scholarly journals Amycolatopsis granulosa sp. nov., Amycolatopsis ruanii sp. nov. and Amycolatopsis thermalba sp. nov., thermophilic actinomycetes isolated from arid soils

2012 ◽  
Vol 62 (Pt_6) ◽  
pp. 1245-1251 ◽  
Author(s):  
Tiago Domingues Zucchi ◽  
Geok Yuan Annie Tan ◽  
Avinash Naga Venkata Bonda ◽  
Sarah Frank ◽  
Jenileima Devi Kshetrimayum ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Sequence Data ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Thermophilic Actinomycetes ◽  
Content Type ◽  
Link Type ◽  
Type Strains

The taxonomic positions of three thermophilic actinomycetes isolated from arid soil samples were established by using a polyphasic approach. The organisms had chemical and morphological features that were consistent with their classification in the genus Amycolatopsis . 16S rRNA gene sequence data supported the classification of the isolates in the genus Amycolatopsis and showed that they formed distinct branches in the Amycolatopsis methanolica subclade. DNA–DNA relatedness studies between the isolates and their phylogenetic neighbours showed that they belonged to distinct genomic species. The three isolates were readily distinguished from one another and from the type strains of species classified in the A. methanolica subclade based on a combination of phenotypic properties and by genomic fingerprinting. Consequently, it is proposed that the three isolates be classified in the genus Amycolatopsis as representatives of Amycolatopsis granulosa sp. nov. (type strain GY307T = NCIMB 14709T = NRRL B-24844T), Amycolatopsis ruanii sp. nov. (type strain NMG112T = NCIMB 14711T = NRRL B-24848T) and Amycolatopsis thermalba sp. nov. (type strain SF45T = NCIMB 14705T = NRRL B-24845T).

scholarly journals Altererythrobacter aestiaquae sp. nov., isolated from seawater

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 3943-3949 ◽  
Author(s):  
Yong-Taek Jung ◽  
Sooyeon Park ◽  
Jung-Sook Lee ◽  
Jung-Hoon Yoon
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Type Strains

A Gram-stain-negative, coccoid- or oval-shaped, gliding bacterial strain, designated HDW-31T, belonging to the class Alphaproteobacteria , was isolated from seawater of the Yellow Sea, Korea, and was subjected to a taxonomic study using a polyphasic approach. Strain HDW-31T grew optimally at pH 7.0–8.0, at 30 °C and in the presence of 2–3 % (w/v) NaCl. Neighbour-joining, maximum-likelihood and maximum-parsimony phylogenetic trees based on 16S rRNA gene sequences showed that strain HDW-31T fell within the clade comprising the genus Altererythrobacter , clustering with the type strains of Altererythrobacter luteolus and Altererythrobacter gangjinensis , with which strain HDW-31T exhibited 97.0 and 96.0 % sequence similarity values, respectively. Sequence similarities to the type strains of the other recognized species of the genus Altererythrobacter were 93.5–96.0 %. The DNA G+C content was 57.9 mol% and mean DNA–DNA relatedness between strain HDW-31T and the type strain of A. luteolus was 5.3 %. Strain HDW-31T contained Q-10 as the predominant ubiquinone and summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c) and C16 : 0 as the major fatty acids. The major polar lipids were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, a sphingoglycolipid, two unidentified glycolipids and an unidentified lipid. Differential phenotypic properties, together with the phylogenetic and genetic distinctiveness, demonstrated that strain HDW-31T is distinguishable from recognized species of the genus Altererythrobacter . On the basis of the data presented, strain HDW-31T is considered to represent a novel species of the genus Altererythrobacter , for which the name Altererythrobacter aestiaquae sp. nov. is proposed. The type strain is HDW-31T ( = KCTC 42006T = CECT 8527T).

scholarly journals Marivita hallyeonensis sp. nov., isolated from seawater, reclassification of Gaetbulicola byunsanensis as Marivita byunsanensis comb. nov. and emended description of the genus Marivita Hwang et al. 2009

2012 ◽  
Vol 62 (Pt_4) ◽  
pp. 839-843 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Soo-Young Lee ◽  
Yong-Taek Jung ◽  
Jung-Sook Lee ◽  
...  
Keyword(s):  
Fatty Acid ◽  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Emended Description ◽  
Type Strains

A Gram-stain-negative, non-motile, non-spore-forming, aerobic, rod-shaped bacterial strain, designated DPG-28T, was isolated from seawater on the southern coast of Korea. Strain DPG-28T grew optimally at 30 °C and in the presence of 2 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain DPG-28T formed a coherent cluster with members of the genera Marivita and Gaetbulicola , with which it exhibited sequence similarity values of 97.8–98.5 %. The DNA G+C content of strain DPG-28T was 65.1 mol%. The predominant ubiquinone of strain DPG-28T was ubiquinone-10 (Q-10), consistent with data for the genera Marivita and Gaetbulicola . The cellular fatty acid profiles of strain DPG-28T and the type strains of Marivita cryptomonadis , Marivita litorea and Gaetbulicola byunsanensis were essentially similar in that the common predominant fatty acid was C18 : 1ω7c. Major polar lipids found in strain DPG-28T and the type strains of M. cryptomonadis , M. litorea and G. byunsanensis were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine and an unidentified aminolipid. From these data, it is proposed that Gaetbulicola byunsanensis be reclassified as a member of the genus Marivita , for which the name Marivita byunsanensis comb. nov. is proposed, with the type strain SMK-114T ( = CCUG 57612T  = KCTC 22632T), and that strain DPG-28T be classified in the genus Marivita . Differential phenotypic properties and genetic distinctiveness of strain DPG-28T demonstrated that this strain is distinguishable from M. cryptomonadis , M. litorea and G. byunsanensis . On the basis of the data presented, strain DPG-28T is considered to represent a novel species of the genus Marivita , for which the name Marivita hallyeonensis sp. nov. is proposed. The type strain is DPG-28T ( = KCTC 23421T  = CCUG 60522T). An emended description of the genus Marivita is also provided.

scholarly journals Description of Xenorhabdus khoisanae sp. nov., the symbiont of the entomopathogenic nematode Steinernema khoisanae

2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3220-3224 ◽  
Author(s):  
Tiarin Ferreira ◽  
Carol A. van Reenen ◽  
Akihito Endo ◽  
Cathrin Spröer ◽  
Antoinette P. Malan ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Sequence Data ◽  
Entomopathogenic Nematode ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Carbohydrate Fermentation ◽  
Type Strains ◽  
Produce Acid

Bacterial strain SF87T, and additional strains SF80, SF362 and 106-C, isolated from the nematode Steinernema khoisanae, are non-bioluminescent Gram-reaction-negative bacteria that share many of the carbohydrate fermentation reactions recorded for the type strains of recognized Xenorhabdus species. Based on 16S rRNA gene sequence data, strain SF87T is shown to be closely related (98 % similarity) to Xenorhabdus hominickii DSM 17903T. Nucleotide sequences of strain SF87 obtained from the recA, dnaN, gltX, gyrB and infB genes showed 96–97 % similarity with Xenorhabdus miraniensis DSM 17902T . However, strain SF87 shares only 52.7 % DNA–DNA relatedness with the type strain of X. miraniensis , confirming that it belongs to a different species. Strains SF87T, SF80, SF362 and 106-C are phenotypically similar to X. miraniensis and X. beddingii , except that they do not produce acid from aesculin. These strains are thus considered to represent a novel species of the genus Xenorhabdus , for which the name Xenorhabdus khoisanae sp. nov. is proposed. The type strain is SF87T ( = DSM 25463T = ATCC BAA-2406T).

scholarly journals Alteromonas ponticola sp. nov., a gammaproteobacterium isolated from seawater

2020 ◽  
Vol 70 (12) ◽  
pp. 6396-6401 ◽  
Author(s):  
Young-Ok Kim ◽  
In-Suk Park ◽  
Sooyeon Park ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Type Strains

A Gram-stain-negative, aerobic, non-spore-forming, non-motile and ovoid or rod-shaped bacterial strain, MYP5T, was isolated from seawater in Jeju island of South Korea. MYP5T grew optimally at 30–35 °C and in the presence of 2.0 % (w/v) NaCl. A neighbour-joining phylogenetic tree based on 16S rRNA gene sequences revealed that MYP5T fell within the clade enclosed by the type strains of species of the genus Alteromonas , clustering with the type strains of Alteromonas confluentis and Alteromonas halophila . MYP5T exhibited the highest 16S rRNA gene sequence similarity value (98.0 %) to the type strain of A. confluentis and similarities of 95.1–97.9 % to the type strains of the other species of the genus Alteromonas . ANI and dDDH values of genomic sequences between MYP5T and the type strains of 22 species of the genus Alteromonas were 66.8–70.5 % and 18.6–27.5 %, respectively. The DNA G+C content of MYP5T, determined from the genome sequence, was 46.1 %. MYP5T contained Q-8 as the predominant ubiquinone and C18 : 1 ω7c, summed feature 3 (C16 : 1 ω7c and/or C16 : 1 ω6c), C16 : 0 and 10-methyl C17 : 0 as the major fatty acids. The major polar lipids of MYP5T were phosphatidylethanolamine and phosphatidylglycerol. Distinguishing phenotypic properties, along with the phylogenetic and genetic distinctiveness, revealed that MYP5T is separated from species of the genus Alteromonas . On the basis of the data presented, MYP5T is considered to represent a novel species of the genus Alteromonas , for which the name Alteromonas ponticola sp. nov. is proposed. The type strain is MYP5T (=KCTC 82144T=NBRC 114354T).

scholarly journals Pseudonocardia cypriaca sp. nov., Pseudonocardia salamisensis sp. nov., Pseudonocardia hierapolitana sp. nov. and Pseudonocardia kujensis sp. nov., isolated from soil

2014 ◽  
Vol 64 (Pt_5) ◽  
pp. 1703-1711 ◽  
Author(s):  
Nevzat Sahin ◽  
Aysel Veyisoglu ◽  
Demet Tatar ◽  
Cathrin Spröer ◽  
Demet Cetin ◽  
...  
Keyword(s):  
Type Strain ◽  
Sequence Data ◽  
Major Fatty Acid ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Type Iv ◽  
Type Strains

The taxonomic positions of four novel actinomycetes isolated from soil samples, designated KT2142T, PM2084T, K236T and A4038T, were established by using a polyphasic approach. The organisms had chemical and morphological features that were consistent with their classification in the genus Pseudonocardia . Whole-cell hydrolysates of the four strains contained meso-diaminopimelic acid and arabinose and galactose as the diagnostic sugars (cell-wall type IV). Their predominant menaquinone was found to be MK-8(H4). The major fatty acid was iso-C16 : 0. 16S rRNA gene sequence data supported the classification of the isolates in the genus Pseudonocardia and showed that they formed four distinct branches within the genus. DNA–DNA relatedness studies between the isolates and their phylogenetic neighbours showed that they belonged to distinct genomic species. The four isolates were readily distinguished from one another and from the type strains of species classified in the genus Pseudonocardia based on a combination of phenotypic and genotypic properties. In conclusion, it is proposed that the four isolates be classified in four novel species of the genus Pseudonocardia , for which the names Pseudonocardia cypriaca sp. nov. (type strain KT2142T = KCTC 29067T = DSM 45511T = NRRL B-24882T), Pseudonocardia hierapolitana sp. nov. (type strain PM2084T = KCTC 29068T = DSM 45671T = NRRL B-24879T), Pseudonocardia salamisensis sp. nov. (type strain K236T = KCTC 29100T = DSM 45717T) and Pseudonocardia kujensis sp. nov. (type strain A4038T = KCTC 29062T = DSM 45670T = NRRL B-24890T) are proposed.

scholarly journals Erythrobacter pelagi sp. nov., a member of the family Erythrobacteraceae isolated from the Red Sea

2012 ◽  
Vol 62 (Pt_6) ◽  
pp. 1348-1353 ◽  
Author(s):  
Hui-xian Wu ◽  
Pok Yui Lai ◽  
On On Lee ◽  
Xiao-jian Zhou ◽  
Li Miao ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Red Sea ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Type Strains

A novel Gram-negative, aerobic, catalase- and oxidase-positive, non-sporulating, non-motile, rod-shaped bacterium, designated strain UST081027-248T, was isolated from seawater of the Red Sea. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain UST081027-248T fell within the genus Erythrobacter . Levels of 16S rRNA gene sequence similarity between the novel strain and the type strains of Erythrobacter species ranged from 95.3 % (with Erythrobacter gangjinensis ) to 98.2 % (with Erythrobacter citreus ). However, levels of DNA–DNA relatedness between strain UST081027-248T and the type strains of closely related species were below 70 %. Optimal growth of the isolate occurred in the presence of 2.0 % NaCl, at pH 8.0–9.0 and at 28–36 °C. The isolate did not produce bacteriochlorophyll a. The predominant cellular fatty acids were C17 : 1ω6c, summed feature 8 (C18 : 1ω6c and/or C18 : 1ω7c) and C15 : 0 2-OH. The genomic DNA G+C content of strain UST081027-248T was 60.4 mol%. Phenotypic properties and phylogenetic distinctiveness clearly indicated that strain UST081027-248T represents a novel species of the genus Erythrobacter , for which the name Erythrobacter pelagi sp. nov. is proposed. The type strain is UST081027-248T ( = JCM 17468T = NRRL 59511T).

scholarly journals Pseudoalteromonas caenipelagi sp. nov., isolated from a tidal flat

2020 ◽  
Vol 70 (12) ◽  
pp. 6301-6306
Author(s):  
Sooyeon Park ◽  
Seo Yeon Lee ◽  
Wonyong Kim ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Strain ◽  
Type Species ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Type Strains

A Gram-stain-negative, aerobic, non-spore-forming, motile by single polar flagellum and ovoid or rod-shaped bacterial strain, designated JBTF-M23T, was isolated from tidal flat sediment collected from the Yellow Sea, Republic of Korea. Neighbour-joining phylogenetic tree of 16S rRNA gene sequences showed that strain JBTF-M23T fell within the clade comprising the type strains of Pseudoalteromonas species, clustering with the type strains of P. byunsanensis and P. amylolytica . Strain JBTF-M23T exhibited the highest 16S rRNA gene sequence similarity value (98.6 %) to the type strain of P. rubra and sequence similarities of 98.3 and 97.7 % to the type strains of P. byunsanensis and P. amylolytica, respectively. The DNA G+C content of strain JBTF-M23T from genomic sequence data was 41.98 %. The ANI and dDDH values between strain JBTF-M23T and the type strains of P. rubra , P. byunsanensis and P. amylolytica were 71.3–76.6 and 19.4–19.9 %, respectively. Strain JBTF-M23T contained Q-8 as the predominant ubiquinone and C16 : 1  ω7c and/or C16 : 1  ω6c, C16 : 0 and C18 : 1  ω7c as the major fatty acids. The major polar lipids of strain JBTF-M23T were phosphatidylethanolamine and one unidentified aminolipid. Distinguished phenotypic properties, along with the phylogenetic and genetic distinctiveness, revealed that strain JBTF-M23T is separated from recognized Pseudoalteromonas species. On the basis of the data presented, strain JBTF-M23Tis considered to represent a novel species of the genus Pseudoalteromonas , for which the name Pseudoalteromonas caenipelagi sp. nov. is proposed. The type strain is JBTF-M23T(=KACC 19900T=NBRC 113647T).

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.

Streptomyces chlorus sp. nov. and Streptomyces viridis sp. nov., isolated from soil

2013 ◽  
Vol 63 (Pt_5) ◽  
pp. 1728-1733 ◽  
Author(s):  
Byung-Yong Kim ◽  
Xiaoying Rong ◽  
Tiago D. Zucchi ◽  
Ying Huang ◽  
Michael Goodfellow
Keyword(s):  
Type Species ◽  
Aerial Mycelium ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Respective Type ◽  
Isoprenoid Quinones ◽  
Type Strains ◽  
Light Green

Two actinomycete strains, BK125T and BK199T, isolated from a hay meadow soil sample were investigated to determine their taxonomic position using a polyphasic approach. The isolates produced greenish-yellow and light green aerial mycelium on oatmeal agar, respectively. They contained anteiso-C15 : 0, iso-C15 : 0 and C16 : 0 as the major fatty acids, and MK-9 (H6) and MK-9 (H8) as the predominant isoprenoid quinones. Phylogenetic analysis of the 16S rRNA gene sequences showed that the isolates formed distinct phyletic lines towards the periphery of the Streptomyces prasinus subclade. Analysis of DNA–DNA relatedness between the two isolates showed that they belonged to different genomic species. The organisms were also distinguished from one another and from type strains of species classified in the S. prasinus subclade using a combination of genotypic and phenotypic properties. On the basis of these data, it is proposed that the isolates be assigned to the genus Streptomyces as Streptomyces chlorus sp. nov. and Streptomyces viridis sp. nov. with isolates BK125T ( = KACC 20902T = CGMCC 4.5798T) and BK199T ( = KACC 21003T = CGMCC 4.6824T) as the respective type strains.

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).

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