scholarly journals Paenibacillus xanthinilyticus sp. nov., isolated from agricultural soil

2015 ◽  
Vol 65 (Pt_9) ◽  
pp. 2937-2942 ◽  
Author(s):  
Dong-uk Kim ◽  
Song-Gun Kim ◽  
Hyosun Lee ◽  
Jongsik Chun ◽  
Jang-Cheon Cho ◽  
...  
Keyword(s):  
Agricultural Soil ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Respiratory Quinone ◽  
Polar Lipid Profile ◽  
Gene Sequence Analysis ◽  
Diamino Acid

A bacterial strain designated 11N27T was isolated from an agricultural soil sample. Cells of this strain were Gram-reaction-variable, facultatively anaerobic, endospore-forming, white-pigmented, peritrichously flagellated and hydrolysed xanthine. The major fatty acids of strain 11N27T were anteiso-C15 : 0, iso-C16 : 0 and C16 : 0. The polar lipid profile contained phosphatidylethanolamine, two unknown phospholipids, two unknown aminolipids, one unknown aminophospholipid and two unknown polar lipids. The G+C content of the genomic DNA of strain 11N27T was 50.3 mol%. MK-7 was the predominant respiratory quinone. meso-Diaminopimelic acid was the diagnostic diamino acid in the peptidoglycan. 16S rRNA gene sequence analysis showed that strain 11N27T was phylogenetically related to Paenibacillus mendelii C/2T (96.2  % sequence similarity) and Paenibacillus sepulcri CMM 7311T (96.0  %). The genotypic and phenotypic data showed that strain 11N27T could be distinguished from phylogenetically related species and that this strain represents a novel species of the genus Paenibacillus. The name Paenibacillus xanthinilyticus sp. nov. is proposed with the type strain 11N27T( = KACC 17935T = NBRC 109108T).

scholarly journals Paenibacillus ripae sp. nov., isolated from bank side soil

2015 ◽  
Vol 65 (Pt_12) ◽  
pp. 4757-4762 ◽  
Author(s):  
Ying Sun ◽  
Zhaohui Guo ◽  
Qi Zhao ◽  
Qiyu Gao ◽  
QinJian Xie ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Optimum Ph ◽  
Pr China ◽  
Diamino Acid

A Gram-stain-variable, rod-shaped, non-motile and endospore-forming bacterium, designated strain HZ1T, was isolated from a sample of bank side soil from Hangzhou city, Zhejiang province, PR China. On the basis of 16S rRNA gene sequence analysis, strain HZ1T was closely related to members of the genus Paenibacillus, sharing the highest levels of sequence similarity with Paenibacillus agarexedens DSM 1327T (94.4 %), Paenibacillus sputi KIT00200-70066-1T (94.4 %). Growth occurred at 15–42 °C (optimum 30–37 °C), pH 5.0–9.5 (optimum pH 7.0–8.0) and NaCl concentrations of up to 6.0 % (w/v) were tolerated (optimum 0.5 %). The dominant respiratory quinone was MK-7 and the DNA G+C content was 40.1 mol%. The major fatty acids were anteiso-C15 : 0 and iso-C16 : 0. The major polar lipids of strain HZ1T were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and several unknown lipids. The diagnostic diamino acid found in the cell-wall peptidoglycan was meso-diaminopimelic acid. Based on its phenotypic and chemotaxonomic characteristics and phylogenetic data, strain HZ1T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus ripae sp. nov. (type strain HZ1T = CCTCC AB 2014276T = LMG 28639T) is proposed.

Terrabacter carboxydivorans sp. nov., a carbon monoxide-oxidizing actinomycete

2011 ◽  
Vol 61 (3) ◽  
pp. 482-486 ◽  
Author(s):  
Sung M. Kim ◽  
Sae W. Park ◽  
Sang T. Park ◽  
Young M. Kim
Keyword(s):  
Carbon Monoxide ◽  
Dna Hybridization ◽  
Gene Sequence ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Gene Sequence Analysis ◽  
Diamino Acid ◽  
Type Strains

A bacterial strain, PY2T, capable of oxidizing carbon monoxide, was isolated from a soil sample collected from a roadside at Yonsei University, Seoul, Korea. On the basis of 16S rRNA gene sequence analysis, strain PY2T was shown to belong to the genus Terrabacter and was most closely related to Terrabacter lapilli LR-26T (99.1 % similarity). Strain PY2T was characterized chemotaxonomically as having iso-C15 : 0 as the predominant fatty acid, MK-8(H4) as the major menaquinone, ll-diaminopimelic acid as the diagnostic diamino acid of the cell wall, as possessing a polar lipid profile that included diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol and unknown amino-containing phosphoglycolipids, and having a DNA G+C content of 75.6 mol%. DNA–DNA relatedness values between strain PY2T and the type strains of T. lapilli, Terrabacter tumescens, Terrabacter terrae and Terrabacter aerolatus were 20.0 %, 22.9 %, 35.9 % and 64.5 %, respectively. Based on the combined evidence from the phylogenetic analyses, chemotaxonomic data and DNA–DNA hybridization experiments, it is proposed that strain PY2T represents a novel species for which the name Terrabacter carboxydivorans sp. nov. is proposed. The type strain is PY2T (=KCCM 42922T=JCM 16259T).

scholarly journals Nocardioides ginsengagri sp. nov., isolated from the soil of a ginseng field

2012 ◽  
Vol 62 (Pt_3) ◽  
pp. 591-595 ◽  
Author(s):  
Sang-Hee Lee ◽  
Qing-Mei Liu ◽  
Sung-Taik Lee ◽  
Sun-Chang Kim ◽  
Wan-Taek Im
Keyword(s):  
Gene Sequence ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Data ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Bacterium Strain

A Gram-reaction-positive, rod-shaped, non-motile, non-spore-forming bacterium (strain BX5-10T) was isolated from the soil of a ginseng field on Baekdu Mountain in Jilin district, China. The taxonomic position of this bacterium was determined in an investigation based on a polyphasic approach. On the basis of 16S rRNA gene sequence analysis, strain BX5-10T was shown to belong to the family Nocardioidaceae and to be most closely related to Nocardioides plantarum NCIMB 12834T (96.5 % sequence similarity), Nocardioides dokdonensis KCTC 19309T (96.2 %) and Nocardioides fonticola NAA-13T (95.1 %). Strain BX5-10T was characterized chemotaxonomically as having ll-2,6-diaminopimelic acid in its cell-wall peptidoglycan, MK-8(H4) as the predominant menaquinone and C18 : 1ω9c, C16 : 0 and C17 : 1ω8c as its major fatty acids. The G+C content of the genomic DNA was 70.3 mol%. The novel strain could be differentiated genotypically and phenotypically from all recognized species of the genus Nocardioides. Based on the results of the phylogenetic analyses and the genotypic and phenotypic data, a novel species, Nocardioides ginsengagri sp. nov., is proposed. The type strain is BX5-10T ( = KCTC 19467T = DSM 21362T).

scholarly journals Bacillus formosensis sp. nov., isolated from pesticide wastewater

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 3800-3805 ◽  
Author(s):  
Shih-Yao Lin ◽  
Asif Hameed ◽  
You-Cheng Liu ◽  
Yi-Han Hsu ◽  
Wei-An Lai ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Wastewater Sample ◽  
Major Polar Lipid ◽  
Gram Stain ◽  
Rrna Gene Sequence ◽  
Respiratory Quinone ◽  
Polar Lipid Profile

A Gram-stain-positive, endospore-forming rod (designated strain CC-LY275T) was isolated from a pesticide wastewater sample. The isolate grew at a temperature 20–45 °C, at pH 7.0–8.0 and tolerated NaCl 6 % (w/v). The most closely related strains in terms of 16S rRNA gene sequence similarity were Bacillus horneckiae (97.1 %) and Bacillus oceanisediminis (96.8 %), respectively. The G+C content of the genomic DNA was 37.9 mol%. Strain CC-LY275T was determined to possess iso-C14 : 0, iso-C15 : 0 and anteiso-C15 : 0 as predominant fatty acids. The major polar lipid profile consisted of diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol. Cell-wall peptidoglycan contained meso-diaminopimelic acid; menaquinone (MK-7) was the predominant respiratory quinone. According to the distinct phylogenetic, phenotypic and chemotaxonomic properties, the name Bacillus formosensis sp. nov. (type strain CC-LY275T = BCRC 80443T = JCM 18448T) is proposed.

scholarly journals Paenibacillus medicaginis sp. nov. a chitinolytic endophyte isolated from a root nodule of alfalfa (Medicago sativa L.)

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 3853-3860 ◽  
Author(s):  
Wei-An Lai ◽  
Asif Hameed ◽  
Shih-Yao Lin ◽  
Mei-Hua Hung ◽  
Yi-Han Hsu ◽  
...  
Keyword(s):  
Medicago Sativa ◽  
Root Nodule ◽  
Sequence Similarity ◽  
Endophytic Bacterium ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Diamino Acid

A Gram-stain-variable, short-rod-shaped, endospore-forming, strictly aerobic, non-motile, chitinolytic and endophytic bacterium, designated strain CC-Alfalfa-19T, exhibiting unusual bipolar appendages was isolated from a root nodule of alfalfa (Medicago sativa L.) in Taiwan and subjected to a polyphasic taxonomic study. Based on 16S rRNA gene sequence analysis, strain CC-Alfalfa-19T was found to be most closely related to Paenibacillus puldeungensis CAU 9324T (95.2 %), whereas other species of the genus Paenibacillus shared ≤ 95.0 % sequence similarity. The phylogenetic analysis revealed a distinct phyletic lineage established by strain CC-Alfalfa-19T with respect to other species of the genus Paenibacillus. Fatty acids comprised predominantly anteiso-C15 : 0, C16 : 0, anteiso-C17 : 0 and iso-C16 : 0. Menaquinone 7 (MK-7) was identified as the sole respiratory quinone and the genomic DNA G+C content was 42.7 mol%. Polar lipids included diphosphatidylglycerol, phosphatidylglycerol, phosphatidylmonomethylethanolamine, phosphatidylethanolamine, an unidentified glycolipid and an unidentified lipid. The diagnostic diamino acid found in the cell-wall peptidoglycan was meso-diaminopimelic acid. Based on the polyphasic taxonomic evidence that was in line with the genus Paenibacillus and additional distinguishing characteristics, strain CC-Alfalfa-19T is considered to represent a novel species, for which the name Paenibacillus medicaginis sp. nov. (type strain CC-Alfalfa-19T = BCRC 80441T = JCM 18446T) is proposed.

scholarly journals Paenibacillus sputi sp. nov., isolated from the sputum of a patient with pulmonary disease

2010 ◽  
Vol 60 (10) ◽  
pp. 2371-2376 ◽  
Author(s):  
Kwang Kyu Kim ◽  
Keun Chul Lee ◽  
Heekyung Yu ◽  
Sungweon Ryoo ◽  
Youngkil Park ◽  
...  
Keyword(s):  
Pulmonary Disease ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Data ◽  
Polar Lipid Profile ◽  
Diamino Acid

Strain KIT 00200-70066-1T was isolated from the sputum of a patient with pulmonary disease. Cells of the strain were Gram-variable, facultatively anaerobic, motile, spore-forming rods and formed colourless to white colonies on tryptic soy agar at 30 °C and pH 7. The pathogenicity of the strain is not known. The strain contained meso-diaminopimelic acid as the diagnostic diamino acid in the cell-wall peptidoglycan, MK-7 as the predominant menaquinone, anteiso-C15 : 0, iso-C16 : 0 and C16 : 0 as the major fatty acids and diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and several unknown lipids in the polar lipid profile. Phylogenetic analysis based on 16S rRNA gene sequences showed that the isolate belongs to the genus Paenibacillus, sharing the highest levels of sequence similarity with Paenibacillus nanensis MX2-3T, Paenibacillus agaridevorans DSM 1355T and Paenibacillus alkaliterrae KSL-134T (95.4, 95.2 and 94.8 %, respectively), and that it occupied a distinct position within this genus. Combined phylogenetic and phenotypic data supported the conclusion that strain KIT 00200-70066-1T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus sputi sp. nov. is proposed; the type strain is KIT 00200-70066-1T (=KCTC 13252T =DSM 22699T).

scholarly journals Bacillus lycopersici sp. nov., isolated from a tomato plant (Solanum lycopersicum L.)

2015 ◽  
Vol 65 (Pt_7) ◽  
pp. 2085-2090 ◽  
Author(s):  
Shih-Yao Lin ◽  
Asif Hameed ◽  
You-Cheng Liu ◽  
Cheng-Zhe Wen ◽  
Wei-An Lai ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Unidentified Phospholipid ◽  
Respiratory Quinone ◽  
Polar Lipid Profile ◽  
Solanum Lycopersicum L

A Gram-stain-positive, rod-shaped, endospore-forming bacterium (designated strain CC-Bw-5T) was isolated from chopped tomato stems. The isolate grew at 20–40 °C, pH 6.0–8.0 and tolerated 6  % (w/v) NaCl. The most closely related strains in terms of 16S rRNA gene sequence similarity were Bacillus isabeliae (95.3  %) and Bacillus oleronius (95.3  %). The G+C content of the genomic DNA was 37.2 ± 3.6 mol%. Strain CC-Bw-5T was determined to possess C16 : 0, iso-C14 : 0, iso-C15 : 0, anteiso-C15 : 0 and iso-C16 : 0 as predominant fatty acids. The polar lipid profile consisted of predominant amounts of diphosphatidylglycerol, and moderate-to-trace amounts of phosphatidylethanolamine, phosphatidylglycerol, two unidentified glycolipids, an unidentified phospholipid and an unidentified phosphoglycolipid. The cell-wall peptidoglycan contained meso-diaminopimelic acid; menaquinone (MK-7) was the predominant respiratory quinone. According to distinct phylogenetic, phenotypic and chemotaxonomic features, strain CC-Bw-5T is proposed to represent a novel species within the genus Bacillus for which the name Bacillus lycopersici sp. nov. is proposed. The type strain is CC-Bw-5T ( = BCRC 80623T = JCM 19140T).

scholarly journals Aquipuribacter nitratireducens sp. nov., isolated from a soil sample of a mud volcano

2015 ◽  
Vol 65 (Pt_8) ◽  
pp. 2391-2396 ◽  
Author(s):  
T.N.R. Srinivas ◽  
P. Anil Kumar ◽  
M. Tank ◽  
B. Sunil ◽  
Manasa Poorna ◽  
...  
Keyword(s):  
Soil Sample ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Pairwise Alignment ◽  
Diaminopimelic Acid ◽  
Mud Volcano ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Diamino Acid

A novel Gram-stain-positive, coccoid, non-motile bacterium, designated strain AMV4T, was isolated from a soil sample collected from a mud volcano located in the Andaman Islands, India. The colony was pale orange. Strain AMV4T was positive for oxidase, aesculinase, lysine decarboxylase and ornithine decarboxylase activities and negative for amylase, catalase, cellulase, protease, urease and lipase activities. 16S rRNA gene sequence analysis indicated that strain AMV4T was a member of the order Actinomycetales and was closely related to Aquipuribacter hungaricus with a sequence similarity of 97.13 % (pairwise alignment). Phylogenetic analyses showed that strain AMV4T clustered with Aquipuribacter hungaricus and was distantly related to the other genera of the family Intrasporangiaceae. DNA–DNA hybridization between strains AMV4T and Aquipuribacter hungaricus IV-75T showed a relatedness of 28 %. The predominant cellular fatty acids were iso-C15 : 0 (6.9 %), anteiso-C15 : 0 (25.3 %), C16 : 0 (12.9 %), anteiso-C16 : 0 (5.6 %), C18 : 1ω9c (19.8 %) and C18 : 3ω6,9,12c (9.1 %). The diagnostic diamino acid in the cell-wall peptidoglycan of strain AMV4T was meso-diaminopimelic acid. Strain AMV4T contained MK-10(H4) as the predominant respiratory quinone. The polar lipids consisted of phosphatidylglycerol, one unidentified glycolipid, two unidentified phospholipids and five unidentified lipids. The DNA G+C content of strain AMV4T was 74.3 mol%. Based on data from this taxonomic study using a polyphasic approach, it is proposed that strain AMV4T represents a novel species of the genus Aquipuribacter, with the suggested name Aquipuribacter nitratireducens sp. nov. The type strain is AMV4T ( = CCUG 58430T = DSM 22863T = NBRC 107137T).

scholarly journals Streptomyces Grisecoloratus Sp. Nov., a New Bacterium Isolated From Soil in Cotton Fields in Xinjiang, China

2021 ◽  
Author(s):  
Li Xing ◽  
Ying-Ying Xia ◽  
Qiao-Yan Zhang ◽  
Zhan Feng Xia ◽  
Chuan-Xing Wan ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Novel Bacterium ◽  
Gene Sequence Analysis ◽  
Diamino Acid ◽  
Cotton Fields

Abstract A novel bacterium of the Streptomyces genus, designated TRM S81-3T, was isolated from soil in cotton fields of Xinjiang, China. Comparative 16S rRNA gene sequence analysis indicated that strain TRM S81-3T ismost closely related to Streptomyces naganishii NBRC 12892T (98.96% sequence similarity); however, the average nucleotide identity (ANI) between strains TRM S81-3T and S. naganishii NBRC 12892T is relatively low (86.26%). Strain TRM S81-3T possesses LL-diaminopimelic acid as the diagnostic cell-wall diamino acid, MK-9(H4), MK-9(H6), and MK-9(H10) as the major menaquinones, and polar lipids including DPG, PE, PC, PI, PME, NPG and PL. The major fatty acids are iso-C16:0, anteiso-C15:0, anteiso-C17:1 ω9c, anteiso-C17:0, iso-C15:0, and C14:0. The genomic DNA G+C content is 72.1%. Based on the evidence from this polyphasic study, strain TRM S81-3T represents a novel species of Streptomyces, for which the name Streptomyces grisecoloratus is proposed. The type strain is TRM S81-3T (=CCTCC AA 2020002T=LMG 31942T).

scholarly journals Brevibacterium salitolerans sp. nov., an actinobacterium isolated from salt-lake sediment

2010 ◽  
Vol 60 (12) ◽  
pp. 2991-2995 ◽  
Author(s):  
Tong-Wei Guan ◽  
Ke Zhao ◽  
Jing Xiao ◽  
Ying Liu ◽  
Zhan-Feng Xia ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Salt Lake ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Novel Bacterium ◽  
Gene Sequence Analysis ◽  
Diamino Acid

A novel bacterium, designated TRM 415T, belonging to the genus Brevibacterium, was isolated from a sediment sample from a salt lake in Xinjiang province, China. Comparative 16S rRNA gene sequence analysis indicated that strain TRM 415T was phylogenetically most closely related to Brevibacterium album YIM 90718T (98.4 % sequence similarity) and had low similarity (<95.5 %) to other species of the genus Brevibacterium; however, DNA–DNA hybridization studies between strain TRM 415T and B. album YIM 90718T showed only 41.3 % relatedness. Strain TRM 415T possessed meso-diaminopimelic acid as the diagnostic cell-wall diamino acid, MK-8(H2) as the major menaquinone and polar lipids including phosphatidylglycerol and diphosphatidylglycerol. The major fatty acids were anteiso-C17 : 0 and anteiso-C15 : 0. The genomic DNA G+C content was 69 mol%. Based on the evidence from this polyphasic study, strain TRM 415T represents a novel species of the genus Brevibacterium, for which the name Brevibacterium salitolerans sp. nov. is proposed. The type strain is TRM 415T (=JCM 15900T =CCTCC AB 208328T =KCTC 19616T).

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