scholarly journals Streptomyces atacamensis sp. nov., isolated from an extreme hyper-arid soil of the Atacama Desert, Chile

2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2680-2684 ◽  
Author(s):  
Rakesh Santhanam ◽  
Chinyere K. Okoro ◽  
Xiaoying Rong ◽  
Ying Huang ◽  
Alan T. Bull ◽  
...  
Keyword(s):  
Type Strain ◽  
Gene Tree ◽  
Atacama Desert ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Phenotypic Data ◽  
Content Type ◽  
Arid Soil ◽  
Link Type ◽  
Phyletic Line

The taxonomic position of a Streptomyces strain isolated from an extreme hyper-arid soil sample collected from the Atacama Desert was determined using a polyphasic approach. The strain, isolate C60T, had chemical and morphological features typical of members of the genus Streptomyces and formed a distinct phyletic line in the Streptomyces 16S rRNA gene tree, together with the type strain of Streptomyces radiopugnans . The two strains were distinguished readily using a combination of phenotypic properties and by a DNA–DNA relatedness value of 23.17 (±0.95) %. On the basis of these genotypic and phenotypic data, it is proposed that isolate C60T ( = CGMCC 4.7018T = KACC 15492T) be classified in the genus Streptomyces as Streptomyces atacamensis sp. nov.

scholarly journals Amycolatopsis rhabdoformis sp. nov., an actinomycete isolated from a tropical forest soil

2015 ◽  
Vol 65 (Pt_6) ◽  
pp. 1786-1793 ◽  
Author(s):  
Wallace Rafael Souza ◽  
Rafael Eduardo Silva ◽  
Michael Goodfellow ◽  
Kanungnid Busarakam ◽  
Fernanda Sales Figueiro ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Gene Tree ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type

Strain SB026T was isolated from Brazilian rainforest soil and its taxonomic position established using data from a polyphasic study. The organism showed a combination of chemotaxonomic and morphological features consistent with its classification in the genus Amycolatopsis and formed a branch in the Amycolatopsis 16S rRNA gene tree together with Amycolatopsis bullii NRRL B-24847T, Amycolatopsis plumensis NRRL B-24324T, Amycolatopsis tolypomycina DSM 44544T and Amycolatopsis vancoresmycina NRRL B-24208T. It was related most closely to A. bullii NRRL B-24847T (99.0 % 16S rRNA gene sequence similarity), but was distinguished from this strain by a low level of DNA–DNA relatedness (~46 %) and discriminatory phenotypic properties. Based on the combined genotypic and phenotypic data, it is proposed that the isolate should be classified in the genus Amycolatopsis as representing a novel species, Amycolatopsis rhabdoformis sp. nov. The type strain is SB026T ( = CBMAI 1694T = CMAA 1285T = NCIMB 14900T).

Actinomadura xylanilytica sp. nov., an actinomycete isolated from soil

2013 ◽  
Vol 63 (Pt_2) ◽  
pp. 576-580 ◽  
Author(s):  
Tiago Domingues Zucchi ◽  
Byung-Yong Kim ◽  
Avinash Naga Venkata Bonda ◽  
Michael Goodfellow
Keyword(s):  
Type Species ◽  
Morphological Characteristics ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Soil Isolate ◽  
Phyletic Line ◽  
Using Data

The taxonomic position of a soil isolate, strain BK147T, was established using data from a polyphasic study. The organism showed a combination of chemotaxonomic and morphological characteristics consistent with its classification in the genus Actinomadura . It formed a distinct phyletic line in the phylogenetic tree based on 16S rRNA gene sequences of members of the genus Actinomadura and was most closely, albeit loosely, related to Actinomadura bangladeshensis DSM 45347T, Actinomadura meyerae DSM 44715T and Actinomadura napierensis NRRL B-24319T but was readily distinguished from these strains using a range of phenotypic properties. Based on the combined genotypic and phenotypic data it is proposed that isolate BK147T ( = KACC 20919T = NCIMB 14771T = NRRL B-24852T) be classified as the type strain of a novel species of the genus Actinomadura , for which the name Actinomadura xylanilytica sp. nov. is proposed.

scholarly journals Streptomyces burgazadensis sp. nov., isolated from soil

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 4043-4048 ◽  
Author(s):  
Salih Saricaoglu ◽  
Kamil Isik ◽  
Aysel Veyisoglu ◽  
Hayrettin Saygin ◽  
Demet Cetin ◽  
...  
Keyword(s):  
Type Species ◽  
Gene Tree ◽  
Diaminopimelic Acid ◽  
Morphological Properties ◽  
Rrna Gene ◽  
Marmara Sea ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Phyletic Line

A novel actinobacterial strain, designated Z1R7T, was isolated from a soil sample collected from Burgazada, in the Marmara Sea (Turkey), and the strain identity was determined using a polyphasic taxonomic approach. The organism had chemotaxonomic and morphological properties consistent with its classification in the genus Streptomyces and it formed a distinct phyletic line in the 16S rRNA gene tree, together with the type strains Streptomyces specialis GW41-1564T (95.76 %), Streptomyces mayteni YIM 60475T (95.64 %), Streptomyces hainanensis YIM 47672T (95.53 %), Streptomyces hoynatensis S1412T (95.29 %), Streptomyces avicenniae MCCC 1A01535T (94.74 %), Streptomyces sedi YIM 65188T (94.59 %) and Streptomyces zhaozhouensis NEAU-LZS-5T (94.68 %). Chomotaxonomic data revealed that strain Z1R7T possesed MK-9 (H8) as the predominant menaquinone, ll-diaminopimelic acid as the diagnostic diamino acid, and galactose, glucose and ribose as whole cell sugars. Diphosphatidylglycerol, phoshphatidylethanolamine and phosphatidylinositol were the predominant polar lipids; iso-C16 : 0, anteiso-C17 : 0 and anteiso-C15 : 0 were the major fatty acids, and the genomic DNA G+C content was 69.4 mol%. On the basis of these genotypic and phenotypic data, it is proposed that isolate Z1R7T ( = KCTC 29434T = DSM 42126T) should be classified in the genus Streptomyces as Streptomyces burgazadensis sp. nov.

scholarly journals Dermacoccus barathri sp. nov. and Dermacoccus profundi sp. nov., novel actinomycetes isolated from deep-sea mud of the Mariana Trench

2006 ◽  
Vol 56 (10) ◽  
pp. 2303-2307 ◽  
Author(s):  
Wasu Pathom-aree ◽  
Yuichi Nogi ◽  
Alan C. Ward ◽  
Koki Horikoshi ◽  
Alan T. Bull ◽  
...  
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Gene Tree ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Phenotypic Data ◽  
Mariana Trench ◽  
Phyletic Line ◽  
Sea Mud ◽  
Type Strains

The taxonomic positions of two actinobacterial strains isolated from Mariana Trench sediment were established using a combination of genotypic and phenotypic data. The strains, isolates MT2.1T and MT2.2T, formed a distinct phyletic line in the Micrococcineae 16S rRNA gene tree together with Dermacoccus abyssi NCIMB 14084T. The isolates had chemical and phenotypic properties typical of members of the genus Dermacoccus and could be distinguished sharply from one another and from the type strains of Dermacoccus abyssi and Dermacoccus nishinomiyaensis using DNA–DNA relatedness data. A range of phenotypic properties served to distinguish the two novel strains from one another and from the type strains of established Dermacoccus species. The G+C contents of the DNAs of strains MT2.1T and MT2.2T were 66.8 and 69.1 mol%, respectively. It is evident that the two isolates merit recognition as novel species within the genus Dermacoccus. The names proposed for these taxa are Dermacoccus barathri sp. nov. (type strain MT2.1T=DSM 17574T=NCIMB 14081T) and Dermacoccus profundi sp. nov. (type strain MT2.2T=DSM 17575T=NCIMB 14084T).

Nocardioides donggukensis sp. nov. and Hyunsoonleella aquatilis sp. nov., isolated from Jeongbang Waterfall on Jeju Island

2021 ◽  
Vol 71 (12) ◽  
Author(s):  
Inhyup Kim ◽  
Geeta Chhetri ◽  
Jiyoun Kim ◽  
Minchung Kang ◽  
Yoonseop So ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Bacterial Species ◽  
Jeju Island ◽  
Nucleotide Identity ◽  
Rrna Gene ◽  
Average Nucleotide Identity ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type

Two bacterial strains, designated MJB4T and SJ7T, were isolated from water samples collected from Jeongbang Falls on Jeju Island, Republic of Korea. Phylogenetic analysis of 16S rRNA gene sequences indicated that the two strains belonged to the genera Nocardioides and Hyunsoonleella , owing to their high similarities to Nocardioides jensenii DSM 29641T (97.5 %) and Hyunsoonleella rubra FA042 T (96.3 %), respectively. These values are much lower than the gold standard for bacterial species (98.7 %). The average nucleotide identity values between strains MJB4T, SJ7T and the reference strains, Nocardioides jensenii DSM 29641T, Nocardioides daejeonensis MJ31T and Hyunsoonleella flava T58T were 77.2, 75.9 and 75.4 %, respectively. Strains MJB4T and SJ7T and the type strains of the species involved in system incidence have average nucleotide identity and average amino acid threshold values of 60.1–82.6 % for the species boundary (95–96 %), which confirms that strains MJB4T and SJ7T represent two new species of genus Nocardioides and Hyunsoonleella , respectively. Based on phylogenetic and phenotypic data, strains MJB4T and SJ7T are considered to represent novel species of the genus Nocardioides and Hyunsoonleella , respectively, for which the names Nocardioides donggukensis sp. nov. (type strain MJB4T=KACC 21724T=NBRC 114402T) and Hyunsoonleella aquatilis sp. nov., (type strain SJ7T=KACC 21715T=NBRC 114486T) have been proposed.

Jinshanibacter, a new genus of Budviciaceae: identification of Jinshanibacter zhutongyuii sp. nov. and Jinshanibacter xujianqingii sp. nov. isolated from cloacal content of snow finch (Montifringilla taczanowskii)

2021 ◽  
Vol 71 (2) ◽  
Author(s):  
Yajun Ge ◽  
Bin Wang ◽  
Jing Yang ◽  
Xin-He Lai ◽  
Gui Zhang ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
New Genus ◽  
Major Fatty Acid ◽  
Phylogenomic Analysis ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
The Family

Four novel strains isolated from the cloacal contents of snow finches (Montifringilla taczanowskii) were characterized as aerobic, Gram-stain-negative, slightly motile, and rod-shaped. Analysis of the 16S rRNA gene sequence revealed that strain CF-458T had the highest similarities of 96.9 and 96.4 % with Limnobaculum parvum HYN0051T and Pragia fontium DSM 5563T, while strain CF-1111T shared the highest similarities of 96.4 and 96.1 % with Pantoea rodasii LMG 26273T and Pectobacterium punjabense SS95T. Phylogenomic analysis showed the four isolates were separated into group Ⅰ (CF-458T and CF-917) and group Ⅱ (CF-1111T and CF-509), and clustered independently in the vicinity of the genera Limnobaculum and Pragia . Summed feature 3 (C16 : 1  ω7c and/or C16 : 1  ω6c, 23.9 and 17.2 %, respectively), C16 : 0 (21.8 and 22.1 %, respectively) and C14 : 0 (10.6 and 17.7 %, respectively) were the common major fatty acids, and summed feature 8 (C18 : 1  ω7c and/or C18 : 1  ω6c, 12.3 %) was also a major fatty acid for strain CF-458T while cyclo-C17 : 0 (13.1%) was for strain CF-1111T. Both had Q-8 as the sole quinone and contained phosphatidylethanolamine, phosphatidylglycerol, and diphosphatidylglycerol as the major polar lipids. The DNA G+C content of strains CF-458T and CF-1111T was 45.7 and 45.4 mol%, respectively. Based on taxonomic position in the phylogenomic tree and phenotypic properties, two novel species of a new genus within the family Budviciaceae are thus proposed, with the name Jinshanibacter gen. nov., zhutongyuii sp. nov. (type strain CF-458T=CGMCC 1.16483T=GDMCC 1.1586T=JCM 33489T) and Jinshanibacter xujianqingii sp. nov. (type strain CF-1111T=CGMCC 1.16786T=GDMCC 1.1587T=JCM 33490T), respectively.

scholarly journals Williamsia marianensis sp. nov., a novel actinomycete isolated from the Mariana Trench

2006 ◽  
Vol 56 (5) ◽  
pp. 1123-1126 ◽  
Author(s):  
Wasu Pathom-aree ◽  
Yuichi Nogi ◽  
Iain C. Sutcliffe ◽  
Alan C. Ward ◽  
Koki Horikoshi ◽  
...  
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Gene Tree ◽  
Taxonomic Status ◽  
Morphological Properties ◽  
Rrna Gene ◽  
Hexadecenoic Acid ◽  
Phenotypic Data ◽  
Mariana Trench ◽  
Phyletic Line

The taxonomic status of an actinomycete isolated from sediment collected from the Mariana Trench was established using a combination of genotypic and phenotypic data. Isolate MT8T had chemotaxonomic and morphological properties consistent with its classification in the genus Williamsia, and formed a distinct phyletic line in the 16S rRNA gene tree together with the type strain of Williamsia muralis. The isolate was readily distinguished from the latter, and from representatives of other Williamsia species, using DNA–DNA relatedness and phenotypic criteria. Predominant cellular fatty acids were oleic, palmitic and tuberculostearic acids and a hexadecenoic acid. The DNA G+C content was 65.2 mol%. It is apparent that the isolate belongs to a novel species of Williamsia. Strain MT8T (=DSM 44944T=NCIMB 14085T) was thus considered to be the type strain of a novel species in the genus Williamsia, for which the name Williamsia marianensis sp. nov. is proposed.

Celeribacter baekdonensis sp. nov., isolated from seawater, and emended description of the genus Celeribacter Ivanova et al. 2010

2012 ◽  
Vol 62 (Pt_6) ◽  
pp. 1359-1364 ◽  
Author(s):  
Soo-Young Lee ◽  
Sooyeon Park ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type

A Gram-stain-negative, non-motile, ovoid or rod-shaped bacterial strain, designated L-6T, was isolated from seawater of Baekdo harbour of the East Sea in Korea and its taxonomic position was investigated by using a polyphasic study. Strain L-6T grew optimally at 30 °C, at pH 7.5–8.0 and in the presence of 2 % (w/v) NaCl. In the neighbour-joining phylogenetic tree based on 16S rRNA gene sequences, strain L-6T formed a cluster with the type strain of Celeribacter neptunius at a bootstrap resampling value of 100 %. Strain L-6T exhibited 16S rRNA gene sequence similarity values of 97.7 % to C. neptunius H 14T and of less than 96.2 % to the type strains of other species used in the phylogenetic analysis. The G+C content of the chromosomal DNA of strain L-6T was 60.9 mol%. The predominant ubiquinone found in strain L-6T and C. neptunius CIP 109922T was ubiquinone-10 (Q-10). The predominant fatty acid of strain L-6T and C. neptunius CIP 109922T was C18 : 1ω7c. The major polar lipids of strain L-6T were phosphatidylglycerol, one unidentified aminolipid and one unidentified lipid. The mean level of DNA–DNA relatedness between strain L-6T and C. neptunius CIP 109922T was 17 %. Differential phenotypic properties, together with phylogenetic and genetic distinctiveness, demonstrated that strain L-6T is distinguishable from C. neptunius . On the basis of the data presented, strain L-6T is considered to represent a novel species of the genus Celeribacter , for which the name Celeribacter baekdonensis sp. nov. is proposed. The type strain is L-6T ( = KCTC 23497T  = CCUG 60799T).

scholarly journals Lysobacter profundi sp. nov., isolated from freshwater sediment and reclassification of Lysobacter panaciterrae as Luteimonas panaciterrae comb. nov.

2020 ◽  
Vol 70 (6) ◽  
pp. 3878-3887 ◽  
Author(s):  
Chun-Zhi Jin ◽  
Xiuli Song ◽  
Yun Ju Sung ◽  
Feng-Jie Jin ◽  
Taihua Li ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Type Species ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Unidentified Phospholipid ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type

A polyphasic taxonomic study was carried out on strains CHu50b-3-2T and CHu40b-3-1 isolated from a 67 cm-long sediment core collected from the Daechung Reservoir at a water depth of 17 m, Daejeon, Republic of Korea. The cells of the strains were Gram-stain-negative, non-spore-forming, non-motile and rod-shaped. Comparative 16S rRNA gene sequence studies showed a clear affiliation of two strains with γ-Proteobacteria, which showed the highest pairwise sequence similarities to Lysobacter hankyongensis KTce-2T (96.5 %), Lysobacter pocheonensis Gsoil193T (96.3 %), Lysobacter ginsengisoli Gsoil 357T (96.1 %), Lysobacter solanacearum T20R-70T (96.1 %), Lysobacter brunescens KCTC 12130T (95.4 %) and Lysobacter capsici YC5194T (95.3 %). The phylogenetic analysis based on 16S rRNA gene sequences showed that the strains formed a clear phylogenetic lineage with the genus Lysobacter . The major fatty acids were identified as summed feature 9 (iso-C17 : 1  ω9c and/or C18 : 1 10-methyl), iso-C15 : 0, iso-C16 : 0 and iso-C17 : 0. The respiratory quinone was identified as ubiquinone Q-8. The major polar lipids were phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine and an unidentified phospholipid. The genomic DNA G+C content was determined to be 66.8 mol% (genome) for strain CHu50b-3-2T and 66.4 mol% (HPLC) for strain CHu40b-3-1. Based on the combined genotypic and phenotypic data, we propose that strains CHu50b-3-2T and CHu40b-3-1 represent a novel species of the genus Lysobacter , for which the name Lysobacter profundi sp. nov. is proposed. The type strain is CHu50b-3-2T (=KCTC 72973T=CCTCC AB 2019129T). Besides Lysobacter panaciterrae Gsoil 068T formed a phylogenetic group together with strain Luteimonas aquatica RIB1-20T (EF626688) that is clearly separated from all other known Lysobacter strains. Based on the phylogenetic relationships together with fatty acid compositions, Lysobacter panaciterrae Gsoil 068T should be reclassified as a member of the genus Luteimonas: Luteimonas aquatica comb. nov. (type strain Gsoil 068T=KCTC 12601T=DSM 17927T).

scholarly journals Rhodococcus gordoniae sp. nov., an actinomycete isolated from clinical material and phenol-contaminated soil

2004 ◽  
Vol 54 (2) ◽  
pp. 407-411 ◽  
Author(s):  
Amanda L. Jones ◽  
June M. Brown ◽  
Vachaspati Mishra ◽  
John D. Perry ◽  
Arnold G. Steigerwalt ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Gene Tree ◽  
Growth Cycle ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Phenotypic Data ◽  
Gene Similarity

The taxonomic relationships of two actinomycetes provisionally assigned to the genus Rhodococcus were determined using a polyphasic taxonomic approach. The generic assignment was confirmed by 16S rRNA gene similarity data, as the organisms, strains MTCC 1534 and W 4937T, were shown to belong to the Rhodococcus rhodochrous subclade. These organisms had phenotypic properties typical of rhodococci; they were aerobic, Gram-positive, weakly acid-fast actinomycetes that showed an elementary branching-rod–coccus growth cycle and contained meso-diaminopimelic acid, arabinose and galactose in whole-organism hydrolysates, N-glycolated muramic acid residues, dehydrogenated menaquinones with eight isoprene units as the predominant isoprenologue and mycolic acids that co-migrated with those extracted from the type strain of R. rhodochrous. The strains had identical phenotypic profiles and belong to the same genomic species, albeit one distinguished from Rhodococcus pyridinivorans, with which they formed a distinct phyletic line. They were also distinguished from representatives of all of the species classified in the R. rhodochrous 16S rRNA gene tree using a set of phenotypic features. The genotypic and phenotypic data show that the strains merit recognition as a novel species of Rhodococcus. The name proposed is Rhodococcus gordoniae sp. nov., with the type strain W 4937T (=DSM 44689T=NCTC 13296T).

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