scholarly journals Halomonas daqiaonensis sp. nov., a moderately halophilic, denitrifying bacterium isolated from a littoral saltern

2011 ◽  
Vol 61 (7) ◽  
pp. 1612-1616 ◽  
Author(s):  
Lingyun Qu ◽  
Qiliang Lai ◽  
Fengling Zhu ◽  
Xuguang Hong ◽  
Jinxing Zhang ◽  
...  
Keyword(s):  
Gene Sequence ◽  
East Coast ◽  
Novel Species ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Fatty Acid Profiles ◽  
Rrna Gene Sequence ◽  
Bacterial Strains ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis

Two novel Gram-negative, oxidase- and catalase-positive, rod-shaped bacterial strains, designated YCSA28T and YCSA39, were isolated from sediment of Daqiao saltern, Jimo, Qingdao, on the east coast of China. The two strains grew optimally at 28–30 °C, at pH 7.5 and in the presence of 7–8 % (w/v) NaCl. They were assigned to the genus Halomonas, class Gammaproteobacteria, based on 16S rRNA gene sequence analysis. The major cellular fatty acids of the two strains were C18 : 1ω7c (42.9 %), C16 : 0 (23.1 %) and C16 : 1ω7c/ω6c (18.0 %), and Q-9 was the major ubiquinone. The G+C content of the DNA of strains YCSA28T and YCSA39 was 63.7 and 63.9 mol%, respectively. The predominant respiratory lipoquinone, cellular fatty acid profiles and DNA G+C content of strains YCSA28T and YCSA39 were consistent with those of recognized species of the genus Halomonas. Levels of DNA–DNA relatedness between strains YCSA28T and YCSA39, between YCSA28T and Halomonas ventosae Al12T, and between YCSA39 and H. ventosae Al12T were 95, 45 and 50 %, respectively. Together, these data indicated that strains YCSA28T and YCSA39 represent a single novel species of the genus Halomonas, for which the name Halomonas daqiaonensis sp. nov. is proposed. The type strain is YCSA28T ( = CGMCC 1.9150T  = NCCB 100305T  = MCCC 1B00920T).

scholarly journals Jeotgalicoccus huakuii sp. nov., a halotolerant bacterium isolated from seaside soil

2010 ◽  
Vol 60 (6) ◽  
pp. 1307-1310 ◽  
Author(s):  
Xin-Qiang Guo ◽  
Rong Li ◽  
Liu-Qiang Zheng ◽  
Dong-Qing Lin ◽  
Ji-Quan Sun ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Fatty Acid Profiles ◽  
Gram Stain ◽  
Rrna Gene Sequence ◽  
Phenotypic Characteristics ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis

A Gram-stain-positive, oxidase- and catalase-positive, non-motile, non-spore-forming, halotolerant, coccoid bacterium, designated strain NY-2T, was isolated from a seaside soil sample from Shandong Province, China. Strain NY-2T was able to grow in the presence of 0–23 % (w/v) NaCl and at pH 4.5–10.0 and 5–42 °C; optimum growth was observed with 3–8 % (w/v) total salts and at pH 6.5–8.0 and 28–37 °C. Chemotaxonomic analyses, including fatty acid profiles, menaquinones and polar lipids, supported the affiliation of strain NY-2T to the genus Jeotgalicoccus. The predominant menaquinone of strain NY-2T was menaquinone 7 (MK-7) (100 %) and the major cellular fatty acids were iso-C15 : 0 (49.0 %) and anteiso-C15 : 0 (19.6 %). Cellular polar lipids were phosphatidylglycerol, diphosphatidylglycerol and several unidentified phospholipids. The DNA G+C content of strain NY-2T was 36.8 mol%. Based on 16S rRNA gene sequence analysis, strain NY-2T formed a coherent cluster with Jeotgalicoccus marinus JSM 076033T, Jeotgalicoccus halotolerans YKJ-101T and Jeotgalicoccus psychrophilus YKJ-115T. Phylogenetic analysis, DNA–DNA relatedness data, phenotypic characteristics and chemotaxonomic data indicated that strain NY-2T (=CCTCC AB 208288T =JCM 15687T) should be classified as the type strain of a novel species of the genus Jeotgalicoccus, for which the name Jeotgalicoccus huakuii sp. nov. is proposed.

scholarly journals Slackia equolifaciens sp. nov., a human intestinal bacterium capable of producing equol

2010 ◽  
Vol 60 (8) ◽  
pp. 1721-1724 ◽  
Author(s):  
Jong-Sik Jin ◽  
Maki Kitahara ◽  
Mitsuo Sakamoto ◽  
Masao Hattori ◽  
Yoshimi Benno
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Dimethyl Acetal ◽  
Rrna Gene ◽  
Intestinal Bacterium ◽  
Rrna Gene Sequence ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis ◽  
Bacterium Strain

An equol-producing bacterium, strain DZET, which was isolated from human faeces, was characterized by morphological, biochemical and molecular methods. The isolate was Gram-positive, obligately anaerobic, non-spore-forming, asaccharolytic and rod-shaped. 16S rRNA gene sequence analysis showed 92.8, 91.0, 91.1 and 90.6 % similarities with Slackia faecicanis, Slackia exigua, Slackia heliotrinireducens and Slackia isoflavoniconvertens, respectively. Based on these data, we propose a novel species of the genus Slackia, Slackia equolifaciens sp. nov. The major cellular fatty acids are C14 : 0, C18 : 1 ω9c and C18 : 1 ω9c DMA (dimethyl acetal). The DNA G+C content of the strain is 60.8 mol%. The type strain of S. equolifaciens sp. nov. is DZET (=JCM 16059T =CCUG 58231T).

scholarly journals Treponema berlinense sp. nov. and Treponema porcinum sp. nov., novel spirochaetes isolated from porcine faeces

2005 ◽  
Vol 55 (4) ◽  
pp. 1675-1680 ◽  
Author(s):  
Marcel Nordhoff ◽  
David Taras ◽  
Moritz Macha ◽  
Karsten Tedin ◽  
Hans-Jürgen Busse ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Bacterial Strains ◽  
Gene Sequence Analysis ◽  
Sequence Similarities

Limit-dilution procedures were used to isolate seven, helically coiled bacterial strains from faeces of swine that constituted two unidentified taxa. Comparative 16S rRNA gene sequence analysis showed highest similarity values with species of the genus Treponema indicating that the isolates are members of this genus. Strain 7CPL208T, as well as five further isolates, and 14V28T displayed the highest 16S rRNA gene sequence similarities with Treponema pectinovorum ATCC 33768T (92·3 %) and Treponema parvum OMZ 833T (89·9 %), respectively. Polar lipid profiles distinguished 7CPL208T and 14V28T from each other as well as from related species. Based on their phenotypic and genotypic distinctiveness, strains 7CPL208T and 14V28T are suggested to represent two novel species of the genus Treponema, for which the names Treponema berlinense sp. nov. and Treponema porcinum sp. nov. are proposed. The type strain for Treponema berlinense is 7CPL208T (=ATCC BAA-909T=CIP 108244T=JCM 12341T) and for Treponema porcinum 14V28T (=ATCC BAA-908T=CIP 108245T=JCM 12342T).

scholarly journals Microbacterium deminutum sp. nov., Microbacterium pumilum sp. nov. and Microbacterium aoyamense sp. nov.

2006 ◽  
Vol 56 (9) ◽  
pp. 2113-2117 ◽  
Author(s):  
Akiko Kageyama ◽  
Yoko Takahashi ◽  
Satoshi Ōmura
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Agar Plate ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Bacterial Strains ◽  
Mycolic Acids ◽  
Gene Sequence Analysis ◽  
Diamino Acid

Three novel bacterial strains were isolated from a soil sample collected in Japan by culture on a GPM agar plate supplemented with superoxide dismutase and catalase. The strains were Gram-positive, catalase-positive, non-motile bacteria with l-ornithine as a diagnostic diamino acid of the peptidoglycan. The acyl type of the peptidoglycan was N-glycolyl. The major menaquinones were MK-12, 13 and 14. Mycolic acids were not detected. G+C contents of the DNA were in the range 69–71 mol%. Comparative 16S rRNA gene sequence analysis revealed that the isolates belonged to the genus Microbacterium and were closely related to Microbacterium terregens, Microbacterium aurum, Microbacterium koreense, Microbacterium schleiferi and Microbacterium lacticum. However, M. aurum, M. koreense and M. lacticum clearly differed from the isolated strains based on the presence of l-lysine as the cell-wall diamino acid and various other chemotaxonomic characteristics. Levels of DNA–DNA relatedness showed that the isolated strains represented three separate genomic species. Based on both phenotypic and genotypic data, the following novel species of the genus Microbacterium are proposed: Microbacterium deminutum sp. nov. (type strain KV-483T=NRRL B-24453T=NBRC 101278T), Microbacterium pumilum sp. nov. (type strain KV-488T=NRRL B-24452T=NBRC 101279T) and Microbacterium aoyamense sp. nov. (type strain KV-492T=NRRL B-24451T=NBRC 101280T).

scholarly journals Kocuria atrinae sp. nov., isolated from traditional Korean fermented seafood

2010 ◽  
Vol 60 (4) ◽  
pp. 914-918 ◽  
Author(s):  
Eun-Jin Park ◽  
Min-Soo Kim ◽  
Seong Woon Roh ◽  
Mi-Ja Jung ◽  
Jin-Woo Bae
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Optimal Growth ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis ◽  
Kocuria Rosea ◽  
Type Strains ◽  
Kocuria Rhizophila

A novel actinobacterium, strain P30T, was isolated from jeotgal, a traditional Korean fermented seafood. Cells were aerobic, Gram-positive, non-motile and coccoid. Optimal growth occurred at 30–37 °C, at pH 8–9 and in the presence of 0–2 % (w/v) NaCl. Based on 16S rRNA gene sequence analysis, strain P30T was phylogenetically closely related to Kocuria carniphila, Kocuria gwangalliensis, Kocuria rhizophila, Kocuria marina, Kocuria rosea and K. varians with levels of similarity of 98.6, 98.2, 98.1, 97.4, 97.3 and 97.3 %, respectively, to the type strains of these species. Levels of DNA–DNA relatedness between strain P30T and the type strains of K. carniphila, K. rhizophila, K. marina, K. rosea and K. varians were 37, 43, 37, 25 and 17 %, respectively. The predominant menaquinone of strain P30T was MK-7. Major cellular fatty acids were anteiso-C15 : 0, iso-C15 : 0 and iso-C16 : 0. The genomic DNA G+C content of strain P30T was 70.2 mol%. Based on these data, strain P30T is considered to represent a novel species of the genus Kocuria, for which the name Kocuria atrinae sp. nov. is proposed. The type strain is P30T (=KCTC 19594T=JCM 15914T).

scholarly journals Flavobacterium daejeonense sp. nov. and Flavobacterium suncheonense sp. nov., isolated from greenhouse soils in Korea

2006 ◽  
Vol 56 (7) ◽  
pp. 1645-1649 ◽  
Author(s):  
Byung-Yong Kim ◽  
Hang-Yeon Weon ◽  
Sylvie Cousin ◽  
Seung-Hee Yoo ◽  
Soon-Wo Kwon ◽  
...  
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Bacterial Strains ◽  
Phenotypic Data ◽  
Gene Sequence Analysis ◽  
Greenhouse Soils ◽  
Sequence Similarities

Two yellow-pigmented, Gram-negative, rod-shaped bacterial strains, GH1-10T and GH29-5T, were isolated from greenhouse soils in Korea. 16S rRNA gene sequence analysis indicated that these strains were related to members of the genus Flavobacterium. Strain GH1-10T was most closely related to Flavobacterium psychrolimnae and Flavobacterium denitrificans, with sequence similarities of 95.9 and 95.2 %, respectively. Strain GH29-5T was most closely related to ‘Flavobacterium saliodium’, F. denitrificans and Flavobacterium frigoris, with sequence similarities of 94.3, 92.5 and 92.5 %, respectively. The major cellular fatty acids of GH1-10T were iso-C15 : 0, summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1 ω7c) and iso-C17 : 0 3-OH, and those of GH29-5T were iso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 1 G and iso-C15 : 0 3-OH. Both strains contained menaquinone with six isoprene units (MK-6) as the sole quinone. The DNA G+C contents of GH1-10T and GH29-5T were 35 and 39 mol%, respectively. Based on the phylogenetic and phenotypic data presented, it is concluded that the two bacteria represent two separate novel species of the genus Flavobacterium. The names proposed to accommodate these organisms are Flavobacterium daejeonense sp. nov., with type strain GH1-10T (=KACC 11422T=DSM 17708T), and Flavobacterium suncheonense sp. nov., with type strain GH29-5T (=KACC 11423T=DSM 17707T).

scholarly journals Agromyces soli sp. nov., isolated from farm soil

2011 ◽  
Vol 61 (6) ◽  
pp. 1286-1292 ◽  
Author(s):  
Myungjin Lee ◽  
Leonid N. Ten ◽  
Sung-Geun Woo ◽  
Joonhong Park
Keyword(s):  
Cell Wall ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Unidentified Phospholipid ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis

A Gram-positive, aerobic to microaerophilic, non-motile bacterial strain, designated MJ21T, was isolated from farm soil and was characterized to determine its taxonomic position by using a polyphasic approach. On the basis of 16S rRNA gene sequence analysis, strain MJ21T was placed within the genus Agromyces, and exhibited relatively high levels of similarity to Agromyces ulmi XIL01T (97.8 %), Agromyces aurantiacus YIM 21741T (97.1 %), Agromyces mediolanus JCM 3346T (96.7 %), A. mediolanus JCM 1376 (99.1 %), A. mediolanus JCM 9632 (99.1 %), A. mediolanus JCM 9633 (98.9 %) and A. mediolanus JCM 9631 (96.5 %). Chemotaxonomic data also supported the classification of strain MJ21T within the genus Agromyces. The new isolate contained MK-12 as the predominant menaquinone and rhamnose, galactose and xylose as cell-wall sugars. The major cellular fatty acids (>10 % of the total) were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0. Cell-wall amino acids were 2,4-diaminobutyric acid, glutamic acid, glycine and alanine. Diphosphatidylglycerol, phosphatidylglycerol, two unknown glycolipids and one unidentified phospholipid were detected as polar lipids. The DNA G+C content of strain MJ21T was 73.4 mol%. However, levels of DNA–DNA relatedness between strain MJ21T and the seven phylogenetically closest Agromyces strains ranged from 14 to 56 %, showing clearly that the new isolate represents a novel genomic species. Strain MJ21T could be differentiated clearly from its phylogenetic neighbours on the basis of phenotypic, genotypic and chemotaxonomic features. Therefore, strain MJ21T is considered to represent a novel species of the genus Agromyces, for which the name Agromyces soli sp. nov. is proposed. The type strain is MJ21T ( = KCTC 19549T  = JCM 16247T).

scholarly journals Amycolatopsis stemonae sp. nov., isolated from a Thai medicinal plant

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 3894-3899 ◽  
Author(s):  
Nattaporn Klykleung ◽  
Somboon Tanasupawat ◽  
Pattama Pittayakhajonwut ◽  
Moriya Ohkuma ◽  
Takuji Kudo
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis ◽  
Actinomycete Strain ◽  
Genotypic Characteristics ◽  
The 16S Rrna Gene

A novel actinomycete, strain ST1-08T, was isolated from the stem of Stemona sp. in Thailand. The taxonomic position of this isolate was determined by using a polyphasic approach. Strain ST1-08T contained meso-diaminopimelic acid in the cell-wall peptidoglycan, and arabinose and galactose as diagnostic sugars of the whole-cell hydrolysate, which are typical properties of members of the genus Amycolatopsis. Strain ST1-08T grew at 15–40 °C, pH 6–9 and on 5 % (w/v) NaCl. Gelatin liquefaction, starch hydrolysis and skimmed milk peptonization were positive. The strain utilized l-arabinose, d-glucose, glycerol, myo-inositol, d-mannitol and l-rhamnose. The predominant menaquinone was MK-9(H4) and the major cellular fatty acids were iso-C16 : 0 and iso-C15 : 0.The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, hydroxyl-phosphatidylethanolamine, phosphatidylinositol and phosphatidylglycerol. The 16S rRNA gene sequence analysis revealed that the strain was closely related to Amycolatopsis pretoriensis JCM 12673T (98.99 %) and Amycolatopsis lexingtonensis JCM 12672T (98.87 %). The DNA G+C content of strain ST1-08T was 71.2 mol%. The DNA–DNA relatedness values among strain ST1-08T, A. pretoriensis JCM 12673T and A. lexingtonensis JCM 12672T were lower than 70 %, the cut-off level for assigning strains to the same species. On the basis of phenotypic and genotypic characteristics, strain ST1-08T represents a novel species of the genus Amycolatopsis, for which the name Amycolatopsis stemonae is proposed. The type strain is ST1-08T( = JCM 30050T = PCU 339T = TISTR 2278T).

scholarly journals Sphingomonas lacus sp. nov., an astaxanthin-dideoxyglycoside-producing species isolated from soil near a pond

2015 ◽  
Vol 65 (Pt_9) ◽  
pp. 2824-2830 ◽  
Author(s):  
Jin Ho Kim ◽  
Se Hyeuk Kim ◽  
Kyong Ho Kim ◽  
Pyung Cheon Lee
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Rrna Gene Sequence ◽  
Cellular Fatty Acids ◽  
Gram Staining ◽  
Gene Sequence Analysis ◽  
Taxonomic Studies ◽  
Ubiquinone 10

Taxonomic studies were performed on an astaxanthin-dideoxyglycoside-producing strain, designated PB304T, isolated from soil near a pond in Daejeon city, South Korea. Cells of strain PB304T were Gram-staining-negative, strictly aerobic, orange-coloured and motile, and occurred as single or paired short chains. PB304T did not contain bacteriochlorophyll a. 16S rRNA gene sequence analysis revealed that strain PB304T was closely related to ‘Sphingomonas humi’ KCTC 12341 (98.7 %), Sphingomonas kaistensis KCTC 12344T (97.9 %), Sphingomonas astaxanthinifaciens DSM 22298T (97.6 %) and Sphingomonas ginsengisoli KCTC 12630T (97.5 %). Analysis of pufLM gene sequences revealed strain PB304T to be closely related to ‘S. humi’ KCTC 12341 (88.1 %). The major cellular fatty acids were C16 : 0, summed feature 4 (comprising iso-C15 : 0 2-OH and/or C16 : 1ω7c), and summed feature 7 (comprising C18 : 1ω7c/ω9t/ω12t). Ubiquinone 10 (Q-10) was the sole quinone identified, and the major pigment was astaxanthin dideoxyglycoside. The major polar lipids were sphingoglycolipid, phosphatidylcholine, phosphatidylglycerol, diphosphatidylglycerol and phosphatidylethanolamine. The polyamine was spermidine. The DNA–DNA relatedness values of strain PB304T with respect to its closest phylogenetic neighbours were 57.1 % for ‘S. humi’ KCTC 12341, 51.2 % for Sphingomonas kaistensis KCTC 12334T, 50.6 % for Sphingomonas astaxanthinifaciens DSM 22298T and 50.2 % for Sphingomonas ginsengisoli KCTC 12630T. The DNA G+C content of strain PB304T was 66.6 mol%. On the basis of the phenotypic, chemotaxonomic and phylogenetic data, strain PB304T is concluded to represent a novel species of the genus Sphingomonas, for which the name Sphingomonas lacus is proposed. The type strain is PB304T ( = KCTC 32458T = CECT 8383T).

scholarly journals Paenibacillus antarcticus sp. nov., a novel psychrotolerant organism from the Antarctic environment

2004 ◽  
Vol 54 (5) ◽  
pp. 1521-1526 ◽  
Author(s):  
Ma Jesús Montes ◽  
Elena Mercadé ◽  
Núria Bozal ◽  
Jesús Guinea
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Phylogenetic Analyses ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Major Cellular Fatty Acid ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
The Antarctic

An endospore-forming strain, 20CMT, was isolated from Antarctic sediment and identified as a member of the genus Paenibacillus on the basis of phenotypic and phylogenetic analyses. The organism stained Gram-variable and was facultatively anaerobic. Strain 20CMT was psychrotolerant, growing optimally at 10–15 °C. Like other Paenibacillus species, it contained anteiso-C15 : 0 as the major cellular fatty acid. The DNA G+C content was 40·7 mol%. 16S rRNA gene sequence analysis placed strain 20CMT within the Paenibacillus cluster, with a similarity value of 99·5 % to Paenibacillus macquariensis DSM 2T. DNA–DNA hybridization experiments between the Antarctic isolate and P. macquariensis DSM 2T revealed a reassociation value of 47 %, indicating that strain 20CMT and P. macquariensis DSM 2T belong to different species. Based on evaluation of morphological, physiological, chemotaxonomic and phylogenetic analyses, a novel species, Paenibacillus antarcticus sp. nov., is proposed; the type strain is 20CMT (=LMG 22078T=CECT 5836T).

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