scholarly journals Leuconostoc durionis sp. nov., a heterofermenter with no detectable gas production from glucose

2005 ◽  
Vol 55 (3) ◽  
pp. 1267-1270 ◽  
Author(s):  
J. J. Leisner ◽  
M. Vancanneyt ◽  
R. Van der Meulen ◽  
K. Lefebvre ◽  
K. Engelbeen ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Gas Production ◽  
Rrna Gene ◽  
Nearest Neighbour ◽  
Sds Page ◽  
Rrna Gene Sequencing

Three lactic acid bacterial (LAB) strains obtained from a Malaysian acid-fermented condiment, tempoyak (made from pulp of the durian fruit), showed analogous but distinct patterns after screening by SDS-PAGE of whole-cell proteins and comparison with profiles of all recognized LAB species. 16S rRNA gene sequencing of one representative strain showed that the taxon belongs phylogenetically to the genus Leuconostoc, with its nearest neighbour being Leuconostoc fructosum (98 % sequence similarity). Biochemical characteristics and DNA–DNA hybridization experiments demonstrated that the strains differ from Leuconostoc fructosum and represent a single, novel Leuconostoc species for which the name Leuconostoc durionis sp. nov. is proposed. The type strain is LMG 22556T (=LAB 1679T=D-24T=CCUG 49949T).

scholarly journals Halomonas stevensii sp. nov., Halomonas hamiltonii sp. nov. and Halomonas johnsoniae sp. nov., isolated from a renal care centre

2010 ◽  
Vol 60 (2) ◽  
pp. 369-377 ◽  
Author(s):  
Kwang Kyu Kim ◽  
Keun Chul Lee ◽  
Hee-Mock Oh ◽  
Jung-Sook Lee
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Care Centre ◽  
Hybridization Data ◽  
Rrna Gene Sequencing

A total of 14 Halomonas strains were isolated from the blood of two patients and from dialysis machines of a renal care centre. The strains were Gram-negative, halophilic, motile and non-spore-forming rods. They produced cream-coloured colonies and contained Q-9 as the predominant ubiquinone and C18 : 1 ω7c and C16 : 0 as the major fatty acids. Phylogenetic analysis based on 16S rRNA gene sequencing showed that the 14 isolates were most closely related to Halomonas magadiensis 21 MIT with 98.1–98.9 % sequence similarity and that they formed three separate lineages among themselves. Combined phenotypic and DNA–DNA hybridization data support the conclusion that they represent three novel species of the genus Halomonas, for which the names Halomonas stevensii sp. nov. (type strain S18214T=KCTC 22148T=DSM 21198T), Halomonas hamiltonii sp. nov. (type strain W1025T=KCTC 22154T=DSM 21196T) and Halomonas johnsoniae sp. nov. (type strain T68687T=KCTC 22157T=DSM 21197T) are proposed.

scholarly journals Mucilaginibacter gotjawali sp. nov., isolated from soil of a lava forest

2015 ◽  
Vol 65 (Pt_3) ◽  
pp. 952-958 ◽  
Author(s):  
Keun Chul Lee ◽  
Kwang Kyu Kim ◽  
Mi Kyung Eom ◽  
Jong-Shik Kim ◽  
Dae-Shin Kim ◽  
...  
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Gram Stain ◽  
Content Type ◽  
Link Type ◽  
Rrna Gene Sequencing

A novel bacterial strain, designated SA3-7T, was isolated from soil of a lava forest located in Jeju, Republic of Korea. Cells of strain SA3-7T were Gram-stain-negative, oxidase- and catalase-positive, non-motile rods and produced creamy white colonies on ten-fold-diluted R2A agar. The isolate contained menaquinone-7 (MK-7) as the predominant isoprenoid quinone and summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The DNA G+C content was 43.1 mol%. Phylogenetic analysis based on 16S rRNA gene sequencing showed that strain SA3-7T was related most closely to Mucilaginibacter frigoritolerans FT22T (96.7 % sequence similarity) and that it formed a separate lineage in the genus Mucilaginibacter . Combined phenotypic, chemotaxonomic and phylogenetic characteristics supported the conclusion that strain SA3-7T represents a novel species of the genus Mucilaginibacter , for which the name Mucilaginibacter gotjawali sp. nov. is proposed; the type strain is SA3-7T ( = KCTC 32515T = CECT 8628T = DSM 29289T).

scholarly journals Sphingomonas vulcanisoli sp. nov., isolated from soil of a lava forest

2015 ◽  
Vol 65 (Pt_10) ◽  
pp. 3320-3325 ◽  
Author(s):  
Keun Chul Lee ◽  
Kwang Kyu Kim ◽  
Jong-Shik Kim ◽  
Dae-Shin Kim ◽  
Suk-Hyung Ko ◽  
...  
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Isoprenoid Quinone ◽  
Gram Stain ◽  
Rrna Gene Sequencing

A Gram-stain-negative, non-motile, yellow-pigmented and rod-shaped bacterial strain, designated SN6-13T, was isolated from soil of the Gotjawal, lava forest, located in Jeju, Republic of Korea. Cells of strain SN6-13T were oxidase- and catalase-positive. The isolate contained Q-10 as the predominant isoprenoid quinone, summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) and C16 : 0 as the major fatty acids, sym-homospermidine as the major polyamine and diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, sphingoglycolipid, ninhydrinphosphatidylglycerol and two unidentified aminophospholipids as the polar lipids. The DNA G+C content was 64.6 mol%. In phylogenetic analyses based on 16S rRNA gene sequencing, strain SN6-13T was most closely related to Sphingomonas laterariae LNB2T (95.4 % sequence similarity) and formed a separate lineage in the genus Sphingomonas. Based on phenotypic, chemotaxonomic and phylogenetic characteristics, it is concluded that strain SN6-13T represents a novel species of the genus Sphingomonas, for which the name Sphingomonas vulcanisoli sp. nov. is proposed. The type strain is SN6-13T ( = KCTC 42454T = CECT 8804T).

scholarly journals Streptosporangium yunnanense sp. nov. and Streptosporangium purpuratum sp. nov., from soil in China

2005 ◽  
Vol 55 (2) ◽  
pp. 719-724 ◽  
Author(s):  
Li-Ping Zhang ◽  
Cheng-Lin Jiang ◽  
Wen-Xin Chen
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Yunnan Province ◽  
Novel Species ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Physiological Properties ◽  
Rrna Gene Sequencing ◽  
Physiological And Biochemical

Two strains of Streptosporangium were isolated from Yunnan Province, a region of China with specific geographical conditions that contribute to its great microbiological diversity. They were identified using a polyphasic approach employing phenotypic, genotypic and phylogenetic techniques, such as study of morphological and physiological properties, cell chemistry, G+C content of the genomic DNA, DNA–DNA hybridization and phylogenetic analysis. The strains belong to two novel species of Streptosporangium on the basis of 16S rRNA gene sequencing. The results of morphological, physiological and biochemical investigations and DNA–DNA hybridization indicated that the two strains are different from known members of the genus Streptosporangium. The names Streptosporangium yunnanense sp. nov. (type strain CY-11007T=CCTCC AA 97009T=CCRC 16307T=DSM 44663T) and Streptosporangium purpuratum sp. nov. (type strain CY-15110T=CCTCC AA 97010T=CCRC 16308T=DSM 44688T) are proposed. They have been deposited in CCTCC in Wuhan.

scholarly journals Methanosarcina horonobensis sp. nov., a methanogenic archaeon isolated from a deep subsurface Miocene formation

2011 ◽  
Vol 61 (10) ◽  
pp. 2503-2507 ◽  
Author(s):  
Satoru Shimizu ◽  
Rahul Upadhye ◽  
Yoji Ishijima ◽  
Takeshi Naganuma
Keyword(s):  
Genomic Dna ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Deep Subsurface ◽  
Optimum Ph ◽  
Rrna Gene Sequencing

A methanogenic organism, designated strain HB-1T, from the domain Archaea was isolated from groundwater sampled from a subsurface Miocene formation located in Horonobe, Hokkaido, Japan. The strain grew on methanol, dimethylamine, trimethylamine, dimethylsulfide and acetate but not on monomethylamine, H2/CO2, formate, 2-propanol, 2-butanol or cyclopentanol. Cells were Gram-reaction-negative, non-motile, irregular cocci that were 1.4–2.9 µm in diameter and occurred singly or in pairs. The strain grew at 20–42 °C (optimum 37 °C), at pH 6.0–7.75 (optimum pH 7.0–7.25) and in 0–0.35 M NaCl (optimum 0.1 M). The G+C content of the genomic DNA was 41.4 mol%. 16S rRNA gene sequencing revealed that the strain was a member of the genus Methanosarcina but that it clearly differed from all recognized species of this genus (93.1–97.9 % sequence similarity). The phenotypic and phylogenetic features of strain HB-1T indicate that it represents a novel species of the genus Methanosarcina, for which the name Methanosarcina horonobensis sp. nov. is proposed. The type strain is HB-1T ( = DSM 21571T  = JCM 15518T  = NBRC 102577T).

scholarly journals Hafnia paralvei sp. nov., formerly known as Hafnia alvei hybridization group 2

2010 ◽  
Vol 60 (8) ◽  
pp. 1725-1728 ◽  
Author(s):  
Geert Huys ◽  
Margo Cnockaert ◽  
Sharon L. Abbott ◽  
J. Michael Janda ◽  
Peter Vandamme
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Rrna Gene Sequencing ◽  
Reference Strains ◽  
Sequence Similarities

It has been shown previously, based largely on DNA–DNA hybridizations and partial 16S rRNA gene sequencing, that Hafnia alvei is genotypically heterogeneous and consists of at least two DNA hybridization groups (HGs). In the present study, the taxonomic status of H. alvei HGs 1 and 2 was reassessed. A panel of 24 reference strains and isolates previously assigned to one of the two HGs in H. alvei was subjected to (GTG)5-PCR fingerprinting; this resulted in the delineation of two (GTG)5-PCR clusters in perfect accordance with the respective HG designations. Based on full 16S rRNA gene sequencing of a selection of reference strains, H. alvei HGs 1 and 2 showed internal sequence similarities of 99.8 and 99.5 %, respectively. Between the two groups, sequence similarities ranged from 98.8 to 99.1 %. Mean DNA–DNA hybridization values of 74.7–99.9 % were obtained within each of the two HGs, whereas cross-hybridizations between members of H. alvei HG 1 (including ATCC 13337T) and HG 2 revealed only 32.7–48.7 % DNA–DNA hybridization. Previously published and new phenotypic data revealed that a combination of malonate assimilation and β-glucosidase activity enabled correct assignment of Hafnia isolates to one of the two HGs. Collectively, taxonomic data from this study confirm that H. alvei comprises at least two taxa at the species level, of which HG 1 corresponds to H. alvei sensu stricto because it includes the type strain ATCC 13337T. Strains formerly classified as members of H. alvei HG 2 represent a novel species, for which the name Hafnia paralvei sp. nov. is proposed; ATCC 29927T (=CDC 4510-73T =LMG 24706T), the former reference strain of H. alvei HG 2, is designated the type strain.

scholarly journals Paenibacillus xylanilyticus sp. nov., an airborne xylanolytic bacterium

2005 ◽  
Vol 55 (1) ◽  
pp. 405-408 ◽  
Author(s):  
Raúl Rivas ◽  
Pedro F. Mateos ◽  
Eustoquio Martínez-Molina ◽  
Encarna Velázquez
Keyword(s):  
Dna Hybridization ◽  
Novel Species ◽  
Sequence Similarity ◽  
Hydrolytic Enzymes ◽  
16S Rrna Gene Sequencing ◽  
Gas Production ◽  
Rrna Gene ◽  
Hybridization Data ◽  
Paenibacillus Illinoisensis ◽  
Rrna Gene Sequencing

During a search for xylan-degrading micro-organisms, a sporulating bacterium was recovered from xylan-containing agar plates exposed to air in a research laboratory (Salamanca University, Spain). The airborne isolate (designated strain XIL14T) was identified by 16S rRNA gene sequencing as representing a Paenibacillus species most closely related to Paenibacillus illinoisensis JCM 9907T (99·3 % sequence similarity) and Paenibacillus pabuli DSM 3036T (98 % sequence similarity). Phenotypic, chemotaxonomic and DNA–DNA hybridization data indicated that the isolate belongs to a novel species of the genus Paenibacillus. Cells of strain XIL14T were motile, sporulating, rod-shaped, Gram-positive and facultatively anaerobic. The predominant cellular fatty acids were anteiso-C15 : 0 and C16 : 0. The DNA G+C content of strain XIL14T was 50·5 mol%. Growth was observed with many carbohydrates, including xylan, as the only carbon source and gas production was not observed from glucose. Catalase was positive and oxidase was negative. The airborne isolate produced a variety of hydrolytic enzymes, including xylanases, amylases, gelatinase and β-galactosidase. DNA–DNA hybridization levels between strain XIL14T and P. illinoisensis DSM 11733T and P. pabuli DSM 3036T were 43·3 and 36·3 %, respectively. According to the data obtained, strain XIL14T is considered to represent a novel species for which the name Paenibacillus xylanilyticus sp. nov. is proposed (=LMG 21957T=CECT 5839T).

scholarly journals Pontibaca methylaminivorans gen. nov., sp. nov., a member of the family Rhodobacteraceae

2010 ◽  
Vol 60 (9) ◽  
pp. 2170-2175 ◽  
Author(s):  
Kwang Kyu Kim ◽  
Jung-Sook Lee ◽  
Keun Chul Lee ◽  
Hee-Mock Oh ◽  
Song-Gun Kim
Keyword(s):  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
The Family ◽  
Novel Genus And Species ◽  
Unknown Phospholipid ◽  
Rrna Gene Sequencing ◽  
Family Rhodobacteraceae

The alphaproteobacterial strains GRP21T and PH34, which were isolated from coastal sediment of the East Sea, Korea, were subjected to a polyphasic taxonomic investigation. The strains were Gram-negative, non-motile, non-spore-forming, oval-shaped rods that produced creamy-white colonies on tryptic soy agar, required NaCl for growth, contained Q-10 as the predominant ubiquinone, contained 16 : 0, 18 : 1ω7c and 19 : 0 cyclo ω8c as major fatty acids and had polar lipid profiles consisting of phosphatidylcholine, phosphatidylglycerol, an unknown aminolipid, an unknown phospholipid and three unknown lipids. Phylogenetic analysis, based on 16S rRNA gene sequencing, showed that the strains were most closely related to Donghicola eburneus KCTC 12735T, with 94.5 % sequence similarity, but formed a separate lineage within the family Rhodobacteraceae. The combined genotypic and phenotypic data supported the conclusion that the strains represent a novel genus and species, for which the name Pontibaca methylaminivorans gen. nov., sp. nov. is proposed. The type strain of Pontibaca methylaminivorans is GRP21T (=KCTC 22497T =DSM 21219T).

scholarly journals Molecular analysis of artisanal Italian cheeses reveals Enterococcus italicus sp. nov.

2004 ◽  
Vol 54 (5) ◽  
pp. 1717-1721 ◽  
Author(s):  
M. Grazia Fortina ◽  
G. Ricci ◽  
D. Mora ◽  
P. L. Manachini
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Dna Hybridization ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Enterococcal Species ◽  
Rrna Gene Sequencing ◽  
Enterococcus Italicus

The taxonomic positions of seven atypical Enterococcus strains, isolated from artisanal Italian cheeses, were investigated in a polyphasic study. By using 16S rRNA gene sequencing, DNA–DNA hybridization and intergenic transcribed spacer analysis, as well as by examining the phenotypic properties, the novel isolates were shown to constitute a novel enterococcal species. Their closest relatives are Enterococcus sulfureus and Enterococcus saccharolyticus, having a 16S rRNA gene sequence similarity of 96·7 %. This group of strains can be easily differentiated from the other Enterococcus species by DNA–DNA hybridization and by their phenotypic characteristics: the strains do not grow in 6·5 % NaCl, and they do not produce acid from l-arabinose, melezitose, melibiose, raffinose or ribose. The name Enterococcus italicus sp. nov. is proposed for this species, with strain DSM 15952T (=LMG 22039T) as the type strain.

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).

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