scholarly journals Lysinibacillus macroides sp. nov., nom. rev.

2012 ◽  
Vol 62 (Pt_5) ◽  
pp. 1121-1127 ◽  
Author(s):  
An Coorevits ◽  
Anna E. Dinsdale ◽  
Jeroen Heyrman ◽  
Peter Schumann ◽  
Anita Van Landschoot ◽  
...  
Keyword(s):  
Type Species ◽  
Gene Sequence ◽  
Cow Dung ◽  
Rrna Gene ◽  
Pairwise Similarity ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Type Strains

‘Bacillus macroides’ ATCC 12905T ( = DSM 54T = LMG 18474T), isolated in 1947 from cow dung, was not included in the Approved Lists of Bacterial Names and so it lost standing in bacteriological nomenclature. Reinvestigation of the strain, including DNA–DNA relatedness experiments, revealed that ‘Bacillus macroides’ is genomically distinct from its closest relatives Lysinibacillus xylanilyticus , Lysinibacillus boronitolerans and Lysinibacillus fusiformis (as determined by 16S rRNA gene sequence analysis, with pairwise similarity values of 99.2, 98.8 and 98.5 %, respectively, with the type strains of these species). Further analysis showed that ‘Bacillus macroides’ shares the A4α l-Lys–d-Asp peptidoglycan type with other members of the genus Lysinibacillus and can thus be attributed to this genus. These results, combined with additional phenotypic data, justify the description of strain LMG 18474T ( = DSM 54T = ATCC 12905T) as Lysinibacillus macroides sp. nov., nom. rev.

scholarly journals Saccharothrix hoggarensis sp. nov., an actinomycete isolated from Saharan soil

2013 ◽  
Vol 63 (Pt_2) ◽  
pp. 549-553 ◽  
Author(s):  
Dalila Boubetra ◽  
Abdelghani Zitouni ◽  
Noureddine Bouras ◽  
Florence Mathieu ◽  
Ahmed Lebrihi ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Species ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Content Type ◽  
Saharan Soil ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Type Strains

An actinomycete, designated SA181T, was isolated from Saharan soil in the Hoggar region (south Algeria) and was characterized taxonomically by using a polyphasic approach. The morphological and chemotaxonomic characteristics of the isolate were consistent with the genus Saccharothrix , and 16S rRNA gene sequence analysis confirmed that strain SA181T was a novel member of the genus Saccharothrix . DNA–DNA hybridization values between strain SA181T and its closest phylogenetic neighbours, the type strains of Saccharothrix longispora , Saccharothrix texasensis and Saccharothrix xinjiangensis , were clearly below the 70 % threshold. The genotypic and phenotypic data showed that the isolate represents a novel species of the genus Saccharothrix , for which the name Saccharothrix hoggarensis sp. nov. is proposed, with the type strain SA181T ( = DSM 45457T  = CCUG 60214T).

scholarly journals Reclassification of Deinococcus xibeiensis Wang et al. 2010 as a heterotypic synonym of Deinococcus wulumuqiensis Wang et al. 2010

2015 ◽  
Vol 65 (Pt_3) ◽  
pp. 1083-1085 ◽  
Author(s):  
Sunhee Hong ◽  
Christine E. Farrance ◽  
Anne Russell ◽  
Hana Yi
Keyword(s):  
Type Species ◽  
Gene Sequence ◽  
Taxonomic Status ◽  
Single Species ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Type Strains ◽  
Genomic Relatedness

Two species of the genus Deinococcus , namely Deinococcus wulumuqiensis Wang et al. 2010 and Deinococcus xibeiensis Wang et al. 2010, were simultaneously proposed and described in the same publication. However, the identical 16S rRNA gene sequence of the two type strains strongly raised the probability of their relatedness at the species level. Thus, the genomic relatedness of the two species of the genus Deinococcus was investigated here to clarify their taxonomic status. The high (99.9 %) average nucleotide identity (ANI) between the genome sequences of the two type strains suggested that the two species are synonymous. Additional phenotypic data including enzymic activities and substrate-utilization profiles showed no pronounced differences between the type strains of the two species. Data from this study demonstrated that the two taxa constitute a single species. According to Rule 42 of the Bacteriological Code, we propose that D. xibeiensis Wang et al. 2010 should be reclassified as a subjective heterotypic synonym of D. wulumuqiensis Wang et al. 2010.

Mycetocola miduiensis sp. nov., a psychrotolerant bacterium isolated from Midui glacier

2013 ◽  
Vol 63 (Pt_7) ◽  
pp. 2661-2665 ◽  
Author(s):  
Lang Zhu ◽  
Qing Liu ◽  
Hongcan Liu ◽  
Yuguang Zhou ◽  
Yuhua Xin ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Species ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Psychrotolerant Bacterium ◽  
Sequence Similarities

An aerobic, asporous, flagellated, Gram-stain-positive, rod-shaped bacterium MD-T1-10-2T was isolated from the topsoil of Midui Glacier, Tibet Province, China. Phylogenetic analysis based on 16S rRNA gene sequence analysis placed the strain in a clade containing Mycetocola manganoxydans CCTCC AB 209002T, Mycetocola reblochoni DSM 18580T, Mycetocola tolaasinivorans JCM 11656T, Mycetocola lacteus JCM 11654T and Mycetocola saprophilus JCM 11655T, with the sequence similarities of 99.2, 98.1, 96.7, 96.6 and 96.4 %, respectively. DNA–DNA hybridization analysis indicated that strain MD-T1-10-2T represented a new member of this genus. The optimal ranges of temperature and pH for growth were 20–25 °C and 7.0–9.0, respectively; the strain could even grow at 0 °C. The major cellular fatty acids were anteiso-C15 : 0, iso-C16 : 0 and anteiso-C17 : 0. The predominant menaquinones were MK-10 and MK-11. The cell wall amino acids were lysine, alanine, glycine and glutamic acids. The DNA G+C content was 65.9 mol%. Based on the genotypic and phenotypic data, strain MD-T1-10-2T for which the name Mycetocola miduiensis sp. nov. is proposed; the type strain is MD-T1-10-2T ( = CGMCC 1.11101T = NBRC 107877T).

Nocardia amikacinitolerans sp. nov., an amikacin-resistant human pathogen

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 1056-1061 ◽  
Author(s):  
Ifeoma Ezeoke ◽  
Hans-Peter Klenk ◽  
Gabriele Pötter ◽  
Peter Schumann ◽  
Ben D. Moser ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Type Strains

Five nocardioform isolates from human clinical sources were evaluated. Analysis of the nearly full-length 16S rRNA gene showed 99.9–100 % similarity among the strains. The results of a comparative phylogenetic analysis of the 16S rRNA gene sequences indicated that the isolates belonged to the genus Nocardia . Phenotypic and molecular analyses were performed on the clinical isolates. Traditional phenotypic analyses included morphological, biochemical/physiological, chemotaxonomic and antimicrobial susceptibility profiling. Molecular studies included 1441-bp 16S rRNA and 1246-bp gyrB gene sequence analyses, as well as DNA–DNA hybridizations. Biochemical analysis failed to differentiate the putative novel species from its phylogenetic neighbours; however, molecular studies were able to distinguish the patient strains and confirm them as members of a single species. Based on 16S rRNA gene sequence analysis, similarity between the isolates and their closest relatives (type strains of Nocardia araoensis , N. arthritidis , N. beijingensis and N. niwae ) was ≤99.3 %. Analysis of partial gyrB gene sequences showed 98–99.7 % relatedness among the isolates. Nocardia lijiangensis and N. xishanensis were the closest related species to the isolates based on gyrB gene sequence analysis, and their type strains showed 95.7 and 95.3 % similarity, respectively, to strain W9988T. Resistance to amikacin and molecular analyses, including DNA–DNA hybridization, distinguished the five patient strains from their phylogenetic neighbours, and the results of this polyphasic study indicated the existence of a novel species of Nocardia , for which we propose the name Nocardia amikacinitolerans sp. nov., with strain W9988T ( = DSM 45539T  = CCUG 59655T) as the type strain.

scholarly journals Nocardia goodfellowii sp. nov. and Nocardia thraciensis sp. nov., isolated from soil

2012 ◽  
Vol 62 (Pt_6) ◽  
pp. 1228-1234 ◽  
Author(s):  
Anil Sazak ◽  
Nevzat Sahin ◽  
Mustafa Camas
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Soil Actinomycetes ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Type Strains

The taxonomic position of two soil actinomycetes, strains A2012T and A2019T, isolated from Turkish soils, was determined using a polyphasic approach. Comparative 16S rRNA gene sequence analysis showed that the strains belonged to the family Nocardiaceae . Strains A2012T and A2019T were most closely related to Nocardia caishijiensis DSM 44831T (98.9 %) and Nocardia mexicana CIP 108295T (98.6 %), respectively; similarity to other type strains of the genus Nocardia ranged from 96.9 to 97.9 %. However, DNA–DNA relatedness and phenotypic data demonstrated that strains A2012T and A2019T could be clearly distinguished from members of the most closely related Nocardia species. It is evident from the genotypic and phenotypic data that the two isolates represent two novel species of the genus Nocardia . It is proposed, therefore, that strains A2012T and A2019T be classified in the genus Nocardia as representatives of Nocardia goodfellowii sp. nov. (type strain A2012T = DSM 45516T = NRRL B-24833T = KCTC 19986T) and Nocardia thraciensis sp. nov. (type strain A2019T = DSM 45517T = NRRL B-24834T = KCTC 19985T), respectively.

scholarly journals Reclassification of Streptomyces fulvissimus as a later heterotypic synonym of Streptomyces microflavus

2020 ◽  
Vol 70 (9) ◽  
pp. 5156-5162 ◽  
Author(s):  
Hisayuki Komaki ◽  
Tomohiko Tamura
Keyword(s):  
Type Species ◽  
Gene Sequence ◽  
Gene Clusters ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Biosynthetic Gene Clusters ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Type Strains

We investigated the taxonomic relationships among Streptomyces fulvissimus , Streptomyces fulvorobeus and Streptomyces microflavus . These type strains shared the same 16S rRNA gene sequence. Digital DNA–DNA relatedness and average nucleotide identity analyses using whole genome sequences suggested that S. fulvissimus and S. microflavus belong to the same genomospecies, whereas S. fulvorobeus does not. In addition to previously reported phenotypic data, the presence of almost the same set of secondary metabolite-biosynthetic gene clusters for polyketides and nonribosomal peptides also supported the synonymy between S. fulvissimus and S. microflavus . Therefore, S. fulvissimus should be reclassified as a later heterotypic synonym of S. microflavus .

scholarly journals Proposal of Novosphingobium rhizosphaerae sp. nov., isolated from the rhizosphere

2015 ◽  
Vol 65 (Pt_1) ◽  
pp. 195-200 ◽  
Author(s):  
Peter Kämpfer ◽  
Karin Martin ◽  
John A. McInroy ◽  
Stefanie P. Glaeser
Keyword(s):  
Fatty Acid ◽  
Sequence Analysis ◽  
Type Species ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Type Strains

A yellow, Gram-stain-negative, rod-shaped, non-spore-forming bacterium (strain JM-1T) was isolated from the rhizosphere of a field-grown Zea mays plant in Auburn, AL, USA. 16S rRNA gene sequence analysis of strain JM-1T showed high sequence similarity to the type strains of Novosphingobium capsulatum (98.9 %), Novosphingobium aromaticivorans (97.4 %), Novosphingobium subterraneum (97.3 %) and Novosphingobium taihuense (97.1 %); sequence similarities to all other type strains of species of the genus Novosphingobium were below 97.0 %. DNA–DNA hybridizations of strain JM-1T and N. capsulatum DSM 30196T, N. aromaticivorans SMCC F199T and N. subterraneum SMCC B0478T showed low similarity values of 33 % (reciprocal: 21 %), 14 % (reciprocal 16 %) and 36 % (reciprocal 38 %), respectively. Ubiquinone Q-10 was detected as the major respiratory quinone. The predominant fatty acid was C18 : 1ω7c (71.0 %) and the typical 2-hydroxy fatty acid C14 : 0 2-OH (11.7 %) was detected. The polar lipid profile contained the diagnostic lipids diphosphatidylglycerol, phosphatidylethanolamine, sphingoglycolipid and phosphatidylcholine. Characterization by 16S rRNA gene sequence analysis, physiological parameters, pigment analysis, and ubiquinone, polar lipid and fatty acid composition revealed that strain JM-1T represents a novel species of the genus Novosphingobium . For this species we propose the name Novosphingobium rhizosphaerae sp. nov. with the type strain JM-1T ( = LMG 28479T = CCM 8547T).

Catenulispora graminis sp. nov., a rhizobacterium from bamboo (Phyllostachys nigro var. henonis) rhizosphere soil

2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2589-2592 ◽  
Author(s):  
Hyo-Jin Lee ◽  
Song-Ih Han ◽  
Kyung-Sook Whang
Keyword(s):  
Type Species ◽  
Rhizosphere Soil ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type ◽  
Isoprenoid Quinones ◽  
Type Strains

A novel actinobacterium, designated strain BR-34T, was isolated from rhizosphere soil of bamboo (Phyllostachys nigro var. henonis) sampled in Damyang, Korea. The strain was found to have morphological and chemotaxonomic characteristics typical of the genus Catenulispora . The strain contained iso-C16 : 0 as the major fatty acid and MK-9(H4), MK-9(H6) and MK-9(H8) as major isoprenoid quinones. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain BR-34T formed a cluster separate from members of the genus Catenulispora and was related most closely to Catenulispora acidiphila ID139908T (97.4 % similarity), Catenulispora rubra Aac-30T (97.3 %), Catenulispora yoronensis TT N02-20T (97.3 %) and Catenulispora subtropica TT 99-48T (97 %). However, the level of DNA–DNA relatedness between strain BR-34T and C. acidiphila ID139908T was only 45.32 %. Based on DNA–DNA relatedness, morphological and phenotypic data, strain BR-34T could be distinguished from the type strains of phylogenetically related species. It is therefore considered to represent a novel species of the genus Catenulispora , for which the name Catenulispora graminis sp. nov. is proposed. The type strain is BR-34T ( = KACC 15070T = NBRC 107755T).

Patulibacter medicamentivorans sp. nov., isolated from activated sludge of a wastewater treatment plant

2013 ◽  
Vol 63 (Pt_7) ◽  
pp. 2588-2593 ◽  
Author(s):  
Bárbara Almeida ◽  
Ivone Vaz-Moreira ◽  
Peter Schumann ◽  
Olga C. Nunes ◽  
Gilda Carvalho ◽  
...  
Keyword(s):  
Wastewater Treatment ◽  
Sequence Analysis ◽  
Type Species ◽  
Gene Sequence ◽  
Treatment Plant ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis

A Gram-positive, aerobic, non-motile, non-endospore-forming rod-shaped bacterium with ibuprofen-degrading capacity, designated strain I11T, was isolated from activated sludge from a wastewater treatment plant. The major respiratory quinone was demethylmenaquinone DMK-7, C18 : 1 cis9 was the predominant fatty acid, phosphatidylglycerol was the predominant polar lipid, the cell wall contained meso-diaminopimelic acid as the diagnostic diamino acid and the G+C content of the genomic DNA was 74.1 mol%. On the basis of 16S rRNA gene sequence analysis, the closest phylogenetic neighbours of strain I11T were Patulibacter ginsengiterrae CECT 7603T (96.8 % similarity), Patulibacter minatonensis DSM 18081T (96.6 %) and Patulibacter americanus DSM 16676T (96.6 %). Phenotypic characterization supports the inclusion of strain I11T within the genus Patulibacter (phylum Actinobacteria) . However, distinctive features and 16S rRNA gene sequence analysis suggest that is represents a novel species, for which the name Patulibacter medicamentivorans sp. nov. is proposed. The type strain is I11T ( = DSM 25962T = CECT 8141T).

scholarly journals Actinomadura geliboluensis sp. nov., isolated from soil

2012 ◽  
Vol 62 (Pt_8) ◽  
pp. 2011-2017 ◽  
Author(s):  
Anil Sazak ◽  
Mustafa Camas ◽  
Cathrin Spröer ◽  
Hans-Peter Klenk ◽  
Nevzat Sahin
Keyword(s):  
Cell Wall ◽  
Type Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Acid Type ◽  
Gene Sequence Analysis ◽  
Taxonomic Approach

A novel actinobacterium, strain A8036T, isolated from soil, was investigated by using a polyphasic taxonomic approach. The organism formed extensively branched substrate hyphae that generated spiral chains of spores with irregular surfaces. The cell wall contained meso-diaminopimelic acid (type III) and cell-wall sugars were glucose, madurose, mannose and ribose. The predominant menaquinones were MK-9(H6) and MK-9(H4). The phospholipids were diphosphatidylglycerol, phosphatidylinositol and phosphatidylinositol mannosides. The major cellular fatty acids were iso-C16 : 0, C17 : 1 cis9, C16 : 0, C15 : 0 and 10-methyl C17 : 0. Based on 16S rRNA gene sequence analysis, the closest phylogenetic neighbours of strain A8036T were Actinomadura meyerae DSM 44715T (99.23 % similarity), Actinomadura bangladeshensis DSM 45347T (98.9 %) and Actinomadura chokoriensis DSM 45346T (98.3 %). However, DNA–DNA relatedness and phenotypic data demonstrated that strain A8036T could be clearly distinguished from the type strains of all closely related Actinomadura species. Strain A8036T is therefore considered to represent a novel species of the genus Actinomadura , for which the name Actinomadura geliboluensis sp. nov. is proposed. The type strain is A8036T ( = DSM 45508T = KCTC 19868T).

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