on the distinct differences from other Roseomonas species judged from the genotypic and phenotypic data, a novel species represented by Z23T and Z24, Roseomonas wenyumeiae sp. nov., is proposed. The type strain is Z23T (=CGMCC 1.16540T=DSM 106207T).
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Corticimicrobacter populi gen. nov., sp. nov., a member of the family Alcaligenaceae, isolated from symptomatic bark of Populus × euramericana canker
More LessOne Gram-negative aerobic bacterial strain was isolated from the bark tissue of Populus × euramericana and investigated using a polyphasic approach including 16S rRNA gene sequencing and both phenotypic and chemotaxonomic assays. The 16S rRNA gene and housekeeping gene phylogenies suggest that the novel isolate is different from the other genera of the family Alcaligenaceae . The G+C content, major fatty acids, physiological and biochemical data supported the distinctiveness of the novel strain from reference species. The major fatty acids detected in the novel isolate were C16 : 1ω7c and/or C16 : 1ω6c, C16 : 0, C14 : 0 3OH and/or C16 : 1isoI and C18 : 1ω7c. The phospholipid profile of strain d3-2-2T contained diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, aminolipid, aminophospholipid and an unidentified lipid. The quinone of the novel isolate was Q-8. Therefore, based on the data, the strain constitutes a novel species of a novel genus within the family Alcaligenaceae , for which the name Corticimicrobacter populi gen. nov., sp. nov. is proposed. The type strain is 3d-2-2T (=CFCC 11891T=KCTC 52807T).
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Paenimaribius caenipelagi gen. nov., sp. nov., isolated from a tidal flat
More LessA Gram-stain-negative, strictly aerobic, non-motile and ovoid- or rod-shaped bacterial strain, JBTF-M29T, was isolated from tidal flat sediment sampled from the Yellow Sea, Republic of Korea. The neighbour-joining phylogenetic tree based on 16S rRNA gene sequences revealed that strain JBTF-M29T clustered with the type strains of Maribius species and this cluster joined the clade comprising Pseudomaribius and Palleronia species. Strain JBTF-M29T exhibited 16S rRNA gene sequence similarity values of 96.2–96.6 % to the type strains of three Maribius species, of 96.4 % to the type strain of Pseudomaribius aestuariivivens and of 93.9–94.7 % to the type strains of three Palleronia species. In the UPGMA dendrogram based on the ANI values of genomic sequences, strain JBTF-M29T formed an evolutionary lineage independent of the genera Maribius and Palleronia and some other taxa. Strain JBTF-M29T contained Q-10 as the predominant ubiquinone and C18 : 1 ω7c and C18 : 0 as the major fatty acids. The major polar lipids of strain JBTF-M29T were phosphatidylglycerol and one unidentified aminolipid. The DNA G+C content of strain JBTF-M29T was 64.5 mol%. The differences in fatty acid and polar lipid profiles and other differential phenotypic properties including nitrate reduction and casein hydrolysis made it reasonable to distinguish strain JBTF-M29T from the genera Maribius , Pseudomaribius and Palleronia . Therefore, on the basis of the polyphasic taxonomic data presented here, strain JBTF-M29T constitutes a new genus and species within the class Alphaproteobacteria , for which the name Paenimaribius caenipelagi gen. nov., sp. nov. is proposed. The type strain is JBTF-M29T (=KACC 19867T=NBRC 113548T).
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Ferruginivarius sediminum gen. nov., sp. nov., isolated from a marine solar saltern
More LessA novel Gram-stain-negative, facultatively anaerobic, oxidase-negative, catalase-positive bacillus, designated WD2A32T, was isolated from a marine solar saltern in the coast of Weihai, Shandong Province, PR China. Strain WD2A32T grew optimally at 37–40 °C (range, 20–45 °C) and pH 7.0–7.5 (range, 6.5–8.0) and was tolerant to 6–8 % (w/v) NaCl (range, 2–12 %). The 16S rDNA of strain WD2A32T was most similar (93.5 %) to that of Rhodovibrio salinarum DSM 9154T (the type species of the genus Rhodovibrio ), followed by Limimonas halophila DSM 25584T (92.4 %; the type species of the genus Limimonas ). The similarities to the type strains of the genera Pelagibius and Limibacillus were less than 91.0 %. The draft genome sequence of strain WD2A32T contained 72 contigs (>507 bp) of 4 237 996 bp with a DNA G+C content of 65.5 mol%. The major polar lipids of strain WD2A32T were phosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine and unidentified aminolipids; major cellular fatty acids were summed feature 8 (C18 : 1ω7c/C18 : 1ω6c) and C19 : 0 cyclo ω8c; the major respiratory quinone was Q-10. On the basis of the results from chemotaxonomic, physiological and biochemical analyses, strain WD2A32T represents a novel species of a novel genus in the family Rhodospirillaceae , for which the name Ferruginivarius sediminum gen. nov., sp. nov. has been proposed. The type strain is WD2A32T (=KCTC 52888T=MCCC 1H00201T).
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Colwellia ponticola sp. nov., isolated from seawater
More LessA Gram-stain-negative, aerobic, motile and rod-shaped bacterial strain, designated OISW-25T, was isolated from seawater in Republic of Korea. Strain OISW-25T grew optimally at 25 °C and in the presence of 2.0 % (w/v) NaCl. The phylogenetic trees based on 16S rRNA gene sequences showed that strain OISW-25T fell within the clade comprising the type strains of Colwellia species. Strain OISW-25T exhibited 16S rRNA gene sequence similarity values of 97.5, 97.2 and 97.1 % to the type strains of C. piezophila , C. maris and C. psychrerythraea , respectively, and of 93.6–96.6 % to the type strains of the other Colwellia species. The average nucleotide identity values between strain OISW-25T and C. piezophila ATCC BAA-637T and two non-type strains of C. psychrerythraea were 78.16–79.35 % and DNA–DNA relatedness value of strain OISW-25T with the type strain of C. maris was 17 %. The DNA G+C content of strain OISW-25T was 39.2 mol% (HPLC) or 38.7 mol% (genome data). Strain OISW-25T contained Q-8 as the predominant ubiquinone and summed feature 3 (C16 : 1 ω7c and/or C16 : 1 ω6c) and C16 : 0 as the major fatty acids. The major polar lipids of strain OISW-25T were phosphatidylethanolamine and phosphatidylglycerol. Distinguished phenotypic properties, along with the phylogenetic and genetic distinctiveness, revealed that strain OISW-25T is distinct from Colwellia species. On the basis of the data presented, strain OISW-25T is considered to represent a novel species of the genus Colwellia , for which the name Colwellia ponticola sp. nov. is proposed. The type strain is OISW-25T (=KCTC 62426T=NBRC 113187T).
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Roseovarius amoyensis sp. nov. and Muricauda amoyensis sp. nov., isolated from the Xiamen coast
More LessStrain GCL-8T and GCL-11T were isolated from Guanyinshan, a sandy beach on the Xiamen coast. Cells of the two strains were Gram-stain-negative, catalase-positive, oxidase-positive, rod-shaped and non-motile. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strains GCL-8T and GCL-11T belonged to the genera Roseovarius and Muricauda , with the highest sequence similarities to Roseovarius indicus B108T (96.5%) and Muricauda antarctica CGMCC 1.12174T (97.3%), respectively. The major fatty acids of strain GCL-8T were summed feature 8 (C18:1ω7c/ω6c), C19:0cyclo ω8c, C16:0 and C17:0, while the major fatty acids of strain GCL-11T were iso-C15:1 G, iso-C15:0 and iso-C17:0 3-OH. The G+C contents of the chromosomal DNA of strains GCL-8Tand GCL-11T were 64.1 mol% and 45.67 mol%, respectively. The respiratory quinones of strains GCL-8T and GCL-11T were Q-10 and MK-6, respectively. The polar lipids of strain GCL-8T were diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, one unidentified aminophospholipid, one unidentified aminolipid, three unidentified phospholipids and three unidentified polar lipids. The polar lipids of strain GCL-11Twere phosphatidylethanolamine, seven unidentified phospholipids and four unidentified polar lipids. The combined genotypic and phenotypic data show that strains GCL-8T and GCL-11T represent two novel species within genera Roseovarius and Muricauda , for which the names Roseovariu samoyensis sp. nov. and Muricauda amoyensis sp. nov. are proposed, with type strains GCL-8T (=MCCC 1A11651T = KCTC 52430T) and GCL-11T (=MCCC 1A11649T=KCTC 52432T).
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Aliishimia ponticola gen. nov., sp. nov., isolated from seawater
A Gram-stain-negative, aerobic, non-motile and coccoid, ovoid or rod-shaped bacterial strain, designated MYP11T, was isolated from seawater around Jeju island, Republic of Korea and identified by polyphasic taxonomic study. A neighbour-joining phylogenetic tree of 16S rRNA gene sequences showed that strain MYP11T joined the cluster comprising the type strains of Shimiaabyssi, Shimiaaestuarii and Shimiaaquaeponti, showing 16S rRNA gene sequence similarities of 96.3–96.8 %. Strain MYP11T exhibited 16S rRNA gene sequence similarity values of 94.2–94.9 % to the type strains of other Shimia species. In the upgma dendrogram based on the average nucleotide identity values of genomic sequences, strain MYP11T formed an evolutionary lineage independent of those of Shimia species and other taxa. Strain MYP11T contained Q-10 as the predominant ubiquinone and C18 : 1 ω7c and cyclo C19 : 0 ω8c as the major fatty acids. The major polar lipids of strain MYP11T were phosphatidylcholine, phosphatidylglycerol, two unidentified lipids and one unidentified aminolipid. The DNA G+C content of strain MYP11T was 63.1 or 61.5 mol%. The differences in the fatty acid and polar lipid profiles and DNA G+C contents made it reasonable to distinguish strain MYP11T from the type strains of S. abyssi , S. aestuarii and S. aquaeponti and those of other Shimia species. On the basis of the polyphasic data presented here, strain MYP11T is considered to constitute a new genus and species within the class Alphaproteobacteria , for which the name Aliishimia ponticola gen. nov., sp. nov. is proposed. The type strain is MYP11T (=KCTC 62899T=NBRC 113544T).
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Rhodoferax lacus sp. nov., isolated from a large freshwater lake
More LessA Gram-staining-negative, aerobic, motile with a single polar flagellum and rod-shaped bacterium as a bacterial host of podovirus P26218, designated IMCC26218T, was isolated from Lake Soyang, South Korea. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain IMCC26218T belonged to the genus Rhodoferax of the family Comamonadaceae and shared 97.7–99.0 % sequence similarities with Rhodoferax species. The draft whole genome sequence of strain IMCC26218T was ca. 4.9 Mbp in size with the DNA G+C content of 62.3 mol%. Average nucleotide identity (ANI) and digital DNA–DNA hybridisation (dDDH) values between strain IMCC26218T and other Rhodoferax were 74.0–77.3 % and 19.5–21.0 %, respectively, showing that the strain represents a new Rhodoferax species. The strain contained summed feature 3 (C16 : 1 ω6c and/or C16 : 1 ω7c) and C16 : 0 as the major fatty acids and phosphatidylethanolamine, three unidentified phospholipids, two unidentified aminolipids and two unidentified lipids as major polar lipids. The predominant isoprenoid quinone of the strain was ubiquinone-8 (Q-8). On the basis of the phylogenetic and phenotypic characteristics, strain IMCC26218T is considered to represent a novel species of the genus Rhodoferax , for which the name Rhodoferax lacus sp. nov. is proposed. The type strain is IMCC26218T (=KACC 18983T=NBRC 112709T).
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Pseudomonas edaphica sp. nov., isolated from rhizospheric soil of Cistus ladanifer L. in Spain
During a study on biodiversity of bacteria inhabiting rhizospheric soil of rockrose (Cistus ladanifer L.), we isolated a strain coded RD25T in a soil from Northern Spain. The 16S rRNA gene sequence showed 99.5 % identity with respect to the closest related species Pseudomonas brenneri DSM15294T, and 99.4 % with respect to P. paralactis WS4672T. The following related Pseudomonas species showed 99.3 % or less identity, and therefore RD25T was classified within genus Pseudomonas . The phylogenetic analysis of 16S rRNA and the housekeeping genes rpoB, rpoD and gyrB suggested that this strain could be a novel species. The strain RD25T has several polar-subpolar flagella. It can grow at 36 °C, at 0–6 % NaCl concentration and a range of pH 5–9. Positive for arginine dihydrolase and urease production, and negative for reduction of nitrate. The strain is catalase and oxidase positive. Major fatty acids are C16 : 1 ω7c / C16 : 1 ω6c in summed feature 3, C16 : 0, and C18 : 1 ω7c / C18 : 1 ω6c in summed feature 8. The respiratory ubiquinone is Q9. The DNA G+C content was 59.9 mol%. The digital DNA–DNA hybridisation average values (dDDH) ranged between 30–61.2 % relatedness and the ANIb values ranged between 93.9–80.5 % with respect to the type strains of the closely related species. Therefore, the genotypic, genomic, phenotypic and chemotaxonomic data support the classification of strain RD25 as a novel species of genus Pseudomonas , for which the name P. edaphica sp. nov. is proposed. The type strain is RD25T (=LMG 30152T=CECT 9373T).
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Undibacterium piscinae sp. nov., isolated from Korean shiner intestine
A novel Gram-stain-negative, non-spore-forming, obligate aerobic, motile, rod-shaped, and flagellated bacterium, designated S11R28T, was isolated from the intestinal tract of a Korean shiner, Coreoleuciscus splendidus. Based on 16S rRNA gene sequences, strain S11R28T was identified as member of the genus Undibacterium in class Betaproteobacteria , and was closely related to Undibacterium parvum DSM 23061T (98.49 %). The isolate grew at 4–25 °C, pH 6–9, with 0 % (w/v) NaCl, and grew optimally at 20 °C, pH 8, in the absence of NaCl. The main cellular fatty acids were C16 : 0 and summed features 3 (C16 : 1ω7c and/or C16 : 1ω6c). The strain possessed diphosphatidylglycerol, phosphatidylglycerol, and phosphatidylethanolamine as predominant polar lipids, and ubiquinone Q-8 as a respiratory quinone. The polyamine profile composed of 2-hydroxyputrescine, spermidine, putrescine, and benzoic acid. A genomic DNA G+C content was 51.4 mol%. The average nucleotide identity between strains S11R28T and U. parvum DSM 23061T was 78.66 %. Thus, Undibacterium piscinae can be considered a novel species within the genus Undibacterium with the type strain S11R28T (=KCTC 62668T=JCM 33224T).
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Kosakonia quasisacchari sp. nov. recovered from human wound secretion in China
More LessA novel Kosakonia strain WCHEs120001T was recovered from the wound secretion of a patient at West China Hospital, Chengdu, PR China, in 2017. The strain was Gram-stain-negative, facultatively anaerobic, motile, and non-spore-forming. A preliminary analysis based on the 16S rRNA gene sequence revealed that this strain was closely related to members of the genus Kosakonia . The strain was subjected to whole genome sequencing. Phylogenetic analysis based on core gene sequences of type strains of all Enterobacteriaceae species revealed that this strain belonged to the genus Kosakonia but were distinct from any previously known Kosakonia species. Both average nucleotide identity (ANI) and in silico DNA–DNA hybridisation (isDDH) values between strain WCHEs120001T and type strains of all known Kosakonia species were 82.02 to 92.37% and 25.6 to 50.9 %, respectively, which are lower than the 95 % (ANI) and 70 % (isDDH) cutoff for species delineation. The major fatty acids of the strain WCHEs120001T are C16 : 0, sum of C16:1ω7c/C16:1ω6c and C18:1ω7c, which are similar to other Kosakonia species. Genomic DNA G+C content of strain WCHEs120001T was 53.33 mol%. Strain WCHEs120001T is positive for methyl-d-glucopyranoside but does not ferment adonitol, d-arabitol, dulcitol and melibiose, which distinguishes it from all other Kosakonia species. Genotypic and phenotypic characteristics indicate that strain WCHEs120001T represents a novel species of the genus Kosakonia , for which the name Kosakonia quasisacchari sp. nov. is proposed. The type strain of K. quasisacchari sp. nov. is WCHEs120001T (=GDMCC1.1570T=NCTC 14272T).
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Actinobacillus vicugnae sp. nov., isolated from alpaca (Vicugna pacos)
Ten strains of an Actinobacillus -like organism were isolated from alpaca (Vicugna pacos) in the UK over a period of 5 years, with no known epidemiological linkages. The isolates are distinct, based on both phenotype and genotype, from any previously described Actinobacillus species. Molecular analysis, based on 16S rRNA, rpoB and infB gene sequences, placed the isolates as a novel, early branching, lineage within the currently recognised Actinobacillus sensu stricto. In agreement with the results of the single-gene analysis, average nucleotide identity values, based on whole genome sequences, showed very similar identities to a number of members of the Actinobacillus sensu stricto notably Actinobacillus equuli, Actinobacillus suis and Actinobacillus ureae . At least two phenotypic characteristics differentiate the alpaca isolates from other Actinobacillus sensu stricto species, and from taxa likely falling within this group but awaiting formal species description, with Actinobacillus anseriformium and A. equuli subsp. haemolyticus being the most closely related phenotypically. The alpaca isolates can be differentiated from A. anseriformium by production of β-galactosidase (ONPG) and acid from raffinose, and from A. equuli subsp. haemolyticus by production of acid from d-sorbitol and failure to produce acid from d-xylose. Isolates were obtained from multiple sites in alpaca including respiratory tract, alimentary tract and internal organs although further evidence is required to understand any pathogenic significance. Based on the results of characterization described here, it is proposed that the isolates constitute a novel species, Actinobacillus vicugnae sp. nov. The type strain is W1618T (LMG30745T NCTC14090T) isolated in the UK in 2012 from oesophageal ulceration in an alpaca (Vicugna pacos).
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Cohaesibacter intestini sp. nov., isolated from the intestine of abalone, Haliotis discus hannai
More LessA Gram-stain-negative, rod-shaped and facultative anaerobic strain named YE-B6T was isolated from the intestine of abalone, Haliotis discus hannai. The reactions of oxidase and catalase were both positive. Strain YE-B6T could grow at 10–37 °C (optimum, 28–33 °C), at pH 7–9 (optimum, pH 7) and in salinity of 0–8 % NaCl (w/v; optimum, 2 %). The 16S rRNA gene sequence of strain YE-B6T had maximum sequence similarities to Cohaesibacter celericrescens H1304T (98.0 %), Cohaesibacter marisflavi DQHS21T (97.4 %), Cohaesibacter haloalkalitolerans JC131T (97.4 %) and Cohaesibacter gelatinilyticus CL-GR15T (97.3 %). Results of phylogenetic analysis showed that it was affiliated to the genus Cohaesibacter within the order Rhizobiales in the Alphaproteobacteria . The respiratory quinone of strain YE-B6T was Q-10. The cellular fatty acids mainly comprised C18 : 1 ω7c and summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c). The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylmonomethylethanolamine, two unidentified aminolipids, two unidentified polar lipids and one unidentified phospholipid. The G+C content of strain YE-B6T was 55.6 mol%. Based on its genotypic, physiological and biochemical characteristics, strain YE-B6T represented a novel species within the genus Cohaesibacter , for which the name Cohaesibacter intestini sp. nov. is proposed. The type strain of the new species is YE-B6T (=MCCC 1A13131T=KCTC 62716T).
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Elevation of Pectobacterium carotovorum subsp. odoriferum to species level as Pectobacterium odoriferum sp. nov., proposal of Pectobacterium brasiliense sp. nov. and Pectobacterium actinidiae sp. nov., emended description of Pectobacterium carotovorum and description of Pectobacterium versatile sp. nov., isolated from streams and symptoms on diverse plants
The Pectobacterium carotovorum species corresponds to a complex, including two subspecies with validly published names, two proposed subspecies and two new species, Pectobacterium polaris and Pectobacterium aquaticum . Recent studies suggested that this complex needed revision. We examined the taxonomic status of 144 Pectobacterium strains isolated from a wide range of plant species, various geographical origins and waterways. Sequences of the leuS, dnaX and recA housekeeping genes clustered 114 of these Pectobacterium strains together within a not yet described clade. We sequenced eight strains of this clade and analysed them together with the 102 Pectobacterium genomes available in the NCBI database. Phylogenetic analysis, average nucleotide identity calculation and in silico DNA–DNA hybridization allowed us to differentiate seven clades. This led us to propose the elevation of Pectobacterium carotovorum subsp. odoriferum to species level as Pectobacterium odoriferum sp. nov. (type strain CFBP 1878T=LMG 5863T=NCPPB 3839T=ICMP 11533T), the proposal of Pectobacterium actinidiae sp. nov. (type strain KKH3=LMG 26003 T=KCTC 23131T) and Pectobacterium brasiliense sp. nov. (type strain CFBP 6617T= LMG 21371T=NCPPB 4609T), to emend the description of Pectobacterium carotovorum (type strain CFBP 2046T=LMG 2404T=NCPPB 312T=ICMP 5702T), and to propose a novel species, Pectobacterium versatile sp. nov (type strain CFBP6051T= NCPPB 3387T=ICMP 9168T) which includes the strains previously described as ‘Candidatus Pectobacterium maceratum’. Phenotypic analysis performed using Biolog GENIII plates on eight strains of P. versatile sp. nov. and related strains completed our analysis.
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Sphingomonas ginkgonis sp. nov., isolated from phyllosphere of Ginkgo biloba
More LessStrain HMF7854T, isolated from a ginkgo tree, was an orange-pigmented, Gram-stain-negative, motile by means of a single flagellum, strictly aerobic, rod-shaped bacterium. The isolate grew optimally on Reasoner's 2A agar at 30 °C, pH 7.0–8.0 and 0 % NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain HMF7854T belonged to the genus Sphingomonas and was most closely related to Sphingomonasagri HKS-06T (96.8 % sequence similarity). The major fatty acids were C17 : 1 ω6c, summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 0. The predominant isoprenoid quinone was ubiquinone-10. The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, sphingoglycolipid, two unidentified lipids and two unidentified glycolipids. The genomic DNA G+C content was 68.4 mol%. Thus, based on its phylogenetic, phenotypic and chemotaxonomic data, strain HMF7854T represents a novel species of the genus Sphingomonas , for which the name Sphingomonas ginkgonis sp. nov. is proposed. The type strain of the species is strain HMF7854T (=KCTC 62461T=NBRC 113337T).
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Sulfitobacter sabulilitoris sp. nov., isolated from marine sand
More LessA Gram-stain-negative, aerobic, non-motile and ovoid or rod-shaped bacterial strain, HSMS-29T, was isolated from a marine sand sample collected from the Yellow Sea, Republic of Korea. The neighbour-joining phylogenetic tree of 16S rRNA gene sequences showed that strain HSMS-29T fell within the clade comprising the type strains of Sulfitobacter species. Strain HSMS-29T exhibited 16S rRNA gene sequence similarities of 97.2–98.4 % to the type strains of Sulfitobacter mediterraneus , Sulfitobacter porphyrae , Sulfitobacter marinus , Sulfitobacter pontiacus , Sulfitobacter litoralis , Sulfitobacter brevis , Sulfitobacter noctilucicola and Sulfitobacter dubius and 96.3–96.9 % to the type strains of the other Sulfitobacter species. The genomic ANI values of strain HSMS-29T with the type strains of S. mediterraneus , S. marinus , S. pontiacus , S. litoralis , S. brevis , S. noctilucicola and S. dubius were 72.66–74.99 %. The DNA–DNA relatedness value between strain HSMS-29T and the type strain of S. porphyrae was 17 %. Strain HSMS-29T contained Q-10 as the predominant ubiquinone and C18 : 1 ω7c as the major fatty acid. The major polar lipids of strain HSMS-29T were phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, one unidentified aminolipid and one unidentified lipid. The DNA G+C content of strain HSMS-29T was 65.0 mol% (HPLC) or 64.4 % (genome analysis). Distinguished phenotypic properties, along with the phylogenetic and genetic distinctiveness, revealed that strain HSMS-29T is separated from recognized Sulfitobacter species. On the basis of the data presented here, strain HSMS-29T is considered to represent a novel species of the genus Sulfitobacter , for which the name Sulfitobacter sabulilitoris sp. nov. is proposed. The type strain is HSMS-29T (=KACC 19870T=NBRC 113549T).
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Acidibrevibacterium fodinaquatile gen. nov., sp. nov., isolated from acidic mine drainage
More LessA heterotrophic and acidophilic bacterial strain, G45-3T, was isolated from acidic mine drainage sampled in Fujian Province, PR China. Cells of strain G45-3T were Gram-stain-negative, non-spore-forming, non-motile and rod-shaped. Catalase and oxidase activities were positive. Strain G45-3T grew aerobically at 20–45 °C (optimum, 37 °C) and at pH 2.5–5.0 (optimum, pH 4.0). Photosynthetic pigments were not produced. Analysis of 16S rRNA gene sequences showed that strain G45-3T was phylogenetically related to different members of the family Acetobacteraceae , and the sequence identities to Acidisphaera rubrifaciens JCM 10600T, Rhodovastum atsumiense G2-11T and Rhodopila globiformis ATCC 35887T were 95.9 , 95.3 and 95.3 %, respectively. Strain G45-3T contained ubiquinone-10 as its respiratory quinone. The major polar lipids were determined to be diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, an unidentified aminophospholipid and an unidentified aminolipid. The predominant fatty acids were cyclo-C19 : 0ω8c, C18 : 1ω7c, C16 : 0 and C18 : 0. The genome of G45-3T consists of one chromosome (3 907 406 bp) and three plasmids (68 344, 45 771 and 16 090 bp), with an average G+C content of 65.9 mol%. Based on the results of phenotypic and genomic analyses, it is concluded that strain G45-3T represents a novel species of a new genus, for which the name Acidibrevibacterium fodinaquatile gen. nov., sp. nov. is proposed. A. fodinaquatile is nominated as type species and its type strain is G45-3T (=CGMCC 1.16069T=KCTC 62275T).
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Parashewanella tropica sp. nov., a mesophilic bacterium isolated from a marine sponge from Chuuk lagoon, Federated States of Micronesia, and emended description of the genus Parashewanella
More LessA mesophilic, straight-rod-shaped, non-flagellated bacterium, designated MEBiC05444T, was isolated from a marine sponge collected from Chuuk lagoon, Federated States of Micronesia. The strain was Gram-negative, catalase- and oxidase-positive, and facultative anaerobic. The isolate aerobically grew at 8–38 °C (optimum, 24–32 °C), pH 4.0–10.0 (pH 7.0–7.5) with an absolute requirement for Na+ up to 6 % (w/v) NaCl (2 %). Phylogenetic analyses based on 16S rRNA gene sequences revealed that MEBiC05444T belonged to the family Shewanellaceae , within the class Gammaproteobacteria. Strain MEBiC05444T showed highest 16S rRNA gene sequence similarity to Parashewanella curva C51T, followed by [ Shewanella ] irciniae UST040317-058T and Parashewanella spongiae HJ039T (98.9 %, 97.2 and 95.7 %, respectively). In the phylogenetic tree based on the 16S rRNA gene sequences, MEBiC05444T formed a cluster with P. curva C51T, but the average nucleotide identity value between the two strains was 82 %, thus confirming their separation at species level. The major fatty acids were iso-C15 : 0 (19.7 %), summed feature 3 (composed of C16 : 1 ω7c and/or C16 : 1ω6c; 16.1 %) and C17 : 1ω8c (10.2 %). The only detected respiratory quinone was ubiquinone Q-8. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, three unidentified aminoglycolipids, two unidentified glycolipids, an unidentified aminoglycophospholipid and an unidentified lipid. The genomic DNA G+C content of strain MEBiC05444T was 40.8 mol%. Based on the results of polyphasic analysis, the strain represents a novel species of the genus Parashewanella , distinct from P. curva C51T, [ Shewanella ] irciniae UST040317-058T and P. spongiae HJ039T for which the name Parashewanella tropica sp. nov. is proposed with type strain MEBiC05444T (=KCCM 43304T=JCM 16653T).
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Pseudomonas huaxiensis sp. nov., isolated from hospital sewage
More LessA novel Gram-negative, obligate aerobic, rod-shaped, motile by one or two polar flagella, non-spore-forming bacterial strain, WCHPs060044T, was isolated from the wastewater treatment plant at West China Hospital in Chengdu, PR China. Analysis of its 16S rRNA gene sequence showed that strain WCHPs060044T belonged to the genus Pseudomonas with the highest similarity to Pseudomonas alkylphenolica KL28T (99.73 %), Pseudomonas donghuensis HYST (99.52 %) and Pseudomonas wadenswilerensis CCOS 846T (99.38 %). Phylogenomic analysis based on 107 core gene sequences demonstrated that WCHPs060044T was a member of the Pseudomonas putida group but was distant from all closely related species. Whole-genome comparisons, using average nucleotide identity based on blast (ANIb) and in silico DNA–DNA hybridization (isDDH), confirmed low genome relatedness to its close phylogenetic neighbours [below the recommended thresholds of 95 % (ANIb) and 70 % (isDDH) for species delineation]. Phenotypic characterization tests showed that the utilization of l-arginine, l-fucose, d-galacturonic, d-glucuronic acid, inositol and sorbitol in combination could distinguish this strain from other related species of the genus Pseudomonas . Therefore, based on genetic and phenotypic evidence, strain WCHPs060044T represents a novel species, for which the name Pseudomonas huaxiensis sp. nov. is proposed. The type strain is WCHPs060044T (GDMCC 1.1396T=JCM 32907T=CCTCC AB 2018120T=CNCTC 7663T).
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Erythrobacter suaedae sp. nov., isolated from a rhizosphere mudflat of a halophyte (Suaeda japonica)
More LessThe taxonomic status of a Gram-reaction-negative, aerobic, motile, rod-shaped bacterium, designated strain GH3-15T, was examined by a polyphasic approach. The strain, which was isolated from the rhizosphere mudflat of a halophyte at the seashore of Gangwha Island, Republic of Korea, was found to belong to the family Erythrobacteraceae based on 16S rRNA gene sequences. The closest phylogenetic neighbour was Erythrobacter xanthus SM1501T (98.3 % sequence similarity). Levels of 16S rRNA gene sequence similarity of strain GH3-15T to other members of the family Erythrobacteracae were <97.1 %. The respiratory quinone was Q-10. The major fatty acids were C17 : 1ω6c, C18 : 1ω7c, C15 : 0 2-OH, 11-methyl C18 : 1ω7c and C17 : 0. The polar lipids were phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol and sphingoglycolipid. The novel isolate exhibited growth at 20–40 °C, at pH 5–9, and in the presence of 1–7 % (w/v) NaCl. DNA relatedness between strain GH3-15T and its closet relative was 32.9±8.8 %. On the basis of phenotypic, chemotaxonomic and DNA–DNA hybridization data, in addition to a distinct phylogenetic position, strain GH3-15T (=KCTC 62380T=JCM 32445T) represents a novel species of the genus Erythrobacter , for which the name Erythrobactersuaedae sp. nov. is proposed.
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Pararhodobacter marinus sp. nov., a bacterium isolated from marine sediment in the East China Sea and emended description of the genus Pararhodobacter
More LessA Gram-negative, rod-shaped, non-motile and strictly aerobic bacterium, designated ZQ420T, was isolated from marine sediment sampled on Zhoushan Island located in the East China Sea. Strain ZQ420T was able to grow at 10–45 °C, 0–12.0 % (w/v) NaCl and pH 5.5–9.0. Catalase and oxidase activities, nitrate reduction, H2S production, hydrolysis of starch, casein, Tween 20, 40 and 80 were positive. Indole, methyl red, Voges–Proskauer test, hydrolysis of gelatin and Tween 60 were negative. The major cellular fatty acids were C18 : 1 ω7c, C16 : 0 and 11-methyl C18 : 1ω7c. Ubiquinone-10 (Q-10) was the only detected respiratory quinone. The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, three unidentified phospholipids, three unidentified glycolipids, two unidentified aminolipid and two unidentified lipids. The DNA G+C content was 64.8 mol%. According to 16S rRNA gene sequence similarities, strain ZQ420T shared 97.9, 96.3 and 96.3 % similarities to the following species with validated names Pararhodobacter aggregans D1-19T, Pseudo rhodobacter psychrotolerans PAMC27389T and Pseudo rhodobacter collinsensis 4-T-34T, respectively. While sharing lower sequence similarities (<96.0 %) to other type species. Phylogenetic analyses showed that strain ZQ420T and P. aggregans D1-19T formed an independent cluster in the phylogenetic trees. The average nucleotide identity value between strain ZQ420T and P. aggregans D1-19T was 79.1 %. The in silico DNA–DNA hybridization analysis revealed that strain ZQ420T shared 21.5 % DNA relatedness with P. aggregans D1-19T. On the basis of its phenotypic, chemotaxonomic and genotypic characteristics, strain ZQ420T is considered to represent a novel species in the genus Pararhodobacter , for which the name Pararhodobacter marinus sp. nov. is proposed. The type strain is ZQ420T (=KCTC 62579T=MCCC 1K03530T).
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Rhodosalinus halophilus sp. nov., isolated from a marine solar saltern, and emended description of the genus Rhodosalinus
More LessA novel Gram-stain-negative, rod-shaped, beige-coloured, motile, facultatively anaerobic bacterium, designated as E84T, was isolated from sediment sampled from a marine solar saltern in Wendeng, PR China. Phylogenetic analysis based on 16S rRNA gene sequencing showed that Rhodosalinus sediminis WDN1C137T was the closest phylogenetic relationship, with 16S rRNA gene sequence similarity of 96.9 %. Optimal growth occurred at 33–37 °C (range, 20–40 °C), at pH 7.5 (pH 7.0–8.5) and with 6.0 % (w/v) NaCl (0.5–20.0 %). The sole respiratory quinone was Q-10. The major fatty acids were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), C18 : 0 and cyclo C19 : 0ω8c. The polar lipids were phosphatidylglycerol, one unidentified glycolipid, two unidentified phospholipids and two unidentified lipids. The genomic DNA G+C content of strain E84T was 69.8 mol%. Based on the results of physiological, genotypic, phylogenetic and chemotaxonomic analyses, we concluded that strain E84T represents a novel species of the genus Rhodosalinus , for which the name Rhodosalinus halophilus sp. nov. is proposed. The type strain is E84T (=KCTC 52697T=MCCC 1H00231T).
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- Eukaryotic Micro-Organisms
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Toxicocladosporium aquimarinum sp. nov. and Toxicocladosporium qatarense sp. nov., isolated from marine waters of the Arabian Gulf surrounding Qatar
The Arabian Gulf surrounding Qatar is distinct from other marine ecosystems due to its high salinity (35–75 PSU) and extreme water temperature fluctuations (11–40 °C). Furthermore, in the last decade, Qatar has been witnessing an industrial boom as well as extensive infrastructure construction activities. Marine micro-organisms, including fungi, remain largely unexplored in the Arabian Gulf. During a 3 year study, we investigated the diversity of marine fungi in coastal waters around Qatar. As a result, two new Toxicocladosporium species were isolated from the Qatari marine environment. Molecular and phylogenetic analyses of rRNA gene sequences of five loci, namely the internal transcribed spacer 1 and 2 regions and the D1/D2 domains of the large subunit rRNA, actin, RNA polymerase second largest subunit and beta-tubulin genes, were used to confirm the identity of the novel species for which we propose the names Toxicocladosporium aquimarinum sp. nov. and Toxicocladosporium qatarense sp. nov.
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Biodiversity of Penicillium species from marine environments in Portugal and description of Penicillium lusitanum sp. nov., a novel species isolated from sea water
During an extensive survey of marine fungi in coastal marine environments from Portugal, a collection of Penicillium isolates were obtained from sea water, macroalgae and driftwood. Sixteen distinct Penicillium species were identified with Penicillium terrigenum and Penicillium brevicompactum being the most frequent. A Penicillium species isolated from sea water could not be affiliated to any known species. Phylogenetic analyses based on the ITS region of the rDNA and the beta-tubulin (benA) gene placed it into Penicillium section Ramosa, distinct from all currently known species and with Penicillium tunisiense as its closest relative. Although having similar morphological characteristics, these species differ in micromorphological and molecular characters. Thus, Penicillium lusitanum sp. nov. is proposed as a novel species.
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Metschnikowia baotianmanensis f.a., sp. nov., a new yeast species isolated from the gut of the rhinoceros beetle Allomyrina dichotoma
More LessFour strains, NYNU 15610, NYNU 15612, NYNU 15613 and NYNU 15615, of a novel ascomycetous yeast were isolated from the gut of Allomyrina dichotoma (Coleoptera: Scarabeidae) collected from two different localities in Henan Province, Central PR China. The four strains shared identical sequences in both of the D1/D2 domains of the large subunit rRNA gene and the internal transcribed spacer regions. Sequence analyses revealed that this novel species represents a member of the genus Metschnikowia. It differed from its closest known species Metschnikowia zobellii, Metschnikowiaaustralis and Metschnikowia bicuspidata, by 8.4–9.2 % sequence divergence (33–40 nt substitutions and 7–12 gaps over 509 bases) in the D1/D2 sequences. The formation of ascospores was not observed on various sporulation media. In contrast to M. zobellii, M. australis and M. bicuspidata, the novel yeast species was unable to assimilate succinate, ethanol, ethylamine, cadaverine and 10 % NaCl plus 5 % glucose, but was able to grow in vitamin-free medium. The name Metschnikowia baotianmanensis f.a., sp. nov. is proposed to accommodate these strains, with NYNU 15613 as the holotype.
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Memnoniella sinensis sp. nov., a new species from China and a key to species of the genus
More LessDuring a survey of fungal diversity in a deserted rocky area in Yunnan, PR China, a new species, Memnoniella sinensis, was identified. This new species is characterized by having phialidic conidiogenous cells with conspicuous collarettes, and aseptate, verrucose, ellipsoidal to sometimes ovoid, olivaceous brown to dark brown conidia. Morphologically, M. sinensis is similar to M. dichroa, but can be easily distinguished due to its hyaline conidiophores and smaller conidia. Phylogenetic analysis based on DNA sequences at five loci showed that our strain grouped together with M. dichroa and M. oenanthes. Here, the new species is described and illustrated, and a key to the species of the genus Memnoniella is provided.
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Phalangispora sinensis sp. nov. from Yunnan, China and two new members of Wiesneriomycetaceae
Ji-Shu Guo, Zhe Zhang, Min Qiao and Ze Fen YuPhalangispora sinensis, an aquatic hyphomycete collected from south-western PR China, is described as a new species. This new species is characterized by having multicellular branched conidia composed of a curved main axis and one or two laterals, with the laterals arising from the third or fourth cell of the base of the main axis. Combined analyses of the LSU, SSU, RPB2 and TEF1 gene sequence data revealed that Phalangispora and another aquatic hyphomycete genus, Setosynnema, belonged to Wiesneriomycetaceae, Tubeufiales, Dothideomycetes, Ascomycota.
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Wickerhamiella shivajii sp. nov., a thermotolerant yeast isolated from distillery effluent
More LessEthanol production at high temperatures has garnered much interest in recent years and a key factor is the availability of thermotolerant yeasts. During an investigation on the diversity of thermotolerant yeasts from different habitats, a novel yeast species from the spent wash of a distillery unit associated with a sugar factory was isolated. Phylogenetic analysis of D1/D2 large subunit and ITS rRNA genes placed this species in the ascomycetous genus Wickerhamiella. The novel species can be distinguished from the closely related species Wickerhamiella pararugosa using these rRNA gene regions. The cells of the new species are ovoid to ellipsoid with a diameter of 3.5–6.0×2.4–3.10 µm, while W. pararugosa cells are cylindrical with a cell diameter of 1.5–3.0×6–23 µm. This novel species represents, together with Wickerhamiella cacticola, one of the two most thermotolerant yeast species in the genus Wickerhamiella, able to grow at 42 °C. Wickerhamiella shivajii sp. nov. is proposed during this study.
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- ICSP Matters
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On the status of the names Corynebacteriales Goodfellow and Jones 2015, Mycobacteriales Janke 1924 (Approved Lists 1980) and Mycobacteriales Cavalier-Smith 2002
More LessThe name Corynebacteriales Goodfellow and Jones 2015 has been validly published by inclusion in Validation List 164, with the nomenclatural type defined as Corynebacterium Lehmann and Neumann 1896 (Approved Lists 1980). The name Mycobacteriales Janke 1924 (Approved Lists 1980) appeared on the Approved Lists of Bacterial Names and is validly published, with the nomenclatural type defined as Mycobacterium Lehmann and Neumann 1896 (Approved Lists 1980). The name Mycobacteriales Cavalier-Smith 2002 was validly published by inclusion in an article in the International Journal of Systematic and Evolutionary Microbiology with the nomenclatural type defined as Mycobacterium Lehmann and Neumann 1896 (Approved Lists 1980). As circumscribed by the authors MycobacterialesJanke 1924 (Approved Lists 1980), Mycobacteriales Cavalier-Smith 2002 and Corynebacteriales Goodfellow and Jones 2015 all contain the genus MycobacteriumLehmann and Neumann 1896 (Approved Lists 1980), which is the nomenclatural type of Mycobacteriales Janke 1924 (Approved Lists 1980). Consequently, the name Corynebacteriales Goodfellow and Jones 2015 is not the earliest validly published name, contravenes Rule 51b (1) of the International Code of Nomenclature of Prokaryotes and according to Rule 54 must be replaced. In the case of Mycobacteriales Cavalier-Smith 2002 the status of the name appears to be currently uncertain, but a solution may be in sight.
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Volumes and issues
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Volume 74 (2024)
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Volume 73 (2023)
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Volume 72 (2022 - 2023)
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Volume 71 (2020 - 2021)
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Volume 70 (2020)
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Volume 69 (2019)
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Volume 68 (2018)
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Volume 67 (2017)
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Volume 66 (2016)
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Volume 65 (2015)
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Volume 64 (2014)
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Volume 63 (2013)
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Volume 62 (2012)
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Volume 61 (2011)
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Volume 46 (1996)
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Volume 41 (1991)
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Volume 40 (1990)
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Volume 36 (1986)
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Volume 35 (1985)
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Volume 34 (1984)
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Volume 33 (1983)
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Volume 31 (1981)
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Volume 30 (1980)
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Volume 29 (1979)
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Volume 28 (1978)
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Volume 27 (1977)
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Volume 26 (1976)
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Volume 25 (1975)
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Volume 24 (1974)
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Volume 23 (1973)
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Volume 22 (1972)
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Volume 21 (1971)
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Volume 20 (1970)
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Volume 19 (1969)
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Volume 18 (1968)
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Volume 17 (1967)
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Volume 16 (1966)
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Volume 15 (1965)
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Volume 14 (1964)
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Volume 13 (1963)
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Volume 12 (1962)
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Volume 11 (1961)
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Volume 10 (1960)
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Volume 9 (1959)
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Volume 8 (1958)
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Volume 7 (1957)
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Volume 6 (1956)
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Volume 5 (1955)
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Volume 4 (1954)
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Volume 3 (1953)
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Volume 2 (1952)
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Volume 1 (1951)