scholarly journals Thermosporothrix hazakensis gen. nov., sp. nov., isolated from compost, description of Thermosporotrichaceae fam. nov. within the class Ktedonobacteria Cavaletti et al. 2007 and emended description of the class Ktedonobacteria

2010 ◽  
Vol 60 (8) ◽  
pp. 1794-1801 ◽  
Author(s):  
Shuhei Yabe ◽  
Yoshifumi Aiba ◽  
Yasuteru Sakai ◽  
Masaru Hazaka ◽  
Akira Yokota

We isolated from compost an aerobic, thermophilic, Gram-stain-positive, spore-forming bacterium that formed branched vegetative and aerial mycelia. This strain, designated SK20-1T, grew at 31–58 °C, with optimum growth at 50 °C, while no growth was observed below 28 or above 60 °C. The pH range for growth was 5.4–8.7, with optimum growth at pH 7.0, while no growth was observed below pH 5.0 or above pH 9.1. Strain SK20-1T was able to hydrolyse polysaccharides such as cellulose, xylan and chitin. The DNA G+C content was 54.0 mol%. The major fatty acid was iso-C17 : 0 and the major menaquinone was MK-9(H2). The cell wall contained glutamic acid, serine, alanine and ornithine in a molar ratio of 1.00 : 1.07 : 2.64 : 0.83. The polar lipids consisted of phosphatidylinositol, phosphatidylinositol mannosides, phosphatidylglycerol, diphosphatidylglycerol and an unknown glycolipid. Cell-wall sugars were rhamnose and mannose. Detailed phylogenetic analysis based on 16S rRNA gene sequences indicated that strain SK20-1T belongs to the class Ktedonobacteria, and that the strain is most closely related to Ktedonobacter racemifer SOSP1-21T (88.5 %). On the basis of its phenotypic features and phylogenetic position, we propose that SK20-1T represents a novel genus and species, Thermosporothrix hazakensis gen. nov., sp. nov., within the new family Thermosporotrichaceae fam. nov. The type strain of Thermosporothrix hazakensis is strain SK20-1T (=JCM 16142T =ATCC BAA-1881T). In addition, we propose an emended description of the class Ktedonobacteria to classify the class in the phylum Chloroflexi.

2011 ◽  
Vol 61 (12) ◽  
pp. 2996-3002 ◽  
Author(s):  
Morio Ishikawa ◽  
Kazuyuki Nakajima ◽  
Shihomi Ishizaki ◽  
Kayo Kodama ◽  
Akiko Okamoto-Kainuma ◽  
...  

Two novel strains of marine lactic acid bacteria, isolated from decaying marine algae collected from a subtropical area of Japan, are described. The isolates, designated O24-2T and O25-2, were Gram-positive, non-sporulating and non-motile. They lacked catalase and quinones. Under anaerobic cultivation conditions, lactate was produced from glucose with the production of formate, acetate and ethanol in a molar ratio of approximately 2 : 1 : 1. Under aerobic cultivation conditions, acetate and lactate were produced from carbohydrates and related compounds. The isolates were slightly halophilic, highly halotolerant and alkaliphilic. They were able to grow in 0–17.0 % (w/v) NaCl, with optimum growth of strains O24-2T and O25-2 at 1.0–3.0 and 1.0–2.0 % (w/v) NaCl, respectively. Growth of strain O24-2T was observed at pH 7.5–9.5, with optimum growth at pH 8.0–8.5. Comparative 16S rRNA gene sequence analysis revealed that the isolates occupied a phylogenetic position within the genus Alkalibacterium, showing highest similarity (99.6 %) to Alkalibacterium putridalgicola T129-2-1T. Although sequence similarity was high, the DNA–DNA relatedness value between strain O24-2T and A. putridalgicola T129-2-1T was 27 %, indicating that they are members of distinct species. The DNA G+C contents of O24-2T and O25-2 were 43.7 and 44.4 mol%, respectively, and DNA–DNA relatedness between the isolates was 89 %. The cell-wall peptidoglycan was type A4β, Orn-d-Asp. The major cellular fatty acid components were C14 : 0, C16 : 0 and C16 : 1ω9c. Based on phenotypic characteristics and genetic distinctiveness, the isolates were classified as representatives of a novel species within the genus Alkalibacterium, for which the name Alkalibacterium subtropicum sp. nov. is proposed; the type strain is O24-2T ( = DSM 23664T = NBRC 107172T).


2010 ◽  
Vol 60 (11) ◽  
pp. 2535-2539 ◽  
Author(s):  
Hui-Rong Li ◽  
Yong Yu ◽  
Wei Luo ◽  
Yin-Xin Zeng

Strain ZS314T was isolated from a sandy intertidal sediment sample collected from the coastal area off the Chinese Antarctic Zhongshan Station, east Antarctica (6 ° 22′ 13″ S 7 ° 21′ 41″ E). The cells were Gram-positive, motile, short rods. The temperature range for growth was 0–26 °C and the pH for growth ranged from 5 to 10, with optimum growth occurring within the temperature range 18–23 °C and pH range 6.0–8.0. Growth occurred in the presence of 0–6 % (w/v) NaCl, with optimum growth occurring in the presence of 2–4 % (w/v) NaCl. Strain ZS314T had MK-10 as the major menaquinone and anteiso-C15 : 0, iso-C16 : 0 and anteiso-C17 : 0 as major fatty acids. The cell-wall peptidoglycan type was B2β with ornithine as the diagnostic diamino acid. The major polar lipids were diphosphatidylglycerol and phosphatidylglycerol. The genomic DNA G+C content was approximately 67 mol%. Phylogenetic analysis based on 16S rRNA gene sequence similarity showed that strain ZS314T represents a new lineage in the family Microbacteriaceae. On the basis of the phylogenetic analyses and phenotypic characteristics, a new genus, namely Marisediminicola gen. nov., is proposed, harbouring the novel species Marisediminicola antarctica sp. nov. with the type strain ZS314T (=DSM 22350T =CCTCC AB 209077T).


2015 ◽  
Vol 65 (Pt_10) ◽  
pp. 3271-3275 ◽  
Author(s):  
Feng-Qing Wang ◽  
Yan-Xia Zhou ◽  
Xue-Zheng Lin ◽  
Guan-Jun Chen ◽  
Zong-Jun Du

A yellow-pigmented, Gram-stain-negative and facultatively anaerobic bacterium, designated FB218T, was isolated from a sediment sample collected from a sea cucumber culture pond in Rongcheng, China (36° 54′ 36″ N 122° 14′ 34″ E). Cells of strain FB218T were slender, gliding, catalase-positive and oxidase-negative. Optimal growth occurred at 30 °C, pH 6.5–7.0 and in medium containing 2–3 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain FB218T belonged to the genus Carboxylicivirga, family Marinilabiliaceae. The predominant fatty acids were iso-C15 : 0 and anteiso-C15 : 0. MK-7 was the main respiratory quinone. The major polar lipids of strain FB218T were two unidentified lipids and a phospholipid. The genomic DNA G+C content was 40.0 mol%. Based on the distinct phylogenetic position and the combination of physiological and phenotypic characteristics, strain FB218T represents a novel species of the genus Carboxylicivirga, for which the name Carboxylicivirga linearis sp. nov. is proposed. The type strain is FB218T ( = KCTC 42254T = MCCC 1H00106T). An emended description of the genus Carboxylicivirga is also provided.


2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4456-4461 ◽  
Author(s):  
Daria G. Zavarzina ◽  
Tatyana N. Zhilina ◽  
Boris B. Kuznetsov ◽  
Tatyana V. Kolganova ◽  
Georgy A. Osipov ◽  
...  

An obligately alkaliphilic, anaerobic, thermo- and halotolerant, spore-forming bacterium was isolated from sediments of soda lake Magadi (Kenya) and designated strain Z-1001T. Cells of strain Z-1001T were straight, Gram-positive rods, slowly motile. Strain Z-1001T was found to be an obligate anaerobe. It grew within a pH range from 7.5 to 10.7 with an optimum at 9.25–9.5 (at 40 °C), a temperature range from 20 to 57 °C with an optimum at 45–50 °C, and a NaCl concentration range from 0 to 1.55 M with an optimum at 1.2–1.4 M. Peptides, such as meat and yeast extracts, peptone and tryptone, were fermented by Z-1001T. Carbohydrates did not support growth. With yeast extract as an electron donor, strain Z-1001T reduced S 2 O 3 2 − , NO 3 − , AsO 4 3 − , Fe(III) citrate and anthraquinone-2,6-disulfonate (AQDS) as electron acceptors. The isolate was able to grow oligotrophically with a very small amount of yeast extract: 0.03 g l−1. The main fatty acids were C16 : 0, C16 : 1ω7c , C18 : 0 and C18 : 1ω9. The DNA G+C content of the isolate was 35.6 mol%. 16S rRNA gene sequence analysis showed that strain Z-1001T is a member of family Natranaerobiaceae , clustering with the type strain of Natranaerobius thermophilus (95.8–96.0 % sequence similarity). On the basis of physiological and phylogenetic data it is proposed that strain Z-1001T ( = DSM 24923T = VKM B-2666T) represents a novel genus and species, Natranaerobaculum magadiense gen. nov., sp. nov.


2007 ◽  
Vol 57 (8) ◽  
pp. 1788-1792 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Mi-Hwa Lee ◽  
Tae-Kwang Oh

A Gram-negative, non-motile and rod-, oval- or coccoid-shaped bacterial strain, DSW-25T, which is phylogenetically closely related to the genera Staleya and Sulfitobacter, was isolated from seawater of the East Sea, Korea, and subjected to a polyphasic taxonomic study. Strain DSW-25T grew optimally at pH 7.0–8.0 and at 25 °C. It contained Q-10 as the predominant ubiquinone and C18 : 1 ω7c as the major fatty acid. Major polar lipids were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine and an unidentified phospholipid. The DNA G+C content was 56.9 mol%. Strain DSW-25T exhibited 16S rRNA gene sequence similarity values of 98.4 % to the type strain of Staleya guttiformis and of 96.6–97.6 % to Sulfitobacter species. There were no distinct phenotypic, particularly chemotaxonomic, properties to differentiate Staleya guttiformis and strain DSW-25T from the genus Sulfitobacter. DNA–DNA relatedness data and differential phenotypic properties, together with the phylogenetic distinctiveness, demonstrated that strain DSW-25T differs from recognized Sulfitobacter species and Staleya guttiformis. On the basis of phenotypic, chemotaxonomic, phylogenetic and genetic data, strain DSW-25T was classified in the genus Sulfitobacter as a member of a novel species, for which the name Sulfitobacter donghicola sp. nov. is proposed. The type strain is strain DSW-25T (=KCTC 12864T =JCM 14565T). It is also proposed that Staleya guttiformis be transferred to the genus Sulfitobacter as Sulfitobacter guttiformis comb. nov.


Author(s):  
Shuhei Yabe ◽  
Yoshifumi Aiba ◽  
Yasuteru Sakai ◽  
Masaru Hazaka ◽  
Akira Yokota

A thermophilic, Gram-positive bacterium that formed a branched vegetative mycelium was isolated from compost. The strain, designated I3T, grew at temperatures between 35 and 62 °C, with optimum growth at 50–55 °C. No growth was observed below 29 °C or above 65 °C. The pH range for growth was 5.7–10.0, the pH for optimum growth was 7.0 and no growth was observed below pH 5.6 or above pH 10.8. The DNA G+C content of strain I3T was 69.2 mol%. The major fatty acids found were C15 : 0 iso (14.2 %), C15 : 0 anteiso (12.1 %), C17 : 0 iso (16.3 %) and C17 : 0 anteiso (21.7 %). The major menaquinones were MK-9(H4), MK-10(H4) and MK-11(H4). The cell wall contained glutamic acid, glycine, alanine and ll-diaminopimelic acid in a molar ratio of 1.0 : 3.9 : 0.6 : 0.5. The polar lipids consisted of ninhydrin-positive phosphoglycolipids, phosphatidylglycerol, diphosphatidylglycerol and an unknown glycolipid. The cell-wall sugars were rhamnose and arabinose. 16S rRNA gene sequence analysis assigned this actinomycete to the family Nocardioidaceae, but its 16S rRNA gene sequence shared no more than 95.5 % similarity with those of other members of the family. The chemotaxonomic and phenotypic characteristics of strain I3T differed in some respects from those of members of the genus Actinopolymorpha, the most closely related genus. Therefore, strain I3T represents a novel species in a new genus of the family Nocardioidaceae, for which the name Thermasporomyces composti gen. nov., sp. nov. is proposed. The type strain of the type species is I3T (=JCM 16421T=DSM 22891T).


2015 ◽  
Vol 65 (Pt_12) ◽  
pp. 4394-4402 ◽  
Author(s):  
Moriyuki Hamada ◽  
Chiyo Shibata ◽  
Satomi Saitou ◽  
Tomohiko Tamura ◽  
Hisayuki Komaki ◽  
...  

Thirteen novel Gram-stain-positive bacteria were isolated from various samples collected from mangrove forests in Japan, and their taxonomic positions were investigated by a polyphasic approach. Phylogenetic analyses based on 16S rRNA gene sequence comparisons showed that the 13 isolates formed a single clade with Lysinimicrobium mangrovi HI08-69T, with a similarity range of 97.6–99.5 %. The peptidoglycan of the isolates was of the A4α type with an interpeptide bridge comprising Ser–Glu and an l-Ser residue at position 1 of the peptide subunit. The predominant menaquinone was demethylmenaquinone DMK-9(H4) and the major fatty acid was anteiso-C15 : 0. These chemotaxonomic characteristics corresponded to those of the genus Lysinimicrobium. On the basis of the phenotypic and phylogenetic data, along with average nucleotide identity values among the isolates, we concluded that the 13 isolates should be assigned to the following nine novel species of the genus Lysinimicrobium: Lysinimicrobium aestuarii sp. nov. (type strain HI12-104T = NBRC 109392T = DSM 28144T), Lysinimicrobium flavum sp. nov. (type strain HI12-45T = NBRC 109391T = DSM 28150T), Lysinimicrobium gelatinilyticum sp. nov. (type strain HI12-44T = NBRC 109390T = DSM 28149T), Lysinimicrobium iriomotense sp. nov. (type strain HI12-143T = NBRC 109399T = DSM 28146T), Lysinimicrobium luteum sp. nov. (type strain HI12-123T = NBRC 109395T = DSM 28147T), Lysinimicrobium pelophilum sp. nov. (type strain HI12-111T = NBRC 109393T = DSM 28148T), Lysinimicrobium rhizosphaerae sp. nov. (type strain HI12-135T = NBRC 109397T = DSM 28152T), Lysinimicrobium soli sp. nov. (type strain HI12-122T = NBRC 109394T = DSM 28151T) and Lysinimicrobium subtropicum sp. nov. (type strain HI12-128T = NBRC 109396T = DSM 28145T). In addition, an emended description of the genus Lysinimicrobium is proposed.


2021 ◽  
Author(s):  
Lyudmila A. Romanenko ◽  
Valeriya V. Kurilenko ◽  
Nadezhda Yu. Chernysheva ◽  
Liudmila A. Tekutyeva ◽  
Peter V. Velansky ◽  
...  

Abstract A Gram-negative, non-motile bacterium КММ 3653T was isolated from a sediment sample from the Sea of Japan seashore, Russia. On the basis of the 16S rRNA gene sequence analysis the strain КММ 3653T was positioned within the family Rhodobacteraceae (class Alphaproteobacteria) forming a distinct lineage with the highest gene sequence similarities to the members of the genera Pacificibacter (95.2-94.7%) and Nioella (95.1-94.5%), respectively. According to the phylogenomic tree based on 400 conserved protein sequences, strain КММ 3653T was placed in the cluster comprising Vannielia litorea, Nioella nitratireducens, Litoreibacter albidus and Pseudoruegeria aquimaris as a separate lineage adjacent to Vannielia litorea KCTC 32083T. The average nucleotide identity values between strain КММ 3653T and Vannielia litorea KCTC 32083T, Nioella nitratireducens KCTC 32417T, Litoreibacter albidus KMM 3851T, and Pseudoruegeria aquimaris CECT 7680T were 71.1, 70.3, 69.6, and 71.0%, respectively. Strain КММ 3653T contained Q-10 as the predominant ubiquinone and C18:1ω7c as the major fatty acid followed by C16:0. The polar lipids were phosphatidylcholine, phosphatidylglycerol, diphosphatidylglycerol, an unidentified phospholipid, two unidentified aminolipids, and five unidentified lipids. The DNA G+C content of 61.8 % was calculated from the genome sequence. Based on the phylogenetic evidence and distinctive phenotypic characteristics, strain КММ 3653T is proposed to be classified as a novel genus and species Laetantesicola maris gen. nov., sp. nov. The type strain of Laetantesicola maris gen. nov., sp. nov. is КММ 3653T (=KCTC 82575T).


2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 2075-2081 ◽  
Author(s):  
Murat Kacagan ◽  
Kadriye Inan ◽  
Ali Osman Belduz ◽  
Sabriye Canakci

A Gram-staining-negative, catalase- and oxidase-positive, strictly aerobic, rod-shaped bacterial strain isolated from fresh water in Trabzon, Turkey and designated MK3T was characterized by phenotypic and molecular methods in order to determine its phylogenetic position. On the basis of 16S rRNA gene sequence similarity, strain MK3T was shown to belong to the genus Flavobacterium , being most closely related to Flavobacterium ceti CECT 7184T (93.6 %). Sequence similarity with other species of the genus Flavobacterium with validly published names was less than 91.6 %. Phenotypic and chemotaxonomic data supported the affiliation of strain MK3T to the genus Flavobacterium . The only menaquinone was MK-6; the major fatty acids were iso-C15 : 0 (45.2 %), summed feature 9 (C16 : 0 10-methyl and/or iso-C17 : 1ω9c; 20.4 %) and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c; 13.3 %) and the major polar lipids were phosphatidylethanolamine, one unidentified aminophospholipid and two unidentified phospholipids. The G+C content of the genomic DNA was 38.6 mol%. The results of physiological and biochemical tests allowed strain MK3T to be distinguished phenotypically from Flavobacterium ceti CECT 7184T. Strain MK3T, therefore, represents a novel species of the genus Flavobacterium , for which the name Flavobacterium anatoliense sp. nov. is proposed. The type strain is MK3T ( = LMG 26441T = NCCB 100384T). An emended description of Flavobacterium ceti is also proposed.


2011 ◽  
Vol 61 (1) ◽  
pp. 194-200 ◽  
Author(s):  
Shu-Kun Tang ◽  
Xiao-Yang Zhi ◽  
Yun Wang ◽  
Rong Shi ◽  
Kai Lou ◽  
...  

A halophilic, filamentous actinomycete strain, designated YIM 93246T, was isolated from a salt lake in Xinjiang province, north-west China, and subjected to polyphasic taxonomic characterization. The isolate grew in the presence of 7–23 % (w/v) NaCl, but not in the absence of NaCl. Strain YIM 93246T had particular morphological properties, forming aerial mycelium that had long spore chains and pseudosporangium-like, rhiziform spore aggregates at maturity. ll-DAP was the cell-wall diamino acid and glucosamine, mannose, glucose, arabinose and galactose were the cell-wall sugars. The major fatty acids were iso-C16 : 0, anteiso-C15 : 0 and anteiso-C17 : 0. MK-9 (H4) was the predominant menaquinone and the genomic DNA G+C content was 70.5 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM 93246T clustered with the genus Jiangella. The sequence similarities between strain YIM 93246T and Jiangella alba, Jiangella gansuensis and Jiangella alkaliphila were 96.9, 96.9 and 96.6 %, respectively. Based on morphological, physiological and chemotaxonomic differences, and phylogenetic analysis, a novel genus and species, Haloactinopolyspora alba gen. nov., sp. nov., is proposed. The type strain of the species is YIM 93246T (=DSM 45211T=KCTC 19409T). Additionally, phylogenetic analysis placed the genus Jiangella together with strain YIM 93246T within the order Actinomycetales as an independent lineage, clearly distinguished from other described suborders of the class Actinobacteria. Hence, based on phylogenetic characteristics, the genus Jiangella together with the newly proposed genus Haloactinopolyspora are proposed to be classified as Jiangellaceae fam. nov. and Jiangellineae subord. nov.


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