scholarly journals Thiopseudomonas denitrificans gen. nov., sp. nov., isolated from anaerobic activated sludge

2015 ◽  
Vol 65 (Pt_1) ◽  
pp. 225-229 ◽  
Author(s):  
Wen-Bo Tan ◽  
Zhao Jiang ◽  
Chuan Chen ◽  
Ye Yuan ◽  
Ling-Fang Gao ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
The Family ◽  
Optimum Ph ◽  
Novel Genus And Species

A Gram-staining-negative, rod-shaped, motile and facultatively anaerobic bacterial strain, designated X2T, was isolated from the sludge of an anaerobic, denitrifying, sulfide-removal bioreactor, and found to oxidize sulfide anaerobically with nitrate as electron acceptor. The strain grew at salinities of 0–3 % (w/v) NaCl (optimum, 0–1 %). Growth occurred at pH 6.0–10.0 (optimum, pH 8.0) and 10–37 °C (optimum, 30 °C). The genomic DNA G+C content was 59 mol%. Q-8 and Q-9 were detected as the respiratory quinones. The major fatty acids (>10 %) were C16 : 1ω7c and/or C16 : 1ω6c, C18 : 1ω7c and C16 : 0. The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and one unidentified phospholipid. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain X2T formed a novel clade within the family Pseudomonadaceae , with the highest sequence similarity to Pseudomonas caeni KCTC 22292T (93.5 %). On the basis of phenotypic, chemotaxonomic and phylogenetic characteristics, it is proposed that this strain represents novel genus and species within the family Pseudomonadaceae , for which the name Thiopseudomonas denitrificans gen. nov., sp. nov. is proposed. The type strain is X2T ( = CCTCC M 2013362T = DSM 28679T = KCTC 42076T).

scholarly journals Amylibacter marinus gen. nov., sp. nov., isolated from surface seawater

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 4016-4020 ◽  
Author(s):  
Maki Teramoto ◽  
Miyuki Nishijima
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Surface Seawater ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Novel Genus And Species

A Gram-stain-negative, non-motile, mesophilic, aerobic, rod-shaped bacterium, designated strain 2-3T, was isolated from surface seawater at Muroto city, Kochi prefecture, Japan. This strain grew well with starch. Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain fell within the family Rhodobacteraceae and that the strain was related most closely to the genus Pacificibacter (94.0 % sequence similarity to the type strain). The DNA G+C content was 52.4 mol%. The major fatty acids were C18 : 1ω7c, C14 : 0 and C16 : 0. The major polar lipids were phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, one unidentified lipid, one unidentified aminolipid and one unidentified phospholipid. The major isoprenoid quinone was Q-10. Strain 2-3T did not grow at 4 or 35 °C, while the type strain of the type species of the genus Pacificibacter grows at both temperatures. From the taxonomic data obtained in this study, it is proposed that strain 2-3T be placed into a novel genus and species named Amylibacter marinus gen. nov., sp. nov. in the family Rhodobacteraceae . The type strain of Amylibacter marinus is 2-3T ( = NBRC 110140T = LMG 28364T).

Terriglobus tenax sp. nov., an exopolysaccharide-producing acidobacterium isolated from rhizosphere soil of a medicinal plant

2014 ◽  
Vol 64 (Pt_2) ◽  
pp. 431-437 ◽  
Author(s):  
Kyung-Sook Whang ◽  
Jae-Chan Lee ◽  
Hae-Ran Lee ◽  
Song-Ih Han ◽  
Sang-Ho Chung
Keyword(s):  
Type Species ◽  
Rhizosphere Soil ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Optimum Ph ◽  
Type Strains

An exopolysaccharide-producing bacterium, designated strain DRP 35T, was isolated from the rhizosphere soil of a medicinal herb, Angelica sinensis, at Geumsan in Korea. Cells were Gram-staining-negative, non-motile, catalase-positive and oxidase-negative short rods. The isolate grew aerobically from 15 to 45 °C (optimum 30 °C), pH 3.5–7.0 (optimum pH 5.0) and in the presence of 0–1.0 % (w/v) NaCl. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain DRP 35T belongs to the genus Terriglobus in the phylum Acidobacteria with a sequence similarity of 97.2 % and 97.0 % to Terriglobus saanensis SP1PR4T and Terriglobus roseus KBS63T, respectively. The genomic DNA G+C content was 62.1 mol%. DNA–DNA relatedness between strain DRP 35T and the type strains of the other species of the genus Terriglobus , T. saanensis SP1PR4T and T. roseus KBS63T, were 24.6 and 17.2 %, respectively. The predominant menaquinone was MK-8. Major fatty acids were iso-C15 : 0, C16 : 1ω7c and C16 : 0. The polar lipids were phosphatidylethanolamine, unidentified aminophospholipid and unknown phospholipids. On the basis of polyphasic analysis from this study, strain DRP 35T represents a novel species of the genus Terriglobus for which the name Terriglobus tenax sp. nov. is proposed. The type strain is DRP 35T ( = KACC 16474T = NBRC 109677T).

scholarly journals Chitinophaga ginsengihumi sp. nov., isolated from soil of ginseng rhizosphere

2014 ◽  
Vol 64 (Pt_8) ◽  
pp. 2599-2604 ◽  
Author(s):  
Jae-Chan Lee ◽  
Kyung-Sook Whang
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Polyphasic Analysis ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Optimum Ph

A novel strain designated SR18T was isolated from the rhizosphere soil of a ginseng in Korea. Cells were Gram-staining-negative, motile by gliding, catalase-positive and oxidase-negative, non-spore-forming rods. The isolate grew aerobically at 15–45 °C (optimum 28 °C), pH 5.5–7.5 (optimum pH 7.0) and with 0–3.0 % (w/v) NaCl (optimum 1.5 % NaCl). Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain SR18T belongs to the genus Chitinophaga with sequence similarity of 97.2 % and 97.0 % to Chitinophaga japonensis 758T and Chitinophaga rupis CS5-B1T, respectively. Similarity to other species of the genus Chitinophaga was 92.8–95.5 %. The predominant menaquinone was MK-7. Major fatty acids were iso-C15 : 0 and C16 : 1ω5c. The polar lipids included phosphatidylethanolamine, unidentified phospholipids, unknown aminolipids and unknown lipids. The genomic DNA G+C content was 45.3 mol%. DNA–DNA relatedness between strain SR18T and C. japonensis NBRC 16041T was 29–32 %. On the basis of polyphasic analysis from this study, strain SR18T represents a novel species of the genus Chitinophaga , for which the name Chitinophaga ginsengihumi sp. nov. is proposed. The type strain is SR18T ( = KACC 17604T = NBRC 109832T).

scholarly journals Catenisphaera adipataccumulans gen. nov., sp. nov., a member of the family Erysipelotrichaceae isolated from an anaerobic digester

2015 ◽  
Vol 65 (Pt_3) ◽  
pp. 805-810 ◽  
Author(s):  
Manabu Kanno ◽  
Taiki Katayama ◽  
Naoki Morita ◽  
Hideyuki Tamaki ◽  
Satoshi Hanada ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Anaerobic Digester ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Unidentified Phospholipid ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Novel Genus And Species

An obligately anaerobic bacterium, designated strain GK12T, was isolated from an anaerobic digester in Fukagawa, Hokkaido Prefecture, Japan. The cells of strain GK12T were non-motile, non-spore-forming cocci that commonly occurred in chains. 16S rRNA gene sequence analysis revealed that strain GK12T was affiliated with the family Erysipelotrichaceae in the phylum Firmicutes and showed 91.8 % sequence similarity to the most closely related species, Faecalicoccus acidiformans . The strain grew at 30–50 °C (optimally at 40 °C) and at pH 5.5–8.5 (optimally at pH 7.5). The main end product of glucose fermentation was lactate. Yeast extract was required for growth. The strain contained C14 : 0, C14 : 0 1,1-dimethoxyalkane (DMA), C16 : 0 DMA and C18 : 0 DMA as the major cellular fatty acids (>10 % of the total). The polar lipid profile was composed of phosphatidylglycerol, phosphatidylinositol and an unidentified phospholipid. The whole-cell sugars were galactose, rhamnose and ribose. The cell-wall murein contained alanine, glutamic acid, lysine, serine and threonine, but not diaminopimelic acid. The G+C content of the genomic DNA was 47.7 mol%. Based on phenotypic, phylogenetic and chemotaxonomic properties, a novel genus and species, Catenisphaera adipataccumulans gen. nov., sp. nov., is proposed to accommodate strain GK12T ( = NBRC 108915T = DSM 25799T).

scholarly journals Lacihabitans soyangensis gen. nov., sp. nov., a new member of the family Cytophagaceae, isolated from a freshwater reservoir

2014 ◽  
Vol 64 (Pt_9) ◽  
pp. 3188-3194 ◽  
Author(s):  
Yochan Joung ◽  
Haneul Kim ◽  
Heeyoung Kang ◽  
Beom-Il Lee ◽  
Tae-Seok Ahn ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
The Family ◽  
Novel Genus And Species

A Gram-staining-negative, non-motile and orange-pigmented bacterium, designated strain HME6675T, was isolated from freshwater of a reservoir in Korea. The major fatty acids of strain HME6675T were iso-C15 : 0 (33.4 %) and summed feature 3 (comprising C16 : 1ω6c and/or C16 : 1ω7c; 31.3 %). The major respiratory quinone was MK-7. The polar lipids were phosphatidylethanolamine, one unidentified aminolipid, one unidentified aminophospholipid and three unidentified polar lipids. The DNA G+C content of strain HME6675T was 37.7 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain HME6675T formed a lineage within the family Cytophagaceae and was related to Leadbetterella byssophila 4M15T (93.0 % sequence similarity), Fluviimonas pallidilutea TQQ6T (90.6 %) and Emticicia oligotrophica GPTSA100-15T (89.1 %). On the basis of the evidence presented in this study, strain HME6675T represents a novel genus and species of the family Cytophagaceae , for which the name Lacihabitans soyangensis gen. nov., sp. nov. is proposed. The type strain of Lacihabitans soyangensis is HME6675T ( = KCTC 23259T = CECT 7826T).

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

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

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

Muriicola soli sp. nov., isolated from soil

2021 ◽  
Vol 71 (7) ◽  
Author(s):  
Hye Jeong Kang ◽  
Min-Kyeong Kim ◽  
Su Gwon Roh ◽  
Seung Bum Kim
Keyword(s):  
Related Species ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Optimum Ph ◽  
Genomic Characterization

A Gram-stain-negative, oxidase-positive, catalase-positive, aerobic, orange-pigmented, rod-shaped and non-motile bacterium designated strain MMS17-SY002T was isolated from island soil. The isolate grew at 20–37 °C (optimum, 30 °C), at pH 6.0–9.5 (optimum, pH 7) and in the presence of 0.5–4.0 % (w/v) NaCl (optimum, 2.0 %). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain MMS17-SY002T was mostly related to the genus Muriicola of the family Flavobacteriaceae and had highest sequence similarity of 96.82 % to Muriicola marianensis A6B8T and Muriicola jejuensis EM44T, but formed a distinct phylogenetic line within the genus. Chemotaxonomic analyses showed that menaquinone 6 was the predominant isoprenoid quinone, the major fatty acids were iso-C15 : 1 G and iso-C15 : 0, and the diagnostic polar lipid was phosphatidylethanolamine. The genomic DNA G+C content was 42.4 mol%. Strain MMS17-SY002T could be distinguished from related species by the combination of trypsin, α-chymotrypsin, acid phosphatase, naphthol-AS-BI-phosphohydrolase, α-galactosidase, β-galactosidase and β-glucosidase activities. The orthologous average nucleotide identity between the genomes of strain MMS17-SY002T and M. jejuensis and that between the strain and M. marianensis A6B8T were 73.26 and 73.33%, respectively, thus confirming the separation of the strain from related species at species level. Based on the phenotypic, phylogenetic, chemotaxonomic and genomic characterization, MMS17-SY002T should be recognized as a novel species of the genus Muriicola , for which the name Muriicola soli sp. nov. is proposed. The type strain is MMS17-SY002T (=KCTC 62790T=JCM 32370T).

Namhaeicola litoreus gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from seawater

2012 ◽  
Vol 62 (Pt_9) ◽  
pp. 2163-2168 ◽  
Author(s):  
Yong-Taek Jung ◽  
Ji-Hoon Kim ◽  
So-Jung Kang ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Type Strains

A Gram-staining-negative, non-flagellated, non-gliding and pleomorphic bacterial strain, designated DPG-25T, was isolated from seawater in a seaweed farm in the South Sea in Korea and its taxonomic position was investigated by using a polyphasic approach. Strain DPG-25T grew optimally at 25 °C, at pH 7.0–7.5 and in the presence of 2 % (w/v) NaCl. Flexirubin-type pigments were not produced. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain DPG-25T formed a cluster with the type strains of Actibacter sediminis , Aestuariicola saemankumensis and Lutimonas vermicola . Strain DPG-25T exhibited 16S rRNA gene sequence similarity values of 95.3, 93.1 and 93.6 % to the type strains of Actibacter sediminis , Aestuariicola saemankumensis and L. vermicola , respectively. Strain DPG-25T contained MK-6 as the predominant menaquinone and iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The major polar lipids detected in strain DPG-25T were phosphatidylethanolamine and one unidentified lipid. The DNA G+C content was 39.9 mol%. Differential phenotypic properties and the phylogenetic distinctiveness of strain DPG-25T demonstrated that this strain is distinguishable from Actibacter sediminis , Aestuariicola saemankumensis and L. vermicola . On the basis of the data presented here, strain DPG-25T represents a novel species in a novel genus of the family Flavobacteriaceae , for which the name Namhaeicola litoreus gen. nov., sp. nov. is proposed. The type strain of Namhaeicola litoreus is DPG-25T ( = KCTC 23702T  = CCUG 61485T).

Methanobacterium lacus sp. nov., isolated from the profundal sediment of a freshwater meromictic lake

2012 ◽  
Vol 62 (Pt_7) ◽  
pp. 1625-1629 ◽  
Author(s):  
Guillaume Borrel ◽  
Keith Joblin ◽  
Annie Guedon ◽  
Jonathan Colombet ◽  
Vincent Tardy ◽  
...  
Keyword(s):  
Rumen Fluid ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Meromictic Lake ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Lake Pavin

An autotrophic, hydrogenotrophic methanogen, designated strain 17A1T, was isolated from the profundal sediment of the meromictic Lake Pavin, France. The cells of the novel strain, which were non-motile, Gram-staining-negative rods that measured 2–15 µm in length and 0.2–0.4 µm in width, grew as filaments. Strain 17A1T grew in a mineral medium and its growth was stimulated by the addition of yeast extract, vitamins, acetate or rumen fluid. Penicillin, vancomycin and kanamycin reduced growth but did not completely inhibit it. Growth occurred at 14–41 °C (optimum 30 °C), at pH 5.0–8.5 (optimum pH 6.5) and with 0–0.4 M NaCl (optimum 0.1 M). The novel strain utilized H2/CO2 and methanol/H2 as substrates but not formate, acetate, methylamine/H2, isobutanol or 2-propanol. Its genomic DNA G+C content was 37.0 mol%. In phylogenetic analyses based on 16S rRNA gene sequences, strain 17A1T appeared to be a member of the genus Methanobacterium , with Methanobacterium beijingense 8-2T (96.3 % sequence similarity) identified as the most closely related established species. Based on phenotypic and phylogenetic data, strain 17A1T represents a novel species of methanogen within the genus Methanobacterium , for which the name Methanobacterium lacus sp. nov. is proposed. The type strain is 17A1T ( = DSM 24406T = JCM 17760T).

Croceimicrobium hydrocarbonivorans gen. nov., sp. nov., a novel marine bacterium isolated from a bacterial consortium that degrades polyethylene terephthalate

2021 ◽  
Vol 71 (4) ◽  
Author(s):  
Renju Liu ◽  
Qiliang Lai ◽  
Li Gu ◽  
Peisheng Yan ◽  
Zongze Shao
Keyword(s):  
Polyethylene Terephthalate ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
The Family

A novel Gram-stain-negative, aerobic, gliding, rod-shaped and carotenoid-pigmented bacterium, designated A20-9T, was isolated from a microbial consortium of polyethylene terephthalate enriched from a deep-sea sediment sample from the Western Pacific. Growth was observed at salinities of 1–8 %, at pH 6.5–8 and at temperatures of 10–40 °C. The results of phylogenetic analyses based on the genome indicated that A20-9T formed a monophyletic branch affiliated to the family Schleiferiaceae , and the 16S rRNA gene sequences exhibited the maximum sequence similarity of 93.8 % with Owenweeksia hongkongensis DSM 17368T, followed by similarities of 90.4, 90.1 and 88.8 % with Phaeocystidibacter luteus MCCC 1F01079T, Vicingus serpentipes DSM 103558T and Salibacter halophilus MCCC 1K02288T, respectively. Its complete genome size was 4 035 598 bp, the genomic DNA G+C content was 43.2 mol%. Whole genome comparisons indicated that A20-9T and O. hongkongensis DSM 17368T shared 67.8 % average nucleotide identity, 62.7 % average amino acid identity value, 46.6% of conserved proteins and 17.8 % digital DNA–DNA hybridization identity. A20-9T contained MK-7 as the major respiratory quinone. Its major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and phospatidylcholine; and the major fatty acids were iso-C15 : 0 (37.5 %), iso-C16 : 0 3-OH (12.4 %), and summed feature 3 (C16 : 1ω7c /C16 : 1ω6c, 11.6 %). Combining the genotypic and phenotypic data, A20-9T could be distinguished from the members of other genera within the family Schleiferiaceae and represents a novel genus, for which the name Croceimicrobium hydrocarbonivorans gen. nov., sp. nov. is proposed. The type strain is A20-9T (=MCCC 1A17358T =KCTC 72878T).

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