scholarly journals Schlesneria paludicola gen. nov., sp. nov., the first acidophilic member of the order Planctomycetales, from Sphagnum-dominated boreal wetlands

2007 ◽  
Vol 57 (11) ◽  
pp. 2680-2687 ◽  
Author(s):  
Irina S. Kulichevskaya ◽  
Anastasia O. Ivanova ◽  
Svetlana E. Belova ◽  
Olga I. Baulina ◽  
Paul L. E. Bodelier ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Ph Values ◽  
Novel Genus And Species ◽  
Acidic Conditions ◽  
Northern Russia ◽  
Moderately Acidophilic

Three strains of budding, ellipsoid-shaped and rosette-forming bacteria were isolated from acidic Sphagnum-dominated boreal wetlands of northern Russia and were designated strains MPL7T, MOB77 and SB2. The presence of crateriform pits and numerous fibrillar appendages on the cell surface and an unusual spur-like projection on one pole of the cell indicated a planctomycete morphotype. These isolates are moderately acidophilic, mesophilic organisms capable of growth at pH values between 4.2 and 7.5 (with an optimum at pH 5.0–6.2) and at temperatures between 4 and 32 °C (optimum 15–26 °C). The major fatty acids are C16 : 0 and C16 : 1 ω7c; the major quinone is MK-6. The G+C content of the DNA is 54.4–56.5 mol%. Strains MPL7T, MOB77 and SB2 possess nearly identical 16S rRNA gene sequences and belong to the planctomycete lineage defined by the genus Planctomyces, being most closely related to Planctomyces limnophilus DSM 3776T (86.9–87.1 % sequence similarity). However, strain MPL7T showed only 28 % DNA–DNA hybridization with P. limnophilus DSM 3776T. Compared with currently described members of the genus Planctomyces, the isolates from northern wetlands do not form long and distinctive stalks, have greater tolerance of acidic conditions and low temperatures, are more sensitive to NaCl, lack pigmentation and degrade a wider range of biopolymers. The data therefore suggest that strains MPL7T, MOB77 and SB2 represent a novel genus and species, for which the name Schlesneria paludicola gen. nov., sp. nov., is proposed. Strain MPL7T (=ATCC BAA-1393T =VKM B-2452T) is the type strain of Schlesneria paludicola.

scholarly journals Rhodococcus kyotonensis sp. nov., a novel actinomycete isolated from soil

2007 ◽  
Vol 57 (9) ◽  
pp. 1956-1959 ◽  
Author(s):  
Bing Li ◽  
Keiko Furihata ◽  
Lin-Xian Ding ◽  
Akira Yokota
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Mycolic Acids ◽  
Rhodococcus Fascians ◽  
The 16S Rrna Gene ◽  
Is Strain

A polyphasic study was undertaken to establish the taxonomic position of an isolate, strain DS472T, from soil in Kyoto, Japan. Phylogenetic analysis, based on the 16S rRNA gene sequences, revealed that this strain constitutes a new subline within the genus Rhodococcus, with Rhodococcus yunnanensis YIM 70056T and Rhodococcus fascians DSM 20669T as its nearest phylogenetic neighbours (98.2 and 97.8 % sequence similarity, respectively). DNA–DNA hybridization experiments revealed 36 and 29 % relatedness between the isolate and its phylogenetic relatives, R. yunnanensis and R. fascians, respectively. Chemotaxonomic characteristics, including the major quinone MK-8(H2), predominant fatty acids C16 : 0, C18 : 1 ω9c and 10-methyl C18 : 0, the presence of cell-wall chemotype IV and mycolic acids, were consistent with the properties of members of the genus Rhodococcus. The DNA G+C content was 64.5 mol%. On the basis of both phenotypic and genotypic evidence, strain DS472T represents a novel species of the genus Rhodococcus, for which the name Rhodococcus kyotonensis sp. nov. is proposed. The type strain is strain DS472T (=IAM 15415T=CCTCC AB206088T).

scholarly journals Paenibacillus rhizosphaerae sp. nov., isolated from the rhizosphere of Cicer arietinum

2005 ◽  
Vol 55 (3) ◽  
pp. 1305-1309 ◽  
Author(s):  
Raúl Rivas ◽  
Carmen Gutiérrez ◽  
Adriana Abril ◽  
Pedro F. Mateos ◽  
Eustoquio Martínez-Molina ◽  
...  
Keyword(s):  
Cicer Arietinum ◽  
Dna Hybridization ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Gas Production ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Bacterial Strains ◽  
16S Rrna Gene Sequences

Two sporulating bacterial strains designated CECAP06T and CECAP16 were isolated from the rhizosphere of the legume Cicer arietinum in Argentina. Almost-complete 16S rRNA gene sequences identified the isolates as a Paenibacillus species. It was most closely related to Paenibacillus cineris LMG 18439T (99·6 % sequence similarity), Paenibacillus favisporus LMG 20987T (99·4 % sequence similarity) and Paenibacillus azoreducens DSM 13822T (97·7 % sequence similarity). The cells of this novel species were motile, sporulating, rod-shaped, Gram-positive and strictly aerobic. The predominant fatty acids were anteiso-C15 : 0, C16 : 0 and iso-C16 : 0. The DNA G+C content of strains CECAP06T and CECAP16 was 51·3 and 50·9 mol%, respectively. Growth was observed from many carbohydrates, but gas production was not observed from glucose. Catalase and oxidase activities were present. The isolates produced β-galactosidase and hydrolysed aesculin. Gelatinase, caseinase and urease were not produced. The results of DNA–DNA hybridization showed that the strains from this study constitute a novel species of the genus Paenibacillus, for which the name Paenibacillus rhizosphaerae sp. nov. is proposed. The type strain is CECAP06T (=LMG 21955T=CECT 5831T).

Halomonas Jincaotanensis Sp. Nov., a 1-naphthylamine Degrading Bacterium Isolated From Pamir

2021 ◽  
Author(s):  
Xuying Bu ◽  
Zhanfeng Xia ◽  
Zhanwen Liu ◽  
Min Ren ◽  
Chuanxing Wan ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
High Sequence Similarity ◽  
Respiratory Quinone ◽  
Degrading Bacterium ◽  
Optimum Ph ◽  
Pr China

Abstract A Gram-stain-negative, aerobic, rod-shaped bacterium, designated strain TRM85114T, was isolated from Jincaotan in Pamir, PR China. We found it has the ability to degrading 1-naphthylamine. Strain TRM85114T grows at 4-40 °C (optimum, 30 °C), at pH 6.0-9.0 (optimum, pH 6.0-7.0) and with 3%-15% (w/v) NaCl (optimum, 3%-6%). Phylogenetic analysis of 16S rRNA gene sequences revealed that strain TRM85114T is affiliated with the genus Halomonas, sharing high sequence similarity (97.3%) with the type strain of Halomonas korlensis CGMCC 1.6981T. The major fatty acids of strain TRM85114T are C12:0 3-OH, C16:0, C17:0 cyclo, C19:0 cyclo ω8c, summed feature 3 (C16:1 ω7c and/or C16:1 ω6c) and summed feature 8 (C18:1 ω6c and/or C18:1 ω7c). The predominant respiratory quinone is Q-7. The genomic DNA G + C content of strain TRM85114T was determined to be 61.6 mol%. Calculating the average nucleotide identities and the digital DNA-DNA hybridization values between strain TRM85114T and the related type Halomonas strains further revealed that TRM85114T represented a novel species of the genus Halomonas. The name Halomonas jincaotanensis sp. nov. is proposed. The type strain is TRM85114T (CCTCC AB 2021006T =LMG 32311T).

scholarly journals Rubritalea marina gen. nov., sp. nov., a marine representative of the phylum ‘Verrucomicrobia’, isolated from a sponge (Porifera)

2006 ◽  
Vol 56 (9) ◽  
pp. 2119-2124 ◽  
Author(s):  
Matthias Scheuermayer ◽  
Tobias A. M. Gulder ◽  
Gerhard Bringmann ◽  
Ute Hentschel
Keyword(s):  
Genomic Dna ◽  
Type Strain ◽  
Marine Bacterium ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Ph Values ◽  
Novel Genus And Species ◽  
Bacterium Strain

A marine bacterium, strain Pol012T, was isolated from the Mediterranean sponge Axinella polypoides and subsequently characterized as belonging to subphylum 1 of the phylum ‘Verrucomicrobia’. Strain Pol012T was non-motile, Gram-negative, coccoid or rod-shaped and red in colour. The menaquinones MK-8 and MK-9 were detected. The G+C content of the genomic DNA was 50.9 mol%. Growth was possible at temperatures between 8 and 30 °C and at pH values between 6.8 and 8.2. The closest cultured relative of strain Pol012T was Akkermansia muciniphila (83 % sequence similarity), while the closest environmental 16S rRNA gene sequence was the marine clone Arctic96BD-2 (95 % sequence similarity). Strain Pol012T is the first marine pure-culture representative of ‘Verrucomicrobia’ subphylum 1 and represents a novel genus and species, for which the name Rubritalea marina gen. nov., sp. nov. is proposed. The type strain is Pol012T (=DSM 177716T=CIP 108984T).

scholarly journals Methylocella tundrae sp. nov., a novel methanotrophic bacterium from acidic tundra peatlands

2004 ◽  
Vol 54 (1) ◽  
pp. 151-156 ◽  
Author(s):  
Svetlana N. Dedysh ◽  
Yulia Y. Berestovskaya ◽  
Lina V. Vasylieva ◽  
Svetlana E. Belova ◽  
Valentina N. Khmelenina ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Novel Species ◽  
Phospholipid Fatty Acid ◽  
Carbon Assimilation ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Soluble Methane Monooxygenase ◽  
Serine Pathway ◽  
Moderately Acidophilic

A novel species, Methylocella tundrae, is proposed for three methanotrophic strains (T4T, TCh1 and TY1) isolated from acidic Sphagnum tundra peatlands. These strains are aerobic, Gram-negative, non-motile, dinitrogen-fixing rods that possess a soluble methane monooxygenase and utilize the serine pathway for carbon assimilation. Strains T4T, TCh1 and TY1 are moderately acidophilic organisms capable of growth between pH 4·2 and 7·5 (optimum 5·5–6·0) and between 5 and 30 °C (optimum 15 °C). The major phospholipid fatty acid is 18 : 1ω7c. The DNA G+C content of strain T4T is 63·3 mol%. The three strains possess almost identical 16S rRNA gene sequences and are most closely related to two previously identified species of Methylocella, Methylocella palustris (97 % similarity) and Methylocella silvestris (97·5 % similarity). DNA–DNA hybridization values of strain T4T with Methylocella palustris KT and Methylocella silvestris BL2T were respectively 27 and 36 %. Thus, the tundra strains represent a novel species, for which the name Methylocella tundrae sp. nov. is proposed. Strain T4T (=DSM 15673T=NCIMB 13949T) is the type strain.

Dyadobacter koreensis sp. nov., isolated from fresh water

2007 ◽  
Vol 57 (6) ◽  
pp. 1227-1231 ◽  
Author(s):  
Keun Sik Baik ◽  
Mi Sun Kim ◽  
Eun Mi Kim ◽  
Hyung Rak Kim ◽  
Chi Nam Seong
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Gram Negative ◽  
Light Yellow ◽  
Relatedness Data

A non-motile, rod-shaped, light-yellow-pigmented bacterium, designated strain WPCB159T, was isolated from freshwater samples collected from the Woopo wetland in Korea. The cells were Gram-negative, aerobic and catalase- and oxidase-positive. The major fatty acids were C16 : 1 ω7c (34.8 %), iso-C15 : 0 (24.2 %) and C16 : 0 (9.4 %). The DNA G+C content was 44 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain WPCB159T forms a lineage within the genus Dyadobacter (family ‘Flexibacteraceae’) and is closely related to Dyadobacter hamtensis HHS 11T (97.8 % sequence similarity) and to other members of the genus Dyadobacter (95.2–96.8 % sequence similarity). The phenotypic characteristics and DNA–DNA hybridization relatedness data indicate that strain WPCB159T should be distinguished from D. hamtensis HHS 11T. On the basis of the evidence presented in this study, strain WPCB159T represents a novel species of the genus Dyadobacter, for which the name Dyadobacter koreensis sp. nov. is proposed. The type strain is WPCB159T (=KCTC 12537T=NBRC 101116T).

scholarly journals Cohnella xylanilytica sp. nov. and Cohnella terrae sp. nov., xylanolytic bacteria from soil

2010 ◽  
Vol 60 (12) ◽  
pp. 2913-2917 ◽  
Author(s):  
Saowapar Khianngam ◽  
Somboon Tanasupawat ◽  
Ancharida Akaracharanya ◽  
Kwang Kyu Kim ◽  
Keun Chul Lee ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Physiological And Biochemical Characteristics ◽  
Degrading Bacteria ◽  
Physiological And Biochemical

Two xylan-degrading bacteria, strains MX15-2T and MX21-2T, were isolated from soils collected in Nan province, Thailand. Cells were Gram-reaction-positive, facultatively anaerobic, spore-forming and rod-shaped. They contained meso-diaminopimelic acid in the cell-wall peptidoglycan. The major menaquinone was MK-7. iso-C16 : 0 and anteiso-C15 : 0 were the predominant cellular fatty acids. Diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and lysyl-phosphatidylglycerol were the major polar lipids. The genomic DNA G+C contents of strains MX15-2T and MX21-2T were 63.0 and 65.1 mol%, respectively. Phylogenetic analysis using 16S rRNA gene sequences showed that strains MX15-2T and MX21-2T were affiliated with the genus Cohnella and were closely related to Cohnella thermotolerans CCUG 47242T, with 96.5 and 95.6 % sequence similarity, respectively. The strains could be clearly distinguished from each other and from all known species of the genus Cohnella based on their physiological and biochemical characteristics as well as their phylogenetic positions and levels of DNA–DNA hybridization. Therefore, these two strains represent novel species of the genus Cohnella, for which the names Cohnella xylanilytica sp. nov. (type strain MX15-2T =KCTC 22294T =PCU 309T =TISTR 1891T) and Cohnella terrae sp. nov. (type strain MX21-2T =KCTC 22295T =PCU 310T =TISTR 1892T) are proposed.

scholarly journals Vibrio variabilis sp. nov. and Vibrio maritimus sp. nov., isolated from Palythoa caribaeorum

2011 ◽  
Vol 61 (12) ◽  
pp. 3009-3015 ◽  
Author(s):  
Luciane A. Chimetto ◽  
Ilse Cleenwerck ◽  
Ana Paula B. Moreira ◽  
Marcelo Brocchi ◽  
Anne Willems ◽  
...  
Keyword(s):  
16S Rrna ◽  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Phenotypic Characterization ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Palythoa Caribaeorum ◽  
Separate Branch

Two novel vibrio isolates (R-40492T and R-40493T) originating from the zoanthid Palythoa caribaeorum in Brazil in 2005 were taxonomically characterized by means of a polyphasic approach comprising multilocus sequence analysis (MLSA), DNA–DNA hybridization (DDH), ΔT m analysis and phenotypic characterization. Phylogenetic analysis based on 16S rRNA gene sequences showed that R-40492T and R-40493T fell within the genus Vibrio and were most closely related to each other with 99 % similarity; similarities of these two novel isolates towards Vibrio neptunius LMG 20536T, Vibrio coralliilyticus LMG 20984T, Vibrio nigripulchritudo LMG 3896T, Vibrio sinaloensis LMG 25238T and Vibrio brasiliensis LMG 20546T varied between 97.1 and 98.5 %. DDH experiments showed that the two isolates had less than 15 % relatedness to the phylogenetically most closely related Vibrio species. R-40492T and R-40493T had 55–57 % relatedness to each other. The ΔTm between R-40492T and R-40493T was 6.12 °C. In addition, MLSA of concatenated sequences (16S rRNA, ftsZ, gyrB, recA, rpoA, topA, pyrH and mreB; 6035 bp in length) showed that the two novel isolates formed a separate branch with less than 92 % concatenated gene sequence similarity towards known species of vibrios. Two novel species are proposed to accommodate these novel isolates, namely Vibrio variabilis sp. nov. (type strain, R-40492T = LMG 25438T = CAIM 1454T) and Vibrio maritimus sp. nov. (type strain, R-40493T = LMG 25439T = CAIM 1455T).

scholarly journals Emticicia sediminis sp. nov. isolated from sediment of a shallow stream

2015 ◽  
Vol 65 (Pt_8) ◽  
pp. 2496-2499 ◽  
Author(s):  
Si-Eun Park ◽  
Siwon Lee ◽  
Haneul Kim ◽  
Tae-Young Ahn
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Hybridization Experiment ◽  
Rrna Gene ◽  
Taxonomic Study ◽  
16S Rrna Gene Sequences ◽  
Shallow Stream ◽  
Genomic Relatedness

A novel bacterial strain, designated JBR12T, was isolated from sediment of a shallow stream in Cheonan, Korea. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain JBR12T belongs to the genus Emticicia, and indicated that its closest relatives are Emticicia oligotrophica DSM 17448T (97.8  % sequence similarity) and E. ginsengisoli Gsoil 085T (94.3  %). A DNA–DNA hybridization experiment revealed < 70  % genomic relatedness between strain JBR12T and E. oligotrophica DSM 17448T. The major fatty acids (>5  % of the total) were iso-C15 : 0, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), iso-C15 : 0 3-OH, anteiso-C15 : 0 and iso-C15 : 0 3-OH. The DNA G+C content of strain JBR12T was 37.7 mol%. According to data from the present polyphasic taxonomic study, strain JBR12T represents a novel species of the genus Emticicia, for which the name Emticicia sediminis sp. nov. is proposed. The type strain is JBR12T ( = KACC 17466T = JCM 19321T).

scholarly journals Vibrio comitans sp. nov., Vibrio rarus sp. nov. and Vibrio inusitatus sp. nov., from the gut of the abalones Haliotis discus discus, H. gigantea, H. madaka and H. rufescens

2007 ◽  
Vol 57 (5) ◽  
pp. 916-922 ◽  
Author(s):  
Tomoo Sawabe ◽  
Yusuke Fujimura ◽  
Kentaro Niwa ◽  
Hideaki Aono
Keyword(s):  
Phylogenetic Analysis ◽  
16S Rrna ◽  
Dna Hybridization ◽  
Type Strain ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Bacterial Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Haliotis Discus

Nine alginolytic, facultatively anaerobic, non-motile bacteria were isolated from the guts of the abalones Haliotis discus discus, H. gigantea, H. madaka and H. rufescens. Phylogenetic analyses based on 16S rRNA gene sequences indicated that these bacteria were closely related to Vibrio superstes G3-29T (98.6–99.3 % sequence similarity). DNA–DNA hybridization and phylogenetic analysis based on the gapA gene demonstrated that six strains constituted one bacterial species, two strains represented a second species and one strain represented a third species. The three novel bacterial species were different from all currently known vibrios. The names Vibrio comitans sp. nov. (type strain GHG2-1T=LMG 23416T=NBRC 102076T; DNA G+C content 45.0–48.0 mol%), Vibrio inusitatus sp. nov. (type strain RW14T=LMG 23434T=NBRC 102082T; DNA G+C content 43.1–43.7 mol%) and Vibrio rarus sp. nov. (type strain RW22T=LMG 23674T=NBRC 102084T; DNA G+C content 43.8 mol%) are proposed to encompass these new taxa. Several phenotypic features were revealed that discriminate V. comitans, V. rarus and V. inusitatus from other Vibrio species.

Sign in / Sign up

Export Citation Format

Share Document