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.

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.

Phreatobacter oligotrophus gen. nov., sp. nov., an alphaproteobacterium isolated from ultrapure water of the water purification system of a power plant

2014 ◽  
Vol 64 (Pt_3) ◽  
pp. 839-845 ◽  
Author(s):  
E. M. Tóth ◽  
A. Vengring ◽  
Z. G. Homonnay ◽  
Zs. Kéki ◽  
C. Spröer ◽  
...  
Keyword(s):  
Power Plant ◽  
16S Rrna ◽  
Type Strain ◽  
Type Species ◽  
Rrna Gene ◽  
Ultrapure Water ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
The 16S Rrna Gene

Strains of a novel alphaproteobacterium were isolated from ultrapure water of a Hungarian power plant on a newly developed medium. Phylogenetic analysis of the 16S rRNA gene sequences of the novel strains showed that these bacteria belong to a distinct lineage far from any known taxa. Based on the 16S rRNA gene sequences, strains PI_31, PI_25 and PI_21T exhibited the highest sequence similarity to Bosea minatitlanensis AMX51T (93.43 %) and Bosea thiooxidans DSM 9653T (93.36 %); similarity to all other taxa was less than 93.23 %. Fatty acid profiles, matrix-assisted laser-desorption/ionization time-of-flight mass spectra of cell extracts as well as physiological and biochemical characteristics indicated that our strains represent a novel genus and species within the class Alphaproteobacteria . The major isoprenoid quinone of the strains was Q-10, the major cellular fatty acids were C18 : 1ω7c and 11-methyl C18 : 1ω7c and the polar lipid profiles of the strains contained phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine and several unknown phospholipids and other lipids. The characteristic diamino acid in their cell wall was meso-diaminopimelic acid. The G+C content of DNA of the proposed type strain PI_21T was 68.9 mol%. A new genus and species, Phreatobacter oligotrophus gen. nov., sp. nov., is proposed to accommodate the strains. Strain PI_21T ( = DSM 25521T = NCAIM B 02510T) is the type strain of Phreatobacter oligotrophus.

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)

Dyadobacter jejuensis sp. nov., isolated from seawater

2013 ◽  
Vol 63 (Pt_5) ◽  
pp. 1788-1792 ◽  
Author(s):  
Jeesun Chun ◽  
Ji Young Kang ◽  
Yochan Joung ◽  
Haneul Kim ◽  
Kiseong Joh ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Novel Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
The 16S Rrna Gene

A taxonomic study was carried out on a novel bacterial strain, designated AM1R11T, which was isolated from seawater of Jeju Island in Korea. Cells of the isolate were found to be Gram-negative, rod-shaped and non-motile. Comparison of the 16S rRNA gene sequences indicated that the isolate belonged to the family Cytophagaceae , with Dyadobacter ginsengisoli Gsoil 043T as its closest relative, with a similarity of 96.6 %. It contained summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c, 36.9 %), iso-C15 : 0 (16.5 %) and C16 : 1ω5c (16.3 %) as the major fatty acids and MK-7 as the predominant menaquinone. The polar lipid profile of strain AM1R11T revealed the presence of phosphatidylethanolamine, one aminolipid and four unidentified lipids (L1, L2, L3 and L4). The DNA G+C content of strain AM1R11T was 45.1 mol%. On the basis of the evidence presented, it is concluded that strain AM1R11T represents a novel species of the genus Dyadobacter , for which the name Dyadobacter jejuensis sp. nov. is proposed. The type strain is AM1R11T ( = KACC 16446T = JCM 17918T).

Taxonomic status of the species Clostridium methoxybenzovorans Mechichi et al. 1999

2021 ◽  
Vol 71 (8) ◽  
Author(s):  
Hisami Kobayashi ◽  
Yasuhiro Tanizawa ◽  
Mitsuo Sakamoto ◽  
Moriya Ohkuma ◽  
Masanori Tohno
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Type Species ◽  
Taxonomic Status ◽  
Rrna Gene ◽  
Whole Genome ◽  
Content Type ◽  
Link Type ◽  
The 16S Rrna Gene

The taxonomic status of the species Clostridium methoxybenzovorans was assessed. The 16S rRNA gene sequence, whole-genome sequence and phenotypic characterizations suggested that the type strain deposited in the American Type Culture Collection ( C. methoxybenzovorans ATCC 700855T) is a member of the species Eubacterium callanderi . Hence, C. methoxybenzovorans ATCC 700855T cannot be used as a reference for taxonomic study. The type strain deposited in the German Collection of Microorganism and Cell Cultures GmbH (DSM 12182T) is no longer listed in its online catalogue. Also, both the 16S rRNA gene and the whole-genome sequences of the original strain SR3T showed high sequence identity with those of Lacrimispora indolis (recently reclassified from Clostridium indolis ) as the most closely related species. Analysis of the two genomes showed average nucleotide identity based on blast and digital DNA–DNA hybridization values of 98.3 and 87.9 %, respectively. Based on these results, C. methoxybenzovorans SR3T was considered to be a member of L. indolis .

Mucilaginibacter soyangensis sp. nov., isolated from a lake

2014 ◽  
Vol 64 (Pt_2) ◽  
pp. 413-419 ◽  
Author(s):  
Yochan Joung ◽  
Haneul Kim ◽  
Heeyoung Kang ◽  
Beom-Il Lee ◽  
Tae-Seok Ahn ◽  
...  
Keyword(s):  
Fatty Acids ◽  
16S Rrna ◽  
Type Strain ◽  
Type Species ◽  
Novel Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Yellow Orange

A non-motile, yellow–orange-pigmented bacterial strain, designated HME6664T, was isolated from Lake Soyang, Republic of Korea. The major fatty acids of strain HME6664T were summed feature 3 (comprising C16 : 1ω6c and/or C16 : 1ω7c; 44.7 %) and iso-C15 : 0 (20.2 %). The DNA G+C content was 40.8 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain HME6664T formed a lineage within the genus Mucilaginibacter . Strain HME6664T was closely related to Mucilaginibacter ximonensis (96.7 %), Mucilaginibacter dorajii (96.5 %) and Mucilaginibacter lappiensis (96.3 %). On the basis of the evidence presented in this study, strain HME6664T represents a novel species of the genus Mucilaginibacter , for which the name Mucilaginibacter soyangensis sp. nov., is proposed. The type strain is HME6664T ( = KCTC 23261T = CECT 7824T).

scholarly journals Teredinibacter haidensis sp. nov., Teredinibacter purpureus sp. nov. and Teredinibacter franksiae sp. nov., marine, cellulolytic endosymbiotic bacteria isolated from the gills of the wood-boring mollusc Bankia setacea (Bivalvia: Teredinidae) and emended description of the genus Teredinibacter

2021 ◽  
Author(s):  
Marvin A. Altamia ◽  
J. Reuben Shipway ◽  
David Stein ◽  
Meghan A. Betcher ◽  
Jennifer M. Fung ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Sequence Data ◽  
Amino Acid Identity ◽  
Whole Genome Sequence ◽  
Phenotypic Characterization ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Content Type ◽  
Link Type

Here, we describe three endosymbiotic bacterial strains isolated from the gills of the shipworm, Bankia setacea (Teredinidae: Bivalvia). These strains, designated as Bs08T, Bs12T and Bsc2T, are Gram-stain-negative, microaerobic, gammaproteobacteria that grow on cellulose and a variety of substrates derived from lignocellulose. Phenotypic characterization, phylogeny based on 16S rRNA gene and whole genome sequence data, amino acid identity and percentage of conserved proteins analyses, show that these strains are novel and may be assigned to the genus Teredinibacter . The three strains may be differentiated and distinguished from other previously described Teredinibacter species based on a combination of four characteristics: colony colour (Bs12T, purple; others beige to brown), marine salt requirement (Bs12T, Bsc2T and Teredinibacter turnerae strains), the capacity for nitrogen fixation (Bs08T and T. turnerae strains) and the ability to respire nitrate (Bs08T). Based on these findings, we propose the names Teredinibacter haidensis sp. nov. (type strain Bs08T=ATCC TSD-121T=KCTC 62964T), Teredinibacter purpureus sp. nov. (type strain Bs12T=ATCC TSD-122T=KCTC 62965T) and Teredinibacter franksiae sp. nov. (type strain Bsc2T=ATCC TSD-123T=KCTC 62966T).

scholarly journals Sphingomonas corticis sp. nov., and Sphingobacterium corticibacterium sp. nov., from bark canker

2020 ◽  
Vol 70 (11) ◽  
pp. 5627-5633 ◽  
Author(s):  
Yong Li ◽  
Shengkun Wang ◽  
Ju-pu Chang ◽  
Dan-ran Bian ◽  
Li-min Guo ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Respiratory Quinone ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type

Two Gram-stain-negative, aerobic, non-motile bacterial strains, 36D10-4-7T and 30C10-4-7T, were isolated from bark canker tissue of Populus × euramericana, respectively. 16S rRNA gene sequence analysis revealed that strain 36D10-4-7T shows 98.0 % sequence similarity to Sphingomonas adhaesiva DSM 7418T, and strain 30C10-4-7T shows highest sequence similarity to Sphingobacterium arenae H-12T (95.6 %). Average nucleotide identity analysis indicates that strain 36D10-4-7T is a novel member different from recognized species in the genus Sphingomonas . The main fatty acids and respiratory quinone detected in strain 36D10-4-7T are C18 : 1  ω7c and/or C18 : 1  ω6c and Q-10, respectively. The polar lipids are diphosphatidylglycerol, phosphatidylcholine, phosphatidylglycerol, aminolipid, phosphatidylethanolamine, sphingoglycolipid, two uncharacterized phospholipids and two uncharacterized lipids. For strain 30C10-4-7T, the major fatty acids and menaquinone are iso-C15 : 0, C16 : 1  ω7c and/or C16 : 1  ω6c and iso-C17 : 0 3-OH and MK-7, respectively. The polar lipid profile includes phosphatidylethanolamine, phospholipids, two aminophospholipids and six unidentified lipids. Based on phenotypic and genotypic characteristics, these two strains represent two novel species within the genera Sphingomonas and Sphingobacterium . The name Sphingomonas corticis sp. nov. (type strain 36D10-4-7T=CFCC 13112T=KCTC 52799T) and Sphingobacterium corticibacterium sp. nov. (type strain 30C10-4-7T=CFCC 13069T=KCTC 52797T) are proposed.

scholarly journals Proposed reclassification of Pasteurella lymphangitidis Sneath & Stevens 1990 as Yersinia pseudotuberculosis

2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3927-3929 ◽  
Author(s):  
Olivier Gaillot ◽  
Olivier Lemenand ◽  
Michaël Marceau ◽  
Michel Simonet
Keyword(s):  
Sequence Analysis ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Yersinia Pseudotuberculosis ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
The 16S Rrna Gene

The 16S rRNA gene sequences of Pasteurella lymphangitidis , Yersinia pseudotuberculosis and Yersinia pestis were found to be identical and multilocus sequence analysis could not discriminate between the three species. The susceptibility to a Y. pseudotuberculosis phage and the presence of the Y. pseudotuberculosis -specific invasin gene in P. lymphangitidis indicate that the latter should be reclassified as Y. pseudotuberculosis .

scholarly journals Solimonas terrae sp. nov., isolated from soil

2014 ◽  
Vol 64 (Pt_4) ◽  
pp. 1218-1222 ◽  
Author(s):  
Soo-Jin Kim ◽  
Ji-Young Moon ◽  
Hang-Yeon Weon ◽  
Jae-Hyung Ahn ◽  
Wen-Ming Chen ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Novel Species ◽  
Rrna Gene ◽  
Isoprenoid Quinone ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph

A Gram-stain-negative, aerobic, motile, rod-shaped bacterium, designated strain KIS83-12T, was isolated from soil of Gaui island in the Taean region of South Korea. The strain grew at 15–33 °C (optimum, 28 °C), at pH 5.0–8.0 (optimum, pH 7.0). Growth did not occur in the presence of NaCl. The strain was catalase-negative and oxidase-positive. Phylogenetic analysis based on 16S rRNA gene sequences showed that KIS83-12T was most closely related to Solimonas soli DCY12T (96.9 %), Solimonas variicoloris MN28T (96.5 %), Solimonas flava CW-KD 4T (96.5 %) and Solimonas aquatica NAA16T (96.0 %), and formed a robust phyletic lineage with members of the genus Solimonas . The main isoprenoid quinone was Q-8. Major polar lipids included phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. Fatty acids present in large and moderate amounts (>5.0 %) were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), C16 : 0, C16 : 1ω5c, summed feature 2 (iso-C16 : 1 I and/or C14 : 0 3-OH) and C12 : 0. The DNA G+C content was 67.9 mol%. On the basis of the taxonomic data obtained in this study, KIS83-12T represents a novel species of the genus Solimonas , for which the name Solimonas terrae sp. nov. is proposed, with KIS83-12T ( = KACC 16967T = DSM 27281T) as the type strain.

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