scholarly journals Plantactinospora veratri sp. nov., an actinomycete isolated from black false hellebore root (Veratrum nigrum L.)

2015 ◽  
Vol 65 (Pt_6) ◽  
pp. 1799-1804 ◽  
Author(s):  
He Xing ◽  
Chongxi Liu ◽  
Yuejing Zhang ◽  
Junwei Zhao ◽  
Chuang Li ◽  
...  
Keyword(s):  
Type Species ◽  
Rrna Gene ◽  
The Novel ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
Content Type ◽  
Mycolic Acids ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Sequence Similarities

A novel actinomycete, designated strain NEAU-FHS4T, was isolated from the root of black false hellebore (Veratrum nigrum L.). Strain NEAU-FHS4T formed single spores with smooth surfaces on substrate mycelium. The novel strain contained meso-diaminopimelic as amino acid of the peptidoglycan and xylose and glucose as whole-cell sugars. The predominant menaquinones were MK-10(H6) and MK-10(H8). Mycolic acids were not detected. The diagnostic phospholipids were phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylinositol. The predominant cellular fatty acids were iso-C16 : 0, C16 : 0, C18 : 0 and anteiso-C17 : 0. Phenotypic and chemotaxonomic analysis showed that the novel isolate had characteristics typical of members of the genus Plantactinospora . 16S rRNA gene sequence analysis also indicated that strain NEAU-FHS4T belonged to the genus Plantactinospora , with highest sequence similarities to Plantactinospora mayteni YIM 61359T (98.88 %) and Plantactinospora endophytica YIM 68255T (98.85 %). The results of DNA–DNA hybridization and physiological and biochemical tests allowed genotypic and phenotypic differentiation of the novel strain from the most closely related strains. Based on morphological, chemotaxonomic and phylogenetic data, strain NEAU-FHS4T is considered to represent a novel species of the genus Plantactinospora , for which the name Plantactinospora veratri sp. nov. is proposed. The type strain is NEAU-FHS4T ( = CGMCC 4.7143T = DSM 46718T).

Kaistia defluvii sp. nov., isolated from river sediment

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 2878-2882 ◽  
Author(s):  
Long Jin ◽  
Kwang Kyu Kim ◽  
Hyung-Gwan Lee ◽  
Chi-Yong Ahn ◽  
Hee-Mock Oh
Keyword(s):  
Type Species ◽  
Gene Sequence ◽  
River Sediment ◽  
Novel Species ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Sequence Similarities

A Gram-stain-negative, aerobic, non-motile, rod- and coccus-shaped bacterium, designated strain B6-12T, was isolated from sediment collected from the River Geumho in South Korea. In comparative 16S rRNA gene sequence analysis, the novel strain appeared to be affiliated with the class Alphaproteobacteria and to be most closely related to Kaistia adipata KCTC 12095T, Kaistia dalseonensis DSM 18800T, Kaistia geumhonensis DSM 18799T, Kaistia granuli KCTC 12575T, Kaistia soli KACC 12605T and Kaistia terrae KACC 12910T, with sequence similarities of 96.2–99.1 %. The predominant ubiquinone in the isolate was Q-10, major fatty acids were C18 : 0, C18 : 1ω7c and C19 : 0ω8c cyclo, and genomic DNA G+C content was 63.0 mol%. Based on the phylogenetic and chemotaxonomic evidence and the results of DNA–DNA hybridizations, strain B6-12T represents a novel species in the genus Kaistia , for which the name Kaistia defluvii sp. nov. is proposed. The type strain is B6-12T ( = KCTC 23766T  = JCM 18034T).

scholarly journals Burkholderia monticola sp. nov., isolated from mountain soil

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 504-509 ◽  
Author(s):  
Inwoo Baek ◽  
Boram Seo ◽  
Imchang Lee ◽  
Hana Yi ◽  
Jongsik Chun
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Closely Related Species ◽  
Phenotypic Differentiation ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Sequence Similarities

An ivory/yellow, Gram-stain-negative, short-rod-shaped, aerobic bacterial strain, designated JC2948T, was isolated from a soil sample taken from Gwanak Mountain, Republic of Korea. 16S rRNA gene sequence analysis indicated that strain JC2948T belongs to the genus Burkholderia . The test strain showed highest sequence similarities to Burkholderia tropica LMG 22274T (97.6 %), Burkholderia acidipaludis NBRC 101816T (97.5 %), Burkholderia tuberum LMG 21444T (97.5 %), Burkholderia sprentiae LMG 27175T (97.4 %), Burkholderia terricola LMG 20594T (97.3 %) and Burkholderia diazotrophica LMG 26031T (97.1 %). Based on average nucleotide identity (ANI) values, the new isolate represents a novel genomic species as it shows less than 90 % ANI values with other closely related species. Also, other phylosiological and biochemical comparisons allowed the phenotypic differentiation of strain JC2948T from other members of the genus Burkholderia . Therefore, we suggest that this strain should be classified as the type strain of a novel species of the genus Burkholderia . The name Burkholderia monticola sp. nov. (type strain, JC2948T = JCM 19904T = KACC 17924T) is proposed.

scholarly journals Promicromonospora endophytica sp. nov., an endophytic actinobacterium isolated from the root of an Australian native Grey Box tree

2012 ◽  
Vol 62 (Pt_7) ◽  
pp. 1687-1691 ◽  
Author(s):  
Onuma Kaewkla ◽  
Christopher M. M. Franco
Keyword(s):  
Type Species ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Differentiation ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Gene Sequence Analysis ◽  
Endophytic Actinobacterium ◽  
The Family

A novel aerobic actinobacterium, strain EUM 273T, was isolated from the root of a Grey Box tree (Eucalyptus microcarpa Maiden). Cells were Gram-staining-positive with well-developed substrate mycelia which were non-motile and rod-like, with coccoid elements. Phylogenetic evaluation based on 16S rRNA gene sequence analysis placed the isolate as a member of the family Promicromonosporaceae that was most closely related to Promicromonospora xylanilytica YIM 61515T (98.2 %) and Promicromonospora vindobonensis V45T (98 %). Chemotaxonomic data including cell wall components, major menaquinone and major fatty acids confirmed the affiliation of strain EUM 273T to the genus Promicromonospora . The results of the phylogenetic analysis, including physiological and biochemical studies in combination with DNA–DNA hybridization, allowed the genotypic and phenotypic differentiation of strain EUM 273T from the closest related species with validly published names. The name proposed for the novel species is Promicromonospora endophytica sp. nov. The type strain is EUM 273T ( = DSM 23716T = NRRL B-24816T).

scholarly journals Lentzea jiangxiensis sp. nov., isolated from acidic soil

2012 ◽  
Vol 62 (Pt_10) ◽  
pp. 2342-2346 ◽  
Author(s):  
Xiaomin Li ◽  
Limin Zhang ◽  
Yun Ding ◽  
Yongsheng Gao ◽  
Jisheng Ruan ◽  
...  
Keyword(s):  
Type Species ◽  
Acidic Soil ◽  
Jiangxi Province ◽  
Rrna Gene ◽  
The Novel ◽  
Biochemical Tests ◽  
Closely Related Species ◽  
Phenotypic Differentiation ◽  
Content Type ◽  
Link Type

A novel actinomycete, designated strain FXJ1.034T, was isolated from acidic soil collected in Jiangxi Province, South-east China. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain FXJ1.034T belonged to the genus Lentzea and showed high sequence similarities to Lentzea kentuckyensis NRRL B-24416T (98.5 %) and Lentzea albida NBRC 16102T (98.3 %). Morphological and chemotaxonomic characteristics supported its assignment to the genus Lentzea . The results of DNA–DNA hybridization, physiological and biochemical tests allowed genotypic and phenotypic differentiation of the novel strain from closely related species. Based on the evidence presented here, strain FXJ1.034T represents a novel species of the genus Lentzea , for which the name Lentzea jiangxiensis sp. nov. is proposed. The type strain is FXJ1.034T ( = CGMCC 4.6609T  = NBRC 106680T).

scholarly journals Sphingobacterium detergens sp. nov., a surfactant-producing bacterium isolated from soil

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 3036-3041 ◽  
Author(s):  
Ana M. Marqués ◽  
César Burgos-Díaz ◽  
Francisco José Aranda ◽  
José Antonio Teruel ◽  
Àngels Manresa ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Type Species ◽  
Gene Sequence ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Genotypic Characteristics ◽  
Sequence Similarities

A novel Gram-negative-staining strain, designated 6.2ST, was isolated from a soil sample and identified as a biosurfactant producer. Its taxonomic position was investigated using a polyphasic approach. The cells were non-motile, non-spore-forming rods. The organism grew optimally at 30-37 °C, with 0–3 % (w/v) NaCl, and at pH 7.0. Based on 16S rRNA gene sequence analysis, strain 6.2ST was found to be a member of the genus Sphingobacterium and was most closely related to four type species of the genus, showing sequence similarities of 96.8–98.9 %. Partial chaperonin 60 (cpn60) gene sequence analysis was useful in resolving the phylogenetic relationships between strain 6.2ST and closely related taxa, with similarities ranging from 85.5 % (with Sphingobacterium thalpophilum DSM 11723T) to 90.3 % (with Sphingobacterium canadense CR11T and Sphingobacterium multivorum JCM 21156T). The results of DNA–DNA hybridization experiments between the novel strain and its closest relatives gave a DNA–DNA relatedness value of less than 70 %, and consequently confirmed that this new strain did not belong to a previously described species of the genus Sphingobacterium . The major fatty acids were summed feature 3 (iso-C15 : 0 2 OH and/or C16 : 1ω7c); iso-C15 : 0; iso-C17 : 0 3-OH and C16 : 0. The G+C content of the genomic DNA was 40.0 mol%. According to its phenotypic and genotypic characteristics and the phylogenetic data, strain 6.2ST represents a novel species of the genus Sphingobacterium , for which the name Sphingobacterium detergens sp. nov. is proposed. The type strain is 6.2ST ( = CECT 7938T = LMG 26465T).

scholarly journals Agromyces humi sp. nov., actinobacterium isolated from farm soil

2020 ◽  
Vol 70 (9) ◽  
pp. 5032-5039 ◽  
Author(s):  
Jae-Chan Lee ◽  
Kyung-Sook Whang
Keyword(s):  
Type Species ◽  
Phylogenomic Analysis ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Phyletic Line ◽  
Phylogenomic Analyses ◽  
The 16S Rrna Gene ◽  
Sequence Similarities

A Gram-stain-positive actinobacterial strain, designated ANK073T, was isolated from rhizosphere soil sampled at a spinach farming field in Shinan, Republic of Korea. Cells of strain ANK073T were found to be aerobic, non-motile, non-spore-forming rods which could grow at 20–40 °C (optimum, 30 °C), at pH 6.0–10.0 (optimum, pH 6.5–7.5) and at salinities of 0–4 % (w/v) NaCl (optimum, 0 % NaCl). The 16S rRNA gene sequence analysis showed that strain ANK073T belongs to the genus Agromyces with high sequence similarities to Agromyces humatus CD5T (98.8 %), Agromyces tardus SJ-23T (98.5 %) and Agromyces iriomotensis IY07-20T (98.4 %). The phylogenetic analysis indicated that strain ANK073T formed a distinct phyletic line in the genus Agromyces and the results of DNA–DNA relatedness and phylogenomic analysis based on whole genome sequences demonstrated that strain ANK073T could be separated from its closest relatives in the genus Agromyces . The strain contained 2,4-diaminobutylic acid, glycine, d-glutamic acid and d-alanine in the peptidoglycan. The predominant menaquinones were identified as MK-12 and MK-11, and the major fatty acids were anteiso-C17 : 0, anteiso-C15 :  0 and iso-C15:0. The major polar lipids were identified as diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The G+C content of the genome was determined to be 70.2 mol%. On the basis of its phenotypic and chemotaxonomic properties and the results of phylogenetic and phylogenomic analyses, strain ANK073T is considered to represent a novel species in the genus Agromyces , for which the name Agromyces humi sp. nov. is proposed. The type strain is ANK073T (=KACC 18683T=NBRC 111825T).

scholarly journals Nonomuraea solani sp. nov., an actinomycete isolated from eggplant root (Solanum melongena L.)

2013 ◽  
Vol 63 (Pt_7) ◽  
pp. 2418-2423 ◽  
Author(s):  
Xiangjing Wang ◽  
Junwei Zhao ◽  
Chongxi Liu ◽  
Jidong Wang ◽  
Yue Shen ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Solanum Melongena ◽  
Rrna Gene ◽  
Closely Related Species ◽  
Phenotypic Differentiation ◽  
Content Type ◽  
Link Type ◽  
The 16S Rrna Gene ◽  
Sequence Similarities

A novel actinomycete, designated strain NEAU-Z6T, was isolated from eggplant (Solanum melongena L.) root. Phylogenetic analysis based on the 16S rRNA gene sequence showed that strain NEAU-Z6T belonged to the genus Nonomuraea , with highest sequence similarity to Nonomuraea monospora PT 708T (98.83 %), Nonomuraea rosea GW 12687T (98.55 %) and Nonomuraea rhizophila YIM 67092T (98.02 %). Sequence similarities between strain NEAU-Z6T and other species of the genus Nonomuraea ranged from 97.94 % ( Nonomuraea candida HMC10T) to 96.30 % ( Nonomuraea wenchangensis 210417T). Key morphological, physiological and chemotaxonomic characteristics of strain NEAU-Z6T were congruent with the description of the genus Nonomuraea . The G+C content of the genomic DNA was 64.51 mol%. DNA–DNA relatedness and comparative analysis of physiological, biochemical and chemotaxonomic data allowed genotypic and phenotypic differentiation of strain NEAU-Z6T from closely related species. Thus, strain NEAU-Z6T represents a novel species of the genus Nonomuraea , for which the name Nonomuraea solani sp. nov. is proposed. The type strain is NEAU-Z6T ( = CGMCC 4.7037T = DSM 45729T).

Pedobacter ginsenosidimutans sp. nov., with ginsenoside-converting activity

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4396-4401 ◽  
Author(s):  
Jung-Eun Yang ◽  
Heung-Min Son ◽  
Jung Min Lee ◽  
Heon-Sub Shin ◽  
Sang-Yong Park ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Biochemical Tests ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
The Republic

A Gram-reaction-negative, strictly aerobic, non-motile, non-spore-forming and rod-shaped bacterial strain, designated THG-45T, was isolated from soil of a ginseng field of Pocheon province in the Republic of Korea and its taxonomic position was investigated by a polyphasic approach. Growth occurred at 4–30 °C, at pH 5.5–9.0 and with 0–2 % (w/v) NaCl on nutrient agar. On the basis of 16S rRNA gene sequence similarity, strain THG-45T was shown to belong to the genus Pedobacter and was related to Pedobacter borealis G-1T (98.8 %), P. alluvionis NWER-II11T (97.9 %), P. agri PB92T (97.9 %), P. terrae DS-57T (97.5 %), P. suwonensis 15-52T (97.4 %), P. sandarakinus DS-27T (97.0 %) and P. soli 15-51T (97.0 %), but DNA relatedness between strain THG-45T and these strains was below 36 %. The G+C content of the genomic DNA was 39 mol%. The only isoprenoid quinone detected in strain THG-45T was menaquinone-7 (MK-7). The predominant fatty acids were iso-C15 : 0, summed feature 3 (comprising C16 : 1ω6c and/or C16 : 1ω7c) and iso-C17 : 0 3-OH, and the major polar lipids were phosphatidylethanolamine and an unidentified aminophosphoglycolipid. Phenotypic data and phylogenetic inference supported the affiliation of strain THG-45T to the genus Pedobacter , and a number of biochemical tests differentiated strain THG-45T from the recognized species of the genus Pedobacter . Therefore, the novel isolate represents a novel species, for which the name Pedobacter ginsenosidimutans sp. nov. is proposed, with THG-45T as the type strain ( = KACC 14530T = JCM 16721T).

scholarly journals Acetobacteroides hydrogenigenes gen. nov., sp. nov., an anaerobic hydrogen-producing bacterium in the family Rikenellaceae isolated from a reed swamp

2014 ◽  
Vol 64 (Pt_9) ◽  
pp. 2986-2991 ◽  
Author(s):  
Xiao-Li Su ◽  
Qi Tian ◽  
Jie Zhang ◽  
Xian-Zheng Yuan ◽  
Xiao-Shuang Shi ◽  
...  
Keyword(s):  
Yeast Extract ◽  
Type Species ◽  
Wastewater Sludge ◽  
Rrna Gene ◽  
Strictly Anaerobic ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Sequence Similarities

A strictly anaerobic, mesophilic, carbohydrate-fermenting, hydrogen-producing bacterium, designated strain RL-CT, was isolated from a reed swamp in China. Cells were Gram-stain-negative, catalase-negative, non-spore-forming, non-motile rods measuring 0.7–1.0 µm in width and 3.0–8.0 µm in length. The optimum temperature for growth of strain RL-CT was 37 °C (range 25–40 °C) and pH 7.0–7.5 (range pH 5.7–8.0). The strain could grow fermentatively on yeast extract, tryptone, arabinose, glucose, galactose, mannose, maltose, lactose, glycogen, pectin and starch. The main end products of glucose fermentation were acetate, H2 and CO2. Organic acids, alcohols and amino acids were not utilized for growth. Yeast extract was not required for growth; however, it stimulated growth slightly. Nitrate, sulfate, sulfite, thiosulfate, elemental sulfur and Fe(III) nitrilotriacetate were not reduced as terminal electron acceptors. Aesculin was hydrolysed but not gelatin. Indole and H2S were produced from yeast extract. The G+C content of the genomic DNA was 51.2 mol%. The major cellular fatty acids were iso-C15 : 0, anteiso-C15 : 0 and C16 : 0. The most abundant polar lipid of strain RL-CT was phosphatidylethanolamine. 16S rRNA gene sequence analysis revealed that the isolate belongs to the uncultured Blvii28 wastewater-sludge group (http://www.arb-silva.de/) in the family Rikenellaceae of the phylum Bacteroidetes, and shared low sequence similarities with the related species Alistipes shahii WAL 8301T (81.8 %), Rikenella microfusus ATCC 29728T (81.7 %) and Anaerocella delicata WN081T (80.9 %). On the basis of these data, a novel species in a new genus of the family Rikenellaceae is proposed, Acetobacteroides hydrogenigenes gen. nov., sp. nov. The type strain of the type species is RL-CT ( = JCM 17603T = DSM 24657T = CGMCC 1.5173T).

Gordonia phosphorivorans sp. nov., isolated from a wastewater bioreactor with phosphorus removal

2013 ◽  
Vol 63 (Pt_1) ◽  
pp. 230-235 ◽  
Author(s):  
P. Kämpfer ◽  
K. Martin ◽  
W. Dott
Keyword(s):  
Phosphorus Removal ◽  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Mycolic Acids ◽  
Link Type

Two Gram-stain-positive, non-endospore-forming actinobacteria (Ca8Tand Ca14) were isolated from a bioreactor with extensive phosphorus removal. Based on 16S rRNA gene sequence similarity comparisons, strains Ca8T and Ca14 were shown to belong to the genus Gordonia and were most closely related to Gordonia hirsuta DSM 44140T (98.0 % sequence similarity) and Gordonia hydrophobica DSM 44015T (97.2 %). In comparison with the sequences of the type strains of all other species of the genus Gordonia tested, similarities were below 97 %. The quinone systems of the strains were determined to consist predominantly of MK-9H2. The polar lipid profile for both organisms consisted of diphosphatidylglycerol, phosphatidylglycerol, phospatidylethanolamine, phosphatidylinositol and phosphatidylinositol mannoside. Whole-organism hydrolysates contained meso-diaminopimelic acid as the diamino acid of the peptidoglycan; mycolic acids were detected as well. These chemotaxonomic traits and the major fatty acids, which were C16 : 1 cis-9, C16 : 0 and C18 : 1 and tuberculostearic acid strongly supported the grouping of strains Ca8T and Ca14 into the genus Gordonia . The two strains showed a DNA–DNA similarity of 96 %. DNA–DNA hybridizations of strain Ca8T with G. hirsuta DSM 44140T and G. hydrophobica DSM 44015T resulted in values of 26.3 and 25.0 %, respectively. These results and those of the physiological and biochemical tests allowed a clear phenotypic differentiation of strains Ca8T and Ca14 from the most closely related species of the genus Gordonia . It is concluded that strains Ca8T and Ca14 represent a novel species, for which the name Gordonia phosphorivorans sp. nov. is proposed, with the type strain Ca8T ( = DSM 45630T = CCUG 61533T = CCM 7957T = LMG 26648T).

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