scholarly journals Moorella humiferrea sp. nov., a thermophilic, anaerobic bacterium capable of growth via electron shuttling between humic acid and Fe(III)

2012 ◽  
Vol 62 (Pt_3) ◽  
pp. 613-617 ◽  
Author(s):  
Y. N. Nepomnyashchaya ◽  
G. B. Slobodkina ◽  
R. V. Baslerov ◽  
N. A. Chernyh ◽  
E. A. Bonch-Osmolovskaya ◽  
...  
Keyword(s):  
Humic Acid ◽  
Electron Acceptor ◽  
Type Strain ◽  
Kamchatka Peninsula ◽  
Alginate Beads ◽  
Rrna Gene ◽  
Electron Shuttling ◽  
Bacterium Strain ◽  
Hydrothermal Spring ◽  
Ph Range

An anaerobic, thermophilic, spore-forming bacterium (strain 64-FGQT) was isolated from a terrestrial hydrothermal spring from the Kamchatka peninsula, Russia. This strain utilized lactate as an electron donor, insoluble poorly crystalline Fe(III) oxide incorporated into alginate beads as a potential electron acceptor and 9,10-anthraquinone-2,6-disulfonate (AQDS) as an electron-shuttling compound. Vegetative cells of strain 64-FGQT were Gram-stain-positive, peritrichously flagellated, motile, straight rods, 0.3–0.5 µm in diameter and 2.0–5.0 µm long, growing singly or forming short chains. Cells formed round refractive endospores in terminal swollen sporangia. The temperature range for growth was 46–70 °C, with an optimum at 65 °C. The pH range for growth was 5.5–8.5, with an optimum at pH 7.0. The substrates utilized by strain 64-FGQT in the presence of AQDS as an electron acceptor included lactate, malate, succinate, glycerol and yeast extract. The strain fermented galactose, fructose, maltose, sucrose, pyruvate and peptone. Strain 64-FGQT used AQDS, humic acid, thiosulfate, nitrate and perchlorate as electron acceptors for growth. Fe(III) was not directly reduced, but strain 64-FGQT was able to grow and reduce Fe(III) oxide in the presence of small amounts of AQDS or humic acid as electron-shuttling compounds. The G+C content of the DNA of strain 64-FGQT was 51 mol%. 16S rRNA gene sequence analysis placed the isolate in the genus Moorella, with the type strain of Moorella glycerini as its closest relative (97.2 % similarity). Based on phylogenetic analysis and physiological characteristics, strain 64-FGQT is considered to represent a novel species of the genus Moorella, for which the name Moorella humiferrea sp. nov. is proposed; the type strain is 64-FGQT ( = DSM 23265T = VKM B-2603T).

scholarly journals Sulfuriferula multivorans gen. nov., sp. nov., isolated from a freshwater lake, reclassification of ‘Thiobacillus plumbophilus’ as Sulfuriferula plumbophilus sp. nov., and description of Sulfuricellaceae fam. nov. and Sulfuricellales ord. nov.

2015 ◽  
Vol 65 (Pt_5) ◽  
pp. 1504-1508 ◽  
Author(s):  
Tomohiro Watanabe ◽  
Hisaya Kojima ◽  
Manabu Fukui
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Freshwater Lake ◽  
Rrna Gene ◽  
Organic Substrates ◽  
Phenotypic Properties ◽  
Content Type ◽  
Nacl Concentration ◽  
Bacterium Strain ◽  
Ph Range

A sulfur-oxidizing bacterium, strain TTNT, was isolated from a Thioploca sample obtained from a freshwater lake in Japan. The isolate shared 97.1 % 16S rRNA gene sequence similarity with an obligately aerobic chemolithoautotroph, ‘Thiobacillus plumbophilus’ Gro7T. Cells were rods, motile, and Gram-stain-negative. The G+C content of the genomic DNA was approximately 66 mol%. Strain TTNT grew over a temperature range of 8–32 °C (optimum 22–25 °C), an NaCl concentration range of 0–133.3 mM (optimum 0–3.3 mM) and a pH range of 5.3–8.6 (optimum pH 6.4–7.0). Strain TTNT was facultatively anaerobic and could utilize nitrate as an electron acceptor. The isolate oxidized tetrathionate, thiosulfate and elemental sulfur as the sole energy sources for autotrophic growth, and could also grow heterotrophically on a number of organic substrates. Based on its phylogenetic and phenotypic properties, strain TTNT represents a novel species of a novel genus, for which the name Sulfuriferula multivorans gen. nov., sp. nov. is proposed. The type strain is TTNT ( = NBRC 110683T = DSM 29343T). Along with this, the reclassification of ‘Thiobacillus plumbophilus’ as Sulfuriferula plumbophilus sp. nov. (type strain Gro7T = NBRC 107929T = DSM 6690T) is proposed. Based on the data obtained in this study, we describe the designations Sulfuricellaceae fam. nov. and Sulfuricellales ord. nov.

scholarly journals Carboxydocella sporoproducens sp. nov., a novel anaerobic CO-utilizing/H2-producing thermophilic bacterium from a Kamchatka hot spring

2006 ◽  
Vol 56 (4) ◽  
pp. 797-800 ◽  
Author(s):  
Tatiana V. Slepova ◽  
Tatyana G. Sokolova ◽  
Anatoly M. Lysenko ◽  
Tatyana P. Tourova ◽  
Tatyana V. Kolganova ◽  
...  
Keyword(s):  
Hot Spring ◽  
Kamchatka Peninsula ◽  
Thermophilic Bacterium ◽  
Rrna Gene ◽  
The Novel ◽  
Solid Media ◽  
Bacterium Strain ◽  
Semi Solid ◽  
Ph Range ◽  
Yeast Extract Sucrose

A novel anaerobic, thermophilic, CO-utilizing bacterium, strain KarT, was isolated from a hot spring of Karymskoe Lake, Kamchatka Peninsula. The cells of the novel isolate were Gram-positive, spore-forming, short rods. The bacterium grew chemolithoautotrophically on CO, producing equimolar quantities of H2 and CO2 (according to the equation CO + H2O → CO2 + H2), and in the absence of CO, under N2 in the gas phase, chemoorganoheterotrophically with yeast extract, sucrose or pyruvate. Growth was observed in the temperature range 50–70 °C, with an optimum at 60 °C, and in the pH range 6·2–8·0, with an optimum at pH 6·8. The micro-organism did not grow on solid media; it was able to grow only in semi-solid medium containing 0·5 % agar. The generation time under optimal conditions for chemolithoautotrophic growth was 1 h. The G+C content of the DNA was 46·5±1 mol%. Growth was completely inhibited by penicillin, novobiocin, streptomycin, kanamycin and neomycin. Analysis of the 16S rRNA gene sequence showed that the isolate should be assigned to the genus Carboxydocella. On the basis of the results of DNA–DNA hybridization and morphological and physiological analyses, strain KarT represents a novel species of the genus Carboxydocella, for which the name Carboxydocella sporoproducens sp. nov. is proposed. The type strain is KarT (=DSM 16521T=VKM B-2358T).

Leucobacter soli sp. nov., from soil amended with humic acid

2021 ◽  
Vol 71 (12) ◽  
Author(s):  
Peter Kämpfer ◽  
John A. McInroy ◽  
Dominique Clermont ◽  
Meina Neumann-Schaal ◽  
Alexis Criscuolo ◽  
...  
Keyword(s):  
Humic Acid ◽  
Type Strain ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Polar Lipid Profile ◽  
Phenotypic Differentiation ◽  
Content Type ◽  
Link Type ◽  
Diamino Acid

A Gram-positive, non-spore-forming actinobacterium (IMT-300T) was isolated from soil amended with humic acid in Malvern, AL, USA. This soil has been used for 50+years for the cultivation of earthworms for use as fish bait. Based on 16S rRNA gene sequence similarity studies, strain IMT-300T was shown to belong to the genus Leucobacter and was closely related to the type strain of ‘Leucobacter margaritiformis’ L1T (97.8%). Similarity to all other type strains of Leucobacter species was lower than 97.2 %. The average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) values between the IMT-300T genome assembly and those of the closest relative Leucobacter type strain were 81.4 and 23.3 % ( Leucobacter chironomi ), respectively. The peptidoglycan of strain IMT-300T contained l-2,4-diaminobutyric acid as the diagnostic diamino acid. In addition, glycine, d- and l-alanine and d-glutamic acid were found. The peptidoglycan type represents a variant of B2δ (B11). The major quinones were menaquinones MK-10 and MK-11. The polar lipid profile consisted of the major lipids diphosphatidylglycerol, phosphatidylglycerol and moderate to minor amounts of two unidentified phospholipids, two unidentified glycolipids and an unidentified aminophospholipid. The polyamine pattern contained major amounts of spermidine and spermine. Strain IMT-300T contained the major fatty acids C15 : 0 anteiso, C16 : 0 iso and C17 : 0 anteiso, like other members of the genus Leucobacter . The results of ANI and dDDH analyses and physiological and biochemical tests allowed a genotypic and phenotypic differentiation of strain IMT-300T from the most closely related Leucobacter species. Strain IMT-300T represents a novel Leucobacter species, for which we propose the name Leucobacter soli sp. nov., with the type strain IMT-300T (CIP 111803T=DSM 110505T=CCM 9020T=LMG 31600T).

scholarly journals Armatimonas rosea gen. nov., sp. nov., of a novel bacterial phylum, Armatimonadetes phyl. nov., formally called the candidate phylum OP10

2011 ◽  
Vol 61 (6) ◽  
pp. 1442-1447 ◽  
Author(s):  
Hideyuki Tamaki ◽  
Yasuhiro Tanaka ◽  
Hiroaki Matsuzawa ◽  
Mizuho Muramatsu ◽  
Xian-Ying Meng ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Aquatic Plant ◽  
Sequence Similarity ◽  
Limited Range ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Bacterium Strain ◽  
Ph Range

A novel aerobic, chemoheterotrophic bacterium, strain YO-36T, isolated from the rhizoplane of an aquatic plant (a reed, Phragmites australis) inhabiting a freshwater lake in Japan, was morphologically, physiologically and phylogenetically characterized. Strain YO-36T was Gram-negative and ovoid to rod-shaped, and formed pinkish hard colonies on agar plates. Strain YO-36T grew at 20–40 °C with optimum growth at 30–35 °C, whilst no growth was observed at 15 °C or 45 °C. The pH range for growth was 5.5–8.5 with an optimum at pH 6.5. Strain YO-36T utilized a limited range of substrates, such as sucrose, gentiobiose, pectin, gellan gum and xanthan gum. The strain contained C16 : 0, C16 : 1, C14 : 0 and C15 : 0 as the major cellular fatty acids and menaquinone-12 as the respiratory quinone. The G+C content of the genomic DNA was 62.4 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain YO-36T belonged to the candidate phylum OP10 comprised solely of environmental 16S rRNA gene clone sequences except for two strains, P488 and T49 isolated from geothermal soil in New Zealand; strain YO-36T showed less than 80 % sequence similarity to strains P488 and T47. Based on the phylogetic and phenotypic findings, a new genus and species, Armatimonas rosea gen. nov., sp. nov., is proposed for the isolate (type strain YO-36T  = NBRC 105658T  = DSM 23562T). In addition, a new bacterial phylum named Armatimonadetes phyl. nov. is proposed for the candidate phylum OP10 represented by A. rosea gen. nov., sp. nov. and Armatimonadaceae fam. nov., Armatimonadales ord. nov., and Armatimonadia classis nov.

scholarly journals Draft Genome Sequence of the Thermophilic Acetogen Moorella humiferrea DSM 23265

2018 ◽  
Vol 6 (17) ◽  
Author(s):  
Anja Poehlein ◽  
Alisa Keyl ◽  
Jan C. Milsch ◽  
Rolf Daniel
Keyword(s):  
Humic Acid ◽  
Genome Sequence ◽  
Draft Genome ◽  
Thermophilic Bacterium ◽  
Draft Genome Sequence ◽  
Protein Coding ◽  
Content Type ◽  
Electron Shuttling ◽  
Protein Coding Genes ◽  
Hydrothermal Spring

ABSTRACT Moorella humiferrea is an endospore-forming, anaerobic, and thermophilic bacterium which was isolated from a terrestrial hydrothermal spring. M. humiferrea is able to use humic acid or 10-anthraquinone-2,6-disulfonate as an electron-shuttling compound for growth and Fe(III) reduction. The genome has a size of 2.629 Mb and contains 2,668 predicted protein-coding genes.

scholarly journals Slackia equolifaciens sp. nov., a human intestinal bacterium capable of producing equol

2010 ◽  
Vol 60 (8) ◽  
pp. 1721-1724 ◽  
Author(s):  
Jong-Sik Jin ◽  
Maki Kitahara ◽  
Mitsuo Sakamoto ◽  
Masao Hattori ◽  
Yoshimi Benno
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Dimethyl Acetal ◽  
Rrna Gene ◽  
Intestinal Bacterium ◽  
Rrna Gene Sequence ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis ◽  
Bacterium Strain

An equol-producing bacterium, strain DZET, which was isolated from human faeces, was characterized by morphological, biochemical and molecular methods. The isolate was Gram-positive, obligately anaerobic, non-spore-forming, asaccharolytic and rod-shaped. 16S rRNA gene sequence analysis showed 92.8, 91.0, 91.1 and 90.6 % similarities with Slackia faecicanis, Slackia exigua, Slackia heliotrinireducens and Slackia isoflavoniconvertens, respectively. Based on these data, we propose a novel species of the genus Slackia, Slackia equolifaciens sp. nov. The major cellular fatty acids are C14 : 0, C18 : 1 ω9c and C18 : 1 ω9c DMA (dimethyl acetal). The DNA G+C content of the strain is 60.8 mol%. The type strain of S. equolifaciens sp. nov. is DZET (=JCM 16059T =CCUG 58231T).

scholarly journals Acidianus sulfidivorans sp. nov., an extremely acidophilic, thermophilic archaeon isolated from a solfatara on Lihir Island, Papua New Guinea, and emendation of the genus description

2007 ◽  
Vol 57 (7) ◽  
pp. 1418-1423 ◽  
Author(s):  
Jason J. Plumb ◽  
Christina M. Haddad ◽  
John A. E. Gibson ◽  
Peter D. Franzmann
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Papua New Guinea ◽  
Electron Acceptor ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Ph Range

A novel, extremely thermoacidophilic, obligately chemolithotrophic archaeon (strain JP7T) was isolated from a solfatara on Lihir Island, Papua New Guinea. Cells of this organism were non-motile, Gram-negative staining, irregular-shaped cocci, 0.5–1.5 μm in size, that grew aerobically by oxidation of sulfur, Fe2+ or mineral sulfides. Cells grew anaerobically using Fe3+ as a terminal electron acceptor and H2S as an electron donor but did not oxidize hydrogen with elemental sulfur as electron acceptor. Strain JP7T grew optimally at 74 °C (temperature range 45–83 °C) and pH 0.8–1.4 (pH range 0.35–3.0). On the basis of 16S rRNA gene sequence similarity, strain JP7T was shown to belong to the Sulfolobaceae, being most closely related to the type strains of Acidianus ambivalens (93.7 %) and Acidianus infernus (93.6 %). Cell-membrane lipid structure, DNA base composition and 16S rRNA gene sequence similarity data support the placement of this strain in the genus Acidianus. Differences in aerobic and anaerobic metabolism, temperature and pH range for growth, and 16S rRNA gene sequence differentiate strain JP7T from recognized species of the genus Acidianus, and an emendation of the description of the genus is proposed. Strain JP7T is considered to represent a novel species of the genus Acidianus, for which the name Acidianus sulfidivorans sp. nov. is proposed. The type strain is JP7T (=DSM 18786T=JCM 13667T).

scholarly journals Sulfuricurvum kujiense gen. nov., sp. nov., a facultatively anaerobic, chemolithoautotrophic, sulfur-oxidizing bacterium isolated from an underground crude-oil storage cavity

2004 ◽  
Vol 54 (6) ◽  
pp. 2297-2300 ◽  
Author(s):  
Yumiko Kodama ◽  
Kazuya Watanabe
Keyword(s):  
Crude Oil ◽  
Electron Acceptor ◽  
Rrna Gene ◽  
Microaerobic Condition ◽  
Facultatively Anaerobic ◽  
Oil Storage ◽  
Novel Genus And Species ◽  
Thiomicrospira Denitrificans ◽  
Sulfur Oxidizing ◽  
Bacterium Strain

A facultatively anaerobic, chemolithoautotrophic, sulfur-oxidizing bacterium, strain YK-1T, was isolated from an underground crude-oil storage cavity at Kuji in Iwate, Japan. The cells were motile, curved rods and had a single polar flagellum. Optimum growth occurred in a low-strength salt medium at pH 7·0 and 25 °C. It utilized sulfide, elemental sulfur, thiosulfate and hydrogen as the electron donors and nitrate as the electron acceptor under anaerobic conditions, but it did not use nitrite. Oxygen also served as the electron acceptor under the microaerobic condition (O2 in the head space 1 %). It did not grow on sugars, organic acids or hydrocarbons as carbon and energy sources. The DNA G+C content of strain YK-1T was 45 mol%. Phylogenetic analysis, based on the 16S rRNA gene sequence, showed that its closest relative was Thiomicrospira denitrificans in the ‘Epsilonproteobacteria’, albeit with low homology (90 %). On the basis of physiological and phylogenetic data, strain YK-1T should be classified into a novel genus and species, for which the name Sulfuricurvum kujiense gen. nov., sp. nov. is proposed. The type strain is YK-1T (=JCM 11577T=MBIC 06352T=ATCC BAA-921T).

scholarly journals Haloargentinum marplatensis gen. nov., sp. nov., a novel extremely halophilic bacterium isolated from salted-ripened anchovy (Engraulis anchoita)

2020 ◽  
Author(s):  
Silvina Perez ◽  
Margarita Gomila ◽  
Silvia Elena Murialdo ◽  
Irene Mabel Ameztoy ◽  
Narjol Gonzalez-Escalona ◽  
...  
Keyword(s):  
Fatty Acids ◽  
16S Rrna ◽  
Type Strain ◽  
Close Relationships ◽  
Halophilic Bacterium ◽  
Rrna Gene ◽  
Gram Negative ◽  
Novel Genus And Species ◽  
Bacterium Strain ◽  
The 16S Rrna Gene

ABSTRACTA facultative aerobic, Gram-negative, motile, non-endospore forming and extremely halophilic bacterium, strain 11aii⊺, isolated from salted-ripened anchovy, was examined using a polyphasic approach to characterize and clarify its phylogenetic and taxonomic position. Sequences of the 16S rRNA gene revealed close relationships to species of the genera Lentibacillus and Virgibacillus (94.2% similarity). The organism grew optimally in the presence of 20-35 % NaCl. The major fatty acids of strain 11aii⊺ were C16:0 (42.1%) and anteiso-C15:0 (31.2%) and also presented iso-C16:0 (11.0%), anteiso-C17:0 (10.4%) and C18:0 (5.2%). Based on data presented here, strain 11aii⊺ is considered to represent a novel genus and species, for which the name Haloargentinum marplatensis gen. nov. sp. nov. is proposed with the strain 11aii⊺ as type strain.

Nocardioides ungokensis sp. nov., isolated from lake sediment

2015 ◽  
Vol 65 (Pt_12) ◽  
pp. 4857-4862 ◽  
Author(s):  
Yan Zhao ◽  
Qingmei Liu ◽  
Myung-Suk Kang ◽  
Fengxie Jin ◽  
Hongshan Yu ◽  
...  
Keyword(s):  
Genomic Dna ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Bacterium Strain

A Gram-reaction-positive, aerobic, coccus- to rod-shaped, non-motile, non-spore-forming bacterium (strain UKS-03T) was isolated from a sediment sample of Ungok Lake in Gochang, Republic of Korea. The taxonomic position of this bacterium was determined in an investigation based on a polyphasic approach. On the basis of 16S rRNA gene sequence analysis, strain UKS-03T was shown to belong to the family Nocardioidaceae and to be related most closely to Nocardioides ginsengisegetis Gsoil 485T (98.5 % similarity), Nocardioides koreensis MSL-09T (98.4 %) and ‘Nocardioides panaciterrulae’ Gsoil 958 (97.3 %). Strain UKS-03T was characterized chemotaxonomically as having ll-2,6-diaminopimelic acid in its cell-wall peptidoglycan, MK-8(H4) as the predominant menaquinone, diphosphatidylglycerol and phosphatidylglycerol as the main polar lipids, and iso-C16 : 0, C17 : 1ω8c and C17 : 0 10-methyl as its major fatty acids. The G+C content of the genomic DNA was 71.9 mol%. Mean DNA–DNA relatedness values between strain UKS-03T and N. ginsengisegetis Gsoil 485T, N. koreensis KCTC 19272T and ‘N. panaciterrulae’ Gsoil 958 were 37.5 ± 7.2, 6.8 ± 0.9 and 3.1 ± 0.7 %, respectively. On the basis of the data from this polyphasic taxonomic study, strain UKS-03T represents a novel species of the genus Nocardioides, for which the name Nocardioides ungokensis sp. nov. is proposed. The type strain is UKS-03T ( = KACC 18304T = LMG 28591T).

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