scholarly journals Cellulomonas pakistanensis sp. nov., a moderately halotolerant Actinobacteria

2014 ◽  
Vol 64 (Pt_7) ◽  
pp. 2305-2311 ◽  
Author(s):  
Iftikhar Ahmed ◽  
Takuji Kudo ◽  
Saira Abbas ◽  
Muhammad Ehsan ◽  
Takao Iino ◽  
...  
Keyword(s):  
Type Species ◽  
Polar Lipids ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type ◽  
Physiological And Biochemical Characteristics ◽  
Plant Growth Promoting ◽  
Type Strains

A rod-shaped, motile, facultatively anaerobic and moderately halotolerant plant-growth-promoting actinobacterial strain, designated NCCP-11T, was isolated from paddy grains. To delineate its taxonomic position, the strain was subjected to a polyphasic characterization. Cells of strain NCCP-11T grew at 10–37 °C (optimum 28–32 °C), at pH 6–9 (optimum pH 7) and in 0–12 % (w/v) NaCl (optimum 1–2 %) in broth medium. Based on 16S rRNA gene sequence analysis, strain NCCP-11T showed highest similarity to the type strains of Cellulomonas hominis (98.99 %) and Cellulomonas denverensis (98.09 %) and less than 97 % with other closely related taxa. The chemotaxonomic data [major menaquinone: MK-9(H4); cell-wall peptidoglycan: type A4β; major fatty acids: anteiso-C15 : 0, C16 : 0, C14 : 0 and anteiso-C17 : 0; major polar lipids: diphosphatidylglycerol, phosphatidylinositol, phosphatidylinositolmannosides and two unknown polar lipids] also supported the affiliation of strain NCCP-11T to the genus Cellulomonas . The level of DNA–DNA relatedness between strain NCCP-11T and the two type strains mentioned above was less than 42.7 %. On the basis of DNA–DNA relatedness, physiological and biochemical characteristics and phylogenetic position, strain NCCP-11T can be differentiated from species of the genus Cellulomonas with validly published names and thus represents a novel species, for which the name Cellulomonas pakistanensis sp. nov. is proposed. The type strain is NCCP-11T ( = DSM 24792T = JCM 18755T = KCTC 19798T).

scholarly journals Sphingobacterium yanglingense sp. nov., isolated from the nodule surface of soybean

2014 ◽  
Vol 64 (Pt_11) ◽  
pp. 3862-3866 ◽  
Author(s):  
Shi Peng ◽  
Dong Dan Hong ◽  
Yang Bing Xin ◽  
Li Ming Jun ◽  
Wei Ge Hong
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Physiological And Biochemical Characteristics ◽  
Gene Sequence Analysis ◽  
Type Strains

A Gram-staining-negative, non-motile, catalase- and oxidase-positive strain, designated CCNWSP36-1T, was isolated from the nodule surface of soybean [Glycine max (L.) Merrill] cultivar Zhonghuang 13. The 16S rRNA gene sequence analysis clearly showed that the isolate represented a member of the genus Sphingobacterium . On the basis of pairwise comparisons of 16S rRNA gene sequences, strain CCNWSP36-1T showed 96.8 % similarity to Sphingobacterium nematocida CCTCC AB 2010390T and less than 95.2 % similarity to other members of the genus Sphingobacterium . Growth of strain CCNWSP36-1T occurred at 10–40 °C and at pH 5.0–9.0. The NaCl range (w/v) for growth was 0–4 %. The predominant isoprenoid quinone was MK-7. The polar lipids were phosphatidylethanolamine and several unidentified polar lipids. Sphingolipid was present. The major fatty acids were iso-C15 : 0 and summed feature 3 (comprising C16 : 1ω6c and/or C16 : 1ω7c). The G+C content of the genomic DNA was 41.1 mol%. As the physiological and biochemical characteristics of strain CCNWSP36-1T and the type strains of its closest phylogenetic neighbours showed clear differences, a novel species, Sphingobacterium yanglingense, is proposed. The type strain is CCNWSP36-1T ( = ACCC 19328T = JCM 30166T).

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).

Luteimonas huabeiensis sp. nov., isolated from stratum water

2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3352-3357 ◽  
Author(s):  
Gang Wu ◽  
Yang Liu ◽  
Qing Li ◽  
Huijing Du ◽  
Jing You ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Type Species ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Physiological And Biochemical Characteristics ◽  
Taxonomic Approach ◽  
Type Strains ◽  
Physiological And Biochemical

A yellow-coloured bacterial strain, designated HB2T, isolated from stratum water was investigated using a polyphasic taxonomic approach. Cells were Gram-stain-negative, aerobic, non-spore-forming, non-flagellated and rod-shaped. Phylogenetic analysis based on 16S rRNA gene sequences showed that the strain was a member of the genus Luteimonas , its three closest neighbours being Luteimonas aquatica BCRC 17731T (97.5 % similarity), Luteimonas marina JCM 12488T (97.3 %) and Luteimonas aestuarii DSM 19680T (96.9 %). Strain HB2T could clearly be distinguished from these type strains based on phylogenetic analysis, DNA–DNA hybridization, fatty acid composition and a range of physiological and biochemical characteristics. It is evident from the genotypic and phenotypic data that strain HB2T represents a novel species of the genus Luteimonas , for which the name Luteimonas huabeiensis sp. nov. is proposed. The type strain is HB2T ( = DSM 26429T = CICC 11005sT).

scholarly journals Description of Kribbella italica sp. nov., isolated from a Roman catacomb

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 491-496 ◽  
Author(s):  
Gareth J. Everest ◽  
Sarah M. Curtis ◽  
Filomena De Leo ◽  
Clara Urzì ◽  
Paul R. Meyers
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Dna Hybridization ◽  
Type Species ◽  
Rrna Gene ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type ◽  
Type Strains ◽  
The 16S Rrna Gene

A novel actinobacterium, strain BC637T, was isolated from a biodeteriogenic biofilm sample collected in 2009 in the Saint Callixstus Roman catacomb. The strain was found to belong to the genus Kribbella by analysis of the 16S rRNA gene. Phylogenetic analysis using the 16S rRNA gene and the gyrB, rpoB, relA, recA and atpD concatenated gene sequences showed that strain BC637T was most closely related to the type strains of Kribbella lupini and Kribbella endophytica . DNA–DNA hybridization experiments confirmed that strain BC637T is a genomic species that is distinct from its closest phylogenetic relatives, K. endophytica DSM 23718T (63 % DNA relatedness) and K. lupini LU14T (63 % DNA relatedness). Physiological comparisons showed that strain BC637T is phenotypically distinct from the type strains of K. endophytica and K. lupini . Thus, strain BC637T represents the type strain of a novel species, for which the name Kribella italica sp. nov. is proposed ( = DSM 28967T = NRRL B-59155T).

scholarly journals Vitellibacter nionensis sp. nov., isolated from a shallow water hydrothermal vent

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 692-697 ◽  
Author(s):  
Raju Rajasabapathy ◽  
Chellandi Mohandass ◽  
Jung-Hoon Yoon ◽  
Syed Gulam Dastager ◽  
Qing Liu ◽  
...  
Keyword(s):  
Shallow Water ◽  
Hydrothermal Vent ◽  
Type Species ◽  
Sequence Similarity ◽  
Physiological Data ◽  
Rrna Gene ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type ◽  
Type Strains

A novel, Gram-stain-negative, non-motile, rod-shaped yellow bacterium, designated VBW088T was isolated from a shallow water hydrothermal vent in Espalamaca in the Azores. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain VBW088T clustered with three type strains of species of the genus Vitellibacter and exhibited a sequence similarity of 97.3 % with Vitellibacter soesokkakensis RSSK-12T. However, strain VBW088T and V. soesokkakensis RSSK-12T exhibited low DNA–DNA relatedness (12.7±3.5 %). Strain VBW088T was positive for catalase and oxidase. Growth occurred at 10–37 °C, with the optimum at 30 °C, and at pH 6.0–8.0 (optimum pH 6.0) and in up to 5 % (w/v) NaCl with optimum growth at 1–2 % (w/v) NaCl. The major fatty acids (>10 %) were iso-C15 : 0 (33.5 %) and iso-C17 : 0 3-OH (32.0 %). The polar lipids detected in strain VBW088T consisted of phosphatidylethanolamine, one unidentified aminolipid and three unidentified phospholipids. The DNA G+C content of strain VBW088T was 36.7 mol%. On the basis of phylogenetic inference, DNA–DNA relatedness, chemotaxonomic analysis and physiological data, the isolate represents a novel species of the genus Vitellibacter , for which the name Vitellibacter nionensis sp. nov. is proposed, with the type strain as VBW088T ( = KCTC 32420T = MCC 2354T).

scholarly journals Microbacterium shaanxiense sp. nov., isolated from the nodule surface of soybean

2015 ◽  
Vol 65 (Pt_5) ◽  
pp. 1437-1443 ◽  
Author(s):  
Shi Peng ◽  
Liu Dongying ◽  
Yang Bingxin ◽  
Li Mingjun ◽  
Wei Gehong
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Type Species ◽  
Rrna Gene ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type ◽  
Physiological And Biochemical Characteristics

A Gram-stain-positive, non-motile, catalase- and oxidase-positive rod, designated CCNWSP60T, was isolated from the nodule surface of soybean [Glycine max (L.) Merrill] cultivar Zhonghuang 13. 16S rRNA gene sequence analysis clearly showed that the isolate belonged to the genus Microbacterium . On the basis of pairwise comparisons of 16S rRNA gene sequences, strain CCNWSP60T was most closely related to Microbacterium murale DSM 22178T (98.8 % similarity), Microbacterium aerolatum DSM 14217T (98.3 %), Microbacterium ginsengiterrae DSM 24823T (98.0 %) and Microbacterium profundi DSM 22239T (97.8 %). However, the DNA–DNA relatedness values of strain CCNWSP60T to M. murale DSM 22178T, M. aerolatum DSM 14217T, M. ginsengiterrae DSM 24823T and M. profundi DSM 22239T were 48 %, 43 %, 28 % and 41 %, respectively. Growth of strain CCNWSP60T occurred at 4–40 °C and at pH 5.0–9.0. The NaCl range for growth was 0–4 % (w/v). The predominant menaquinone of strain CCNWSP60T was MK-13; MK-12 was also detected. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, one unidentified glycolipid and one unidentified phospholipid. The diagnostic diamino acid of the peptidoglycan was ornithine. The acyl type of the peptidoglycan was glycolyl. The major fatty acids were anteiso-C15 : 0, iso-C16 : 0 and C16 : 0. The DNA G+C content of the type strain was 67.4 mol%. As the physiological and biochemical characteristics as well as the DNA–DNA relatedness between strain CCNWSP60T and the type strains of its closest phylogenetic neighbours showed clear differences, a novel species Microbacterium shaanxiense is proposed to accommodate it. The type strain is CCNWSP60T ( = DSM 28301T = ACCC 19329T = JCM 30164T).

Taxonomic study of the genus Tepidiphilus: transfer of Petrobacter succinatimandens to the genus Tepidiphilus as Tepidiphilus succinatimandens comb. nov., emended description of the genus Tepidiphilus and description of Tepidiphilus thermophilus sp. nov., isolated from a terrestrial hot spring

2014 ◽  
Vol 64 (Pt_1) ◽  
pp. 228-235 ◽  
Author(s):  
Abhijit Poddar ◽  
Rinchen T. Lepcha ◽  
Subrata K. Das
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Hot Spring ◽  
Rrna Gene ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type ◽  
Terrestrial Hot Spring ◽  
Type Strains

Comparative phenotypic, chemotaxonomic and genetic analysis revealed significant similarities among strains of the genera Tepidiphilus and Petrobacter . Analysis of 16S rRNA gene sequences and DNA–DNA relatedness of the type strains Tepidiphilus margaritifer N2-214T and Petrobacter succinatimandens 4BONT showed sequence similarity of 98.9 % and less than 40 % relatedness, indicating that these strains represent different species of same genus. Both strains had phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine and diphosphatidylglycerol as major polar lipids. Their fatty acid profiles were almost identical, with the predominant fatty acids C16 : 0, C17 : 0 cyclo and C19 : 0 cyclo ω8c. In view of this, we propose to transfer the member of the genus Petrobacter to the genus Tepidiphilus as Tepidiphilus succinatimandens comb. nov. and to emend the description of the genus Tepidiphilus . Further, a novel bacterium, strain JHK30T, was isolated from a terrestrial hot spring located at Jharkhand, India, and was identified following a polyphasic approach. Cells were non-sporulating, aerobic, Gram-stain-negative rods and motile by a single polar flagellum. Optimum temperature for growth was 50–55 °C at pH 6.5–7.0. 16S rRNA gene sequence analysis revealed 99.71 % similarity with P. succinatimandens 4BONT ( = DSM 15512T) and 98.71 % with T. margaritifer N2-214T ( = DSM 15129T). However, DNA–DNA relatedness of strain JHK30T with these two type strains was well below 70 %. The DNA G+C base composition was 66.1 mol%. Strain JHK30T represents a novel species of the genus Tepidiphilus for which the name Tepidiphilus thermophilus sp. nov. is proposed. The type strain is JHK30T ( = JCM 19170T = LMG 27587T= DSM 27220T).

scholarly journals Planococcus halocryophilus sp. nov., an extreme sub-zero species from high Arctic permafrost

2012 ◽  
Vol 62 (Pt_8) ◽  
pp. 1937-1944 ◽  
Author(s):  
Nadia C. S. Mykytczuk ◽  
Roland C. Wilhelm ◽  
Lyle G. Whyte
Keyword(s):  
Type Species ◽  
High Arctic ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
Canadian High Arctic ◽  
Content Type ◽  
Link Type ◽  
Zero Growth ◽  
Type Strains ◽  
Genomic Relatedness

A novel aerobic, Gram-positive, motile, coccoid bacterial strain, designated Or1T, was isolated from permafrost active-layer soil collected from the Canadian high Arctic. Strain Or1T was capable of growth over a broad temperature range, including sub-zero growth (below −10 to 37 °C), and at high salinity (0–19 % NaCl), growing optimally at 25 °C, at pH 7.0–8.0 and in the presence of 2 % NaCl. Its taxonomic and phylogenetic position was determined by using a polyphasic approach, which indicated that strain Or1T was a member of the genus Planococcus . Phylogenetic analysis based on 16S rRNA gene sequences showed that strain Or1T belonged to the genus Planococcus , differing by 0.4–3.6 % from the type strains of all recognized Planococcus species, and was related most closely to Planococcus antarcticus CMS 26orT (98.8 % similarity) and Planococcus donghaensis JH1T (99.6 %). However, DNA–DNA hybridization experiments showed that strain Or1T had low genomic relatedness to Planococcus antarcticus CMS 26orT (18 %) and Planococcus donghaensis JH1T (46 %). The major menaquinones of strain Or1T were MK-7 (55 %), MK-8 (36 %) and MK-6 (9 %) and the major fatty acids were anteiso-C15 : 0, C16 : 1ω7c alcohol and anteiso-C17 : 0. The DNA G+C content of strain Or1T was 40.5 mol%. Differential phenotypic, phylogenetic and genomic data suggest that strain Or1T represents a novel species of the genus Planococcus , for which the name Planococcus halocryophilus sp. nov. is proposed. The type strain is Or1T ( = DSM 24743T = JCM 17719T).

scholarly journals Description of Comamonas serinivorans sp. nov., isolated from wheat straw compost

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 4141-4146 ◽  
Author(s):  
Daochen Zhu ◽  
Changxiao Xie ◽  
Ying Huang ◽  
Jianzhong Sun ◽  
Weimin Zhang
Keyword(s):  
Phylogenetic Analysis ◽  
16S Rrna ◽  
Type Species ◽  
Rrna Gene ◽  
Comamonas Testosteroni ◽  
16S Rrna Sequence ◽  
Content Type ◽  
Link Type ◽  
Physiological And Biochemical Characteristics ◽  
Type Strains

A Gram-stain-negative bacterium, designated SP-35T, was isolated from compost and was subjected to a taxonomic study. This isolate was short-rod-shaped and non-spore-forming. Phylogenetic analysis based on 16S rRNA sequence comparison indicated the isolate was related to the genus Comamonas . 16S rRNA gene sequence analysis showed that its closest neighbours were the type strains Comamonas odontotermitis Dant 3-8T (96.8 % similarity), Comamonas testosteroni DSM 50244T (96.5 %), Comamonas guangdongensis CY01T (95.9 %) and Comamonas composti YY287T (95.6 %). Using phylogenetic analysis, DNA–DNA hybridization, fatty acid composition data and a range of physiological and biochemical characteristics we could clearly distinguish strain SP-35T from type strains of the genus Comamonas . The genomic DNA G+C content of strain SP-35T was 63.1 mol%. The predominant cellular fatty acids were C16 : 0, C17 : 0 cyclo, summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c) and summed feature 8 (C18 : 1ω6c and/or C18 : 1ω7c). The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine and phosphatidlyglycerol. Differences in phenotypic and phylogenetic characteristics support the classification of strain SP-35T as a representative of a novel species in the genus Comamonas , for which the name Comamonas serinivorans sp. nov. is proposed. The type strain is SP-35T ( = DSM 26136T = JCM 18194T).

Micromonospora maritima sp. nov., isolated from mangrove soil

2013 ◽  
Vol 63 (Pt_2) ◽  
pp. 554-559 ◽  
Author(s):  
Apakorn Songsumanus ◽  
Somboon Tanasupawat ◽  
Yasuhiro Igarashi ◽  
Takuji Kudo
Keyword(s):  
Type Species ◽  
Aerial Mycelium ◽  
Diaminopimelic Acid ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Mangrove Soil ◽  
Physiological And Biochemical Characteristics ◽  
Micromonospora Chalcea

Strain D10-9-5T was isolated from mangrove soil in Samut Sakhon province, Thailand. A polyphasic approach was used to determine the taxonomic position of the strain. The strain presented single rough spores on substrate mycelium and no aerial mycelium. Chemotaxonomic data supported the assignment of strain D10-9-5T to the genus Micromonospora based on the presence of meso-diaminopimelic acid and glycolyl muramic acid in the peptidoglycan, ribose, mannose, galactose, xylose and glucose as whole-cell sugars, MK-10(H4) (14.8 %), MK-10(H6) (46.7 %) and MK-10(H8) (27.5 %) as the predominant isoprenoid quinones, iso-C15 : 0 (17.9 %), anteiso-C17 : 0 (14.6 %), iso-C17 : 0 (9.6 %), C17 : 0 (8.0 %), iso-C16 : 0 (7.7 %) and C17 : 1ω8c (7.0 %) as the major cellular fatty acids, and diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannosides and phosphatidylethanolamine as the predominant phospholipids in the cell wall. The 16S rRNA gene sequence and phylogenetic analysis showed that strain D10-9-5 was closely related to Micromonospora marina JCM 12870T (99.6 %), Micromonospora coxensis JCM 13248 T (99.4 %), Micromonospora aurantiaca JCM 10878T (99.3 %), Micromonospora humi JCM15292T (99.3 %), Micromonospora halophytica JCM 3125T (99.1%) and Micromonospora chalcea JCM 3031T (99.1 %). Strain D10-9-5T could be clearly distinguished from related members of the genus Micromonospora by its physiological and biochemical characteristics as well as its phylogenetic position and level of DNA–DNA relatedness. Therefore, the strain represents a novel species for which the name Micromonospora maritima sp. nov. is proposed; the type strain is D10-9-5T ( = JCM 17013T = NBRC 108767T = PCU 322T = TISTR 2000T).

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