Kallotenue papyrolyticum gen. nov., sp. nov., a cellulolytic and filamentous thermophile that represents a novel lineage (Kallotenuales ord. nov., Kallotenuaceae fam. nov.) within the class Chloroflexia

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4675-4682 ◽  
Author(s):  
Jessica K. Cole ◽  
Brandon A. Gieler ◽  
Devon L. Heisler ◽  
Maryknoll M. Palisoc ◽  
Amanda J. Williams ◽  
...  
Keyword(s):  
Carbon Sources ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Casamino Acids ◽  
Ph Range ◽  
Dense Liquid ◽  
Cellulose Filter

Several closely related, thermophilic and cellulolytic bacterial strains, designated JKG1T, JKG2, JKG3, JKG4 and JKG5, were isolated from a cellulolytic enrichment (corn stover) incubated in the water column of Great Boiling Spring, NV. Strain JKG1T had cells of diameter 0.7–0.9 µm and length ~2.0 µm that formed non-branched, multicellular filaments reaching >300 µm. Spores were not formed and dense liquid cultures were red. The temperature range for growth was 45–65 °C, with an optimum of 55 °C. The pH range for growth was pH 5.6–9.0, with an optimum of pH 7.5. JKG1T grew as an aerobic heterotroph, utilizing glucose, sucrose, xylose, arabinose, cellobiose, CM-cellulose, filter paper, microcrystalline cellulose, xylan, starch, Casamino acids, tryptone, peptone, yeast extract, acetate, citrate, lactate, pyruvate and glycerol as sole carbon sources, and was not observed to photosynthesize. The cells stained Gram-negative. Phylogenetic analysis using 16S rRNA gene sequences placed the new isolates in the class Chloroflexia , but distant from other cultivated members, with the highest sequence identity of 82.5 % to Roseiflexus castenholzii . The major quinone was menaquinone-9; no ubiquinones were detected. The major cellular fatty acids (>5 %) were C18 : 0, anteiso-C17 : 0, iso-C18 : 0, iso-C17 : 0, C16 : 0, iso-C16 : 0 and C17 : 0. The peptidoglycan amino acids were alanine, ornithine, glutamic acid, serine and asparagine. Whole-cell sugars included mannose, rhamnose, glucose, galactose, ribose, arabinose and xylose. Morphological, phylogenetic and chemotaxonomic results suggest that JKG1T is representative of a new lineage within the class Chloroflexia , which we propose to designate Kallotenue papyrolyticum gen. nov., sp. nov., Kallotenuaceae fam. nov., Kallotenuales ord. nov. The type strain of Kallotenue papyrolyticum gen. nov., sp. nov. is JKG1T ( = DSM 26889T = JCM 19132T).

Celerinatantimonas yamalensis sp. nov., a cold-adapted diazotrophic bacterium from a cold permafrost brine

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4421-4427 ◽  
Author(s):  
Viktoria Shcherbakova ◽  
Nataliya Chuvilskaya ◽  
Elizaveta Rivkina ◽  
Nikita Demidov ◽  
Victoria Uchaeva ◽  
...  
Keyword(s):  
Fatty Acid ◽  
Novel Species ◽  
Carbon Sources ◽  
Yamal Peninsula ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Bacterium Strain ◽  
The Yamal Peninsula

A facultatively anaerobic nitrogen-fixing bacterium, strain C7T, was isolated from a permafrost cryopeg on the Yamal Peninsula, Russia. Comparative analysis of 16S rRNA gene sequences revealed that this bacterium was closely related to Celerinatantimonas diazotrophica S-G2-2T with a similarity of 95.5 %. Strain C7T differed from Celerinatantimonas diazotrophica in its ability to hydrolyse gelatin and inability to use d-mannose, melibiose, l-rhamnose, myo-inositol, lactose, lactulose, d-mannitol, trehalose, dl-lactate, glycogen or l-proline as sole carbon sources. In addition, strain C7T grew over a temperature range of 0–34 °C with optimum growth at 18–22 °C. The whole-cell fatty acid profile included C16 : 0, C16 : 1ω7, C18 : 1ω7, C17 cyclo and summed feature 2 [comprising C12 : 0 aldehyde and/or unknown fatty acid 10.913 (MIDI designation) and/or iso-C16 : 1/C14 : 0 3-OH]. The DNA G+C content was 44.7 mol%. Strain C7T is thus considered to represent a novel species, for which the name Celerinatantimonas yamalensis sp. nov. is proposed. The type strain is C7T ( = VKM B-2511T = DSM 21888T).

scholarly journals Salinibacterium hongtaonis sp. nov., isolated from faeces of Tibetan antelope (Pantholops hodgsonii) on the Qinghai–Tibet Plateau

2019 ◽  
Vol 69 (4) ◽  
pp. 1093-1098 ◽  
Author(s):  
Junqin Li ◽  
Shan Lu ◽  
Dong Jin ◽  
Jing Yang ◽  
Xin-He Lai ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tibet Plateau ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Qinghai Tibet Plateau

Two novel aerobic, Gram-staining-positive and non-spore-forming bacterial strains, 194T and S1194, were isolated from faeces of Tibetan antelopes sampled at the Qinghai–Tibet Plateau of China. The strains were able to grow in medium up to 10 % NaCl, similar to the NaCl-resistant property of the genus Salinibacterium members. The 16S rRNA gene sequences of the strains showed the highest similarity to Salinibacterium xinjiangense(98.1–98.2 %), and phylogenetic analysis based on 16S rRNA gene sequences indicated that strains 194T and S1194 represent a new lineage. The DNA G+C contents of strain 194T and S1194 are 64.1 and 64.2 mol%. Their genomes exhibit less than 96 % average nucleotide identity and 70 % DNA–DNA relatedness to known species of Salinibacterium . Strains 194T and S1194 are unable to utilize d-mannose or produce naphthol-AS-BI-phosphohydrolase. The two strains had anteiso-C15 : 0 and anteiso-C17 : 0 as major fatty acids, and their cell walls contained lysine, alanine, glycine and glutamic acid. The predominant menaquinones identified were MK-11 and MK-10, with diphosphatidylglycerol and phosphatidylglycerol as major polar lipids. Overall, the major cellular content profiles of 194T agreed with those of Salinibacterium xinjiangense and Salinibacterium amurskyense, though the proportions were distinct. Based on genotypic, phenotypic and biochemical analyses, the novel species Salinibacterium hongtaonis sp. nov. is proposed. The type strain is 194T (=CGMCC 1.16371T=DSM 106171T).

Flavobacterium yonginense sp. nov. and Flavobacterium myungsuense sp. nov., isolated from a mesotrophic artificial lake

2012 ◽  
Vol 62 (Pt_4) ◽  
pp. 806-810 ◽  
Author(s):  
Yochan Joung ◽  
Haneul Kim ◽  
Tae-Seok Ahn ◽  
Kiseong Joh
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
16S Rrna Gene Sequences ◽  
Artificial Lake ◽  
Content Type ◽  
Link Type ◽  
Gram Staining

Two non-motile, Gram-staining-negative, yellow-pigmented bacterial strains designated HMD1001T and HMD1033T were isolated from the water of a mesotrophic artificial lake in Korea. A phylogenetic tree based on 16S rRNA gene sequences indicated that both strains could be assigned to the genus Flavobacterium ; strain HMD1001T appeared most closely related to Flavobacterium fluvii H7T (96.8 % sequence similarity), F. succinicans DSM 4002T (96.6 %) and F. hydatis DSM 2063T (96.6 %) whereas strain HMD1033T appeared most closely related to Flavobacterium psychrolimnae LMG 2201T (96.2 %), F. segetis AT1048T (96.2 %) and F. weaverense AT1042T (96.2 %). The major fatty acids of strain HMD1001T were iso-C15 : 0 (21.5 %), summed feature 3 (comprising C16 : 1ω6c and/or C16 : 1ω7c; 18.0 %) and iso-C15 : 1 G (7.6 %), whereas those of HMD1033T were summed feature 3 (23.8 %), iso-C15 : 0 3-OH (16.9 %), iso-C15 : 0 (15.3 %) and anteiso-C15 : 0 (12.1 %). The genomic DNA G+C contents of strains HMD1001T and HMD1033T were 35.9 and 32.2 mol%, respectively. Phylogenetic and phenotypic evidence indicates that strains HMD1001T and HMD1033T represent two novel species of the genus Flavobacterium , for which the names Flavobacterium yonginense sp. nov. (type strain HMD1001T  = KCTC 22796T  = CECT 7594T) and Flavobacterium myungsuense sp. nov. (type strain HMD1033T  = KCTC 22825T  = CECT 7649T) are proposed.

scholarly journals Rhizobium straminoryzae sp. nov., isolated from the surface of rice straw

2014 ◽  
Vol 64 (Pt_9) ◽  
pp. 2962-2968 ◽  
Author(s):  
Shih-Yao Lin ◽  
Yi-Han Hsu ◽  
You-Cheng Liu ◽  
Mei-Hua Hung ◽  
Asif Hameed ◽  
...  
Keyword(s):  
Rice Straw ◽  
Type Species ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Ph Range ◽  
Reciprocal Value ◽  
Ubiquinone 10

An aerobic, Gram-stain-negative, rod-shaped bacterium, designated strain CC-LY845T, was isolated from the surface of rice straw in Taiwan. Cells were non-motile, and no flagellum was detected. Comparison of 16S rRNA gene sequences indicated that the strain was phylogenetically related to species of the genus Rhizobium , with closest similarity to Rhizobium pseudoryzae KCTC 23294T (97.6 %), R. rhizoryzae KCTC 23652T (97.0 %) and R. oryzae LMG 24253T (96.7 %); other species showed lower levels of similarity (<96.6 %). The DNA–DNA relatedness of strain CC-LY845T and R. pseudoryzae KCTC 23294T was 34.8±3.1 % (reciprocal value 39.2±2.2 %). Phylogenetic analysis based on the housekeeping atpD and recA genes showed that the novel strain could be distinguished from R. pseudoryzae KCTC 23294T (92.7 and 91.5 %, respectively) and other species of the genus Rhizobium . The temperature range for growth was 25–42 °C, the pH range was 5.0–9.0 and NaCl concentrations up to 4.0 % (w/v) were tolerated. Strain CC-LY845T did not form nodules on four different legumes, and the nodD and nifH genes were not detected by PCR. The major fatty acids were C16 : 0 and summed feature 8 (C18 : 1ω7c/C18 : 1ω6c). The polyamine pattern of strain CC-LY845T showed spermidine and putrescine as major polyamines. The predominant quinone system was ubiquinone 10 (Q-10). The DNA G+C content was 68.3±2.4 mol%. Base on its phylogenetic, phenotypic and chemotaxonomic features, strain CC-LY845T is proposed to represent a novel species within the genus Rhizobium , for which the name Rhizobium straminoryzae sp. nov. is proposed. The type strain is strain CC-LY845T ( = BCRC 80698T = JCM 19536T).

Rhodoligotrophos appendicifer gen. nov., sp. nov., an appendaged bacterium isolated from a freshwater Antarctic lake

2012 ◽  
Vol 62 (Pt_8) ◽  
pp. 1945-1950 ◽  
Author(s):  
Wakao Fukuda ◽  
Kozo Yamada ◽  
Yuki Miyoshi ◽  
Hirokazu Okuno ◽  
Haruyuki Atomi ◽  
...  
Keyword(s):  
New Genus ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Antarctic Lake ◽  
Content Type ◽  
Link Type ◽  
Novel Bacterium ◽  
Nacl Concentration ◽  
Bacterium Strain ◽  
Ph Range

A Gram-stain-negative, non-spore-forming, non-motile, irregularly circular, aerobic/microaerobic appendaged bacterium (strain 120-1T) was isolated from Naga-ike, one of the freshwater lakes in the Skarvsnes ice-free area of Antarctica. Strain 120-1T grew between 5 and 35 °C, with optimum growth at 30 °C. The pH range for growth was between 6.0 and 9.0 (optimum of approximately pH 7.0). The range of NaCl concentration allowing growth of strain 120-1T was between 0 and 5.0 %, with an optimum of 0.5–1.0 %. Strain 120-1T was able to utilize organic compounds such as glucose, arabinose, gluconate, adipate and malate. Red colonies were formed on plate medium and the carotenoids were present in the cells. Ubiquinones Q-9 and Q-10 were the major respiratory quinones. The major cellular fatty acids were C16 : 0, C18 : 1ω9c and C18 : 1ω7c. The G+C content of the genomic DNA was 61.1 mol%. Comparative analyses of 16S rRNA gene sequences and physiological characteristics of strain 120-1T indicate that strain 120-1T is a phylogenetically novel bacterium, and that it represents a novel species in a new genus, Rhodoligotrophos gen. nov., in the order Rhizobiales , family Rhodobiaceae . The name Rhodoligotrophos appendicifer gen. nov. sp. nov. is proposed as the type species of this new genus, with 120-1T ( = JCM 16873T = ATCC BAA-2115T) as the type strain.

Conexibacter arvalis sp. nov., isolated from a cultivated field soil sample

2012 ◽  
Vol 62 (Pt_10) ◽  
pp. 2400-2404 ◽  
Author(s):  
Tamae Seki ◽  
Atsuko Matsumoto ◽  
Risa Shimada ◽  
Yuki Inahashi ◽  
Satoshi Ōmura ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Novel Species ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Content Type ◽  
Link Type ◽  
Gram Staining

Two bacterial strains, designated KV-962T and KV-963, were isolated from soil collected from a field in Japan. Cells of both strains were Gram-staining-positive, non-spore-forming, short rod-shaped and motile. Phylogenetic analysis based on 16S rRNA gene sequences indicated that these strains were related to Conexibacter woesei DSM 14684T, with a similarity value of 98.6 %. These strains possessed MK-7 (H4) as the sole menaquinone and contained C18 : 1ω9c, C17 : 1ω6c and iso-C16 : 0 as the major fatty acids. On the basis of genotypic and phenotypic characteristics, strain KV-962T and KV-963 were indicated as a novel species of the genus Conexibacter , for which the name Conexibacter arvalis sp. nov. is proposed. The type strain is KV-962T ( = DSM 23288T  = NBRC 106558T)

Methylophaga nitratireducenticrescens sp. nov. and Methylophaga frappieri sp. nov., isolated from the biofilm of the methanol-fed denitrification system treating the seawater at the Montreal Biodome

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 2216-2222 ◽  
Author(s):  
Céline Villeneuve ◽  
Christine Martineau ◽  
Florian Mauffrey ◽  
Richard Villemur
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Vitamin B ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Ribulose Monophosphate Pathway ◽  
The 16S Rrna Gene

Two bacterial strains, designated JAM1T and JAM7T, were isolated from a methanol-fed denitrification system treating seawater at the Montreal Biodome, Canada. They were affiliated within the genus Methylophaga of the Gammaproteobacteria by analysis of the 16S rRNA gene sequences. Strain JAM1T had the capacity to grow under denitrifying conditions by reducing nitrate into nitrite which is unique among the species of the genus Methylophaga . Major fatty acids were C16 : 1ω7c or ω6c, C16 : 0 and C18 : 1ω7c or ω6c. The major ubiquinone was Q8. Both strains required vitamin B12 and Na+ ions for growth. The genomes of strains JAM1T and JAM7T have been completely sequenced and showed a DNA G+C content of 44.7 mol% and 47.8 mol%, respectively. Growth occurred at pH 6–11 and at 0.5–8 % NaCl. Both genomes contained predicted ORFs encoding the key enzymes of the ribulose monophosphate pathway. Also, operons encoding two nitrate reductases (Nar), two nitric oxide reductases (Nor), one nitrous oxide reductase (Nos) and one truncated nitrite reductase (NirK) were clustered in a 67 kb chromosomal region in strain JAM1T. No such operons were found in strain JAM7T. These results supported the affiliation of the two strains as novel species within the genus Methylophaga . The names Methylophaga nitratireducenticrescens sp. nov. for type strain JAM1T ( = DSM 25689T = ATCC BAA-2433T) and Methylophaga frappieri sp. nov. for type strain JAM7T ( = DSM 25690T = ATCC BAA-2434T) are proposed.

scholarly journals Pedobacter pituitosus sp. nov., isolated from a waterfall

2014 ◽  
Vol 64 (Pt_11) ◽  
pp. 3838-3843 ◽  
Author(s):  
Jeesun Chun ◽  
Ji Young Kang ◽  
Kwang Yeop Jahng
Keyword(s):  
Novel Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Unknown Lipid ◽  
Ph Range ◽  
The 16S Rrna Gene

A taxonomic study was carried out on a novel bacterial strain, designated MIC2002T, which was isolated from Wibong falls in Korea. Cells were Gram-stain-negative, aerobic, non-motile and rods, 0.3–0.5 µm wide and 4.0–5.0 µm long. The optimum temperature and pH range for growth were 25 °C and pH 6.5–7.0, respectively. Catalase and oxidase activities were positive. Flexirubin pigments were not produced. Comparison of the 16S rRNA gene sequences indicated that the isolate belonged to the genus Pedobacter , with Pedobacter daechungensis as its closest relative, with a similarity of 94.4 %. It contained iso-C15 : 0, anteiso-C15 : 0, C16 : 0, summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c) and iso-C17 : 0 3-OH as the major fatty acids and menaquinone MK-7 as isoprenoid quinone. The polar lipid profile of strain MIC2002T revealed the presence of phosphatidylethanolamine and an unknown lipid. The DNA G+C content of the strain was 34.7 mol%. On the basis of the evidences presented, it was concluded that strain MIC2002T represents a novel species of the genus Pedobacter within the family Sphingobacteriaceae , for which the name Pedobacter pituitosus sp. nov. is proposed. The type strain is MIC2002T ( = KACC 17064T = JCM 18729T).

scholarly journals Brenneria populi sp. nov., isolated from symptomatic bark of Populus×euramericana canker

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 432-437 ◽  
Author(s):  
Yong Li ◽  
Wei Fang ◽  
Han Xue ◽  
Wen-xing Liang ◽  
Lai-fa Wang ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Populus Euramericana ◽  
Link Type ◽  
Bark Tissue ◽  
Single Cluster

Five Gran-stain-negative, facultatively anaerobic, motile, bacterial strains were isolated from symptomatic bark tissue of Populus×euramericana canker. Strains grew at 4–41 °C, pH 4–10 and 0–6 % (w/v) salinity. They were positive with respect to catalase activity and negative for oxidase activity, nitrate reduction and the Voges–Proskauer reaction. Analysis of 16S rRNA gene sequences indicated that these five poplar isolates belong to the genus Brenneria , having highest sequence similarity of 95.98 % with Brenneria goodwinii LMG 26270T. These five isolates formed a single cluster based on multilocus sequence analysis, indicating that they all belong to a single taxon within the genus Brenneria , which was confirmed by DNA–DNA hybridization. The DNA G+C content was 54.9–55.7 mol%, and the main fatty acids were C16 : 0, C18 : 1ω7c, C17 : 0 cyclo and C16 : 1ω7c/iso-C15 : 0 2-OH. Based on these results, we describe a novel species of the genus Brenneria with the proposed name Brenneria populi sp. nov. The type strain is D9-5T ( = CFCC 11963T = KCTC 42088T).

scholarly journals Clostridium algifaecis sp. nov., an anaerobic bacterial species from decomposing algal scum

2014 ◽  
Vol 64 (Pt_11) ◽  
pp. 3844-3848 ◽  
Author(s):  
Yu-Fan Wu ◽  
Hui Zheng ◽  
Qing-long Wu ◽  
Hong Yang ◽  
Shuang-Jiang Liu
Keyword(s):  
Novel Species ◽  
Bacterial Species ◽  
Rrna Gene ◽  
Clostridium Tyrobutyricum ◽  
Gram Stain ◽  
Bacterial Strains ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Cellular Fatty Acids ◽  
Link Type

Two anaerobic bacterial strains, MB9-7T and MB9-9, were isolated from decomposing algal scum and were characterized using a polyphasic approach. Phylogenetic analysis of 16S rRNA gene sequences showed that strains MB9-7T and MB9-9 are closely related to each other (99.7 % similarity) and they are also closely related to Clostridium tyrobutyricum (96.5 %). The two strains were Gram-stain positive and rod-shaped. Growth occurred at 20–45 °C, at pH 4.0–8.0 and at NaCl concentrations of up to 2 % (w/v). Acid was produced from glucose, xylose and mannose. Products of fermentation in PYG medium were mainly butyrate, acetate, carbon dioxide and hydrogen. The predominant cellular fatty acids were C14 : 0 and C16 : 0. The cellular polar lipids comprised phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, two glycolipids, one phospholipid, one aminophospholipid and two aminolipids. The DNA G+C contents of strain MB9-7T and MB9-9 were 27.9 and 28.7 mol%, respectively. These results support the assignment of the new isolates to the genus Clostridium and also distinguish them from other species of the genus Clostridium . Hence, it is proposed that strains MB9-7T and MB9-9 represent a novel species of the genus Clostridium , with the suggested name Clostridium algifaecis sp. nov. The type strain is MB9-7T ( = CGMCC 1.5188T = DSM 28783T).

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