scholarly journals Description of Micrococcus aloeverae sp. nov., an endophytic actinobacterium isolated from Aloe vera

2014 ◽  
Vol 64 (Pt_10) ◽  
pp. 3427-3433 ◽  
Author(s):  
Om Prakash ◽  
Yogesh Nimonkar ◽  
Hitendra Munot ◽  
Avinash Sharma ◽  
Venkata Ramana Vemuluri ◽  
...  
Keyword(s):  
Cell Wall ◽  
Type Species ◽  
Micrococcus Luteus ◽  
Sequence Similarity ◽  
Aloe Vera ◽  
Protein Profiling ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Endophytic Actinobacterium

A yellow Gram-stain-positive, non-motile, non-endospore -forming, spherical endophytic actinobacterium, designated strain AE-6T, was isolated from the inner fleshy leaf tissues of Aloe barbadensis (Aloe vera) collected from Pune, Maharashtra, India. Strain AE-6T grew at high salt concentrations [10 % (w/v) NaCl], temperatures of 15–41 °C and a pH range of 5–12. It showed highest (99.7 %) 16S rRNA gene sequence similarity with Micrococcus yunnanensis YIM 65004T followed by Micrococcus luteus NCTC 2665T (99.6 %) and Micrococcus endophyticus YIM 56238T (99.0 %). Ribosomal protein profiling by MALDI-TOF/MS also showed it was most closely related to M. yunnanensis YIM 65004T and M. luteus NCTC 2665T. Like other members of the genus Micrococcus , strain AE-6T had a high content of branched chain fatty acids (iso-C15 : 0 and anteiso-C15 : 0). MK-8(H2) and MK-8 were the predominant isoprenoid quinones. Cell wall analysis showed an ‘A2 l-Lys-peptide subunit’ type of peptidoglycan and ribose to be the major cell wall sugar. The DNA G+C content was 70 mol%. Results of DNA–DNA hybridization of AE-6T with its closest relatives from the genus Micrococcus produced a value of less than 70%. Based on the results of this study, strain AE-6T could be clearly differentiated from other members of the genus Micrococcus . We propose that it represents a novel species of the genus Micrococcus and suggest the name Micrococcus aloeverae sp. nov., with strain AE-6T ( = MCC 2184T = DSM 27472T) as the type strain of the species.

scholarly journals Frigoribacterium endophyticum sp. nov., an endophytic actinobacterium isolated from the root of Anabasis elatior (C. A. Mey.) Schischk

2015 ◽  
Vol 65 (Pt_4) ◽  
pp. 1207-1212 ◽  
Author(s):  
Hong-Fei Wang ◽  
Yong-Guang Zhang ◽  
Ji-Yue Chen ◽  
Jian-Wei Guo ◽  
Li Li ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type ◽  
Endophytic Actinobacterium

A novel endophytic actinobacterium, designated EGI 6500707T, was isolated from the surface-sterilized root of a halophyte Anabasis elatior (C. A. Mey.) Schischk collected from Urumqi, Xinjiang province, north-west China, and characterized using a polyphasic approach. Cells were Gram-stain-positive, non-motile, short rods and produced white colonies. Growth occurred at 10–45 °C (optimum 25–30 °C), at pH 5–10 (optimum pH 8) and in presence of 0–4 % (w/v) NaCl (optimum 0–3 %). The predominant menaquinone was MK-9. The diagnostic phospholipids were diphosphatidylglycerol and phosphatidylglycerol. The major fatty acids were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0. The DNA G+C content of strain EGI 6500707T was 69.1 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain EGI 6500707T should be placed in the genus Frigoribacterium (family Microbacteriaceae , phylum Actinobacteria ), and that the novel strain exhibited the highest 16S rRNA gene sequence similarity to Frigoribacterium faeni JCM 11265T (99.1 %) and Frigoribacterium mesophilum MSL-08T (96.5 %). DNA–DNA relatedness between strain EGI 6500707T and F. faeni JCM 11265T was 47.2 %. On the basis of phenotypic and chemotaxonomic characteristics, phylogenetic analysis and DNA–DNA relatedness data, strain EGI 6500707T represents a novel species of the genus Frigoribacterium , for which the name Frigoribacterium endophyticum sp. nov. is proposed. The type strain is EGI 6500707T ( = JCM 30093T = KCTC 29493T).

Lysinibacillus manganicus sp. nov., isolated from manganese mining soil

2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3568-3573 ◽  
Author(s):  
Hongliang Liu ◽  
Yumei Song ◽  
Fang Chen ◽  
Shixue Zheng ◽  
Gejiao Wang
Keyword(s):  
Cell Wall ◽  
Dna Hybridization ◽  
Type Species ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Mining Soil ◽  
Link Type ◽  
Type Strains

A Gram-stain-positive, aerobic, motile, rod-shaped bacterium, designated strain Mn1-7T, was isolated from manganese mining soil in Tianjin, China. The closest phylogenetic relatives were Lysinibacillus massiliensis CCUG 49529T (97.2 % 16S rRNA gene sequence similarity), L. xylanilyticus XDB9T (96.7 %), L. sinduriensis JCM 15800T (96.2 %), L. odysseyi NBRC 100172T (95.9 %) and L. boronitolerans NBRC 103108T (95.4 %) (the type species of the genus). DNA–DNA hybridization values for strain Mn1-7T with the type strains of L. massiliensis and L. sinduriensis were 24.9 and 27.7 %, respectively. The genomic DNA G+C content was 38.4 mol%. The major menaquinone was MK-7 and the major fatty acids were iso-C15 : 0, iso-C16 : 0 and iso-C14 : 0. The major polar lipids were diphosphatidylglycerol and phosphatidylglycerol. The cell-wall peptidoglycan was type A4α (l-Lys–d-Asp), and the predominant cell-wall sugar was xylose. DNA–DNA hybridization results and comparison of phenotypic and chemotaxonomic characters between strain Mn1-7T and the phylogenetically most closely related strains revealed that the isolate represents a novel species of the genus Lysinibacillus , for which the name Lysinibacillus manganicus sp. nov. is proposed. The type strain is Mn1-7T ( = DSM 26584T = CCTCC AB 2012916T).

scholarly journals Arthrobacter nanjingensis sp. nov., a mineral-weathering bacterium isolated from forest soil

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 365-369 ◽  
Author(s):  
Zhi Huang ◽  
Yuan Yuan Bao ◽  
Tong Tong Yuan ◽  
Guo Xiang Wang ◽  
Lin Yan He ◽  
...  
Keyword(s):  
Cell Wall ◽  
Forest Soil ◽  
Type Species ◽  
Sequence Similarity ◽  
Mineral Weathering ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type

A Gram-stain-positive, non-motile, rod- or coccoid-shaped actinobacterium, designated strain A33T, was isolated from a forest soil sample from Nanjing, Jiangsu Province, PR China. The strain grew optimally at 30 °C, pH 7.0 and with 3 % NaCl (w/v). Phylogenetic analysis of the strain, based on 16S rRNA gene sequences, showed that it was most closely related to Arthrobacter woluwensis (98.4 % sequence similarity), Arthrobacter humicola (97.5 %), Arthrobacter globiformis (97.4 %), Arthrobacter oryzae (97.3 %) and Arthrobacter cupressi (97.0 %). The major cellular fatty acids were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C15 : 0; MK-9(H2) was the predominant respiratory quinone. The polar lipids comprised diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and three glycolipids. Cell-wall analysis revealed that the peptidoglycan type was A3α, based on l-lysine-l-alanine; the cell-wall sugars were galactose and mannose. The genomic G+C content of strain A33T was 66.8 mol%. The low DNA–DNA relatedness values between strain A33T and recognized species of the genus Arthrobacter and many phenotypic properties supported the classification of strain A33T as a representative of a novel species of the genus Arthrobacter , for which the name Arthrobacter nanjingensis sp. nov. is proposed. The type strain is A33T ( = CCTCC AB 2014069T = DSM 28237T).

scholarly journals Description of Domibacillus indicus sp. nov., isolated from ocean sediments and emended description of the genus Domibacillus

2014 ◽  
Vol 64 (Pt_9) ◽  
pp. 3010-3015 ◽  
Author(s):  
Avinash Sharma ◽  
Sunil Kumar Dhar ◽  
Om Prakash ◽  
Venkata Ramana Vemuluri ◽  
Vishal Thite ◽  
...  
Keyword(s):  
Cell Wall ◽  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Emended Description ◽  
Marine Sediment Sample

A novel Gram-stain-positive, spore-forming, aerobic, non-motile, rod-shaped bacterium designated strain SD111T that forms red-pigmented colonies was isolated from a marine sediment sample (collected from 5 m depth) from Lakshadweep, India. Strain SD111T grew well on seawater agar at pH 6–10 (optimum pH 7.5±0.2). It showed maximum (97.6 %) 16S rRNA gene sequence similarity and formed a monophyletic clade with Domibacillus robiginosus WS 4628T ( = DSM 25058T). The genomic DNA G+C content was 37.4 mol% and the strain showed 37.7 % DNA–DNA relatedness to D. robiginosus DSM 25058T. The major fatty acids were anteiso-C15 : 0, C16 : 0, iso-C15 : 0 and iso-C16 : 0 and MK-6 was the predominant quinone. The polar lipid profile of strain SD111T consisted of unidentified phospholipids (PL1 and PL2), phosphatidylglycerol (PG) and diphosphatidylglycerol (DPG). The cell wall contained meso-diaminopimelic acid and the peptidoglycan was of A1γ type. Glucose and ribose were detected as major cell-wall sugars. Results from polyphasic studies indicated that SD111T represents a novel species of the genus Domibacillus for which the name Domibacillus indicus sp. nov. is proposed. The type strain is SD111T ( = MCC 2255T = DSM 28032T).

Brevibacterium daeguense sp. nov., a nitrate-reducing bacterium isolated from a 4-chlorophenol enrichment culture

2013 ◽  
Vol 63 (Pt_1) ◽  
pp. 152-157 ◽  
Author(s):  
Yingshun Cui ◽  
Myung-Suk Kang ◽  
Sung-Geun Woo ◽  
Long Jin ◽  
Kwang Kyu Kim ◽  
...  
Keyword(s):  
Cell Wall ◽  
Type Species ◽  
Enrichment Culture ◽  
Sequence Similarity ◽  
Treatment Plant ◽  
Diaminopimelic Acid ◽  
Ring Cleavage ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type

A Gram-reaction-positive, non-spore-forming, aerobic actinobacterial strain (2C6-41T) was isolated from the activated sludge from an industrial wastewater treatment plant in Daegu, South Korea. Its taxonomic position was investigated by using a polyphasic approach. On the basis of 16S rRNA gene sequence similarity, closest phylogenetic relatives to strain 2C6-41T were Brevibacterium pityocampae DSM 21720T (97.2 %), Brevibacterium salitolerans KCTC 19616T (96.7 %), Brevibacterium album KCTC 19173T (96.2 %) and Brevibacterium samyangense KCCM 42316T (96.2 %). The DNA G+C content of strain 2C6-41T was 66.4 mol%. Chemotaxonomic data, which included MK-8(H2) as the major menaquinone; meso-diaminopimelic acid, glutamic acid and alanine as cell-wall amino acids; ribose, mannose and glucose as major cell-wall sugars; and anteiso-C15 : 0, anteiso-C17 : 0, C16 : 0 and iso-C15 : 0 as major fatty acids, supported the affiliation of strain 2C6-41T to the genus Brevibacterium . The aromatic ring cleavage enzyme catechol 1,2-dioxygenase was not detected in strain 2C6-41T, but catechol 2,3-dioxygenase was detected. The results of physiological and biochemical tests, and the low level of DNA–DNA relatedness to the closest phylogenetic relative enabled strain 2C6-41T to be differentiated genotypically and phenotypically from recognized species of the genus Brevibacterium . The isolate is therefore considered to represent a novel species in the genus Brevibacterium , for which the name Brevibacterium daeguense sp. nov. is proposed. The type strain is 2C6-41T ( = KCTC 19800T = JCM 17458T).

scholarly journals Corynebacterium atrinae sp. nov., isolated from the gastrointestinal tract of a pen shell, Atrina pectinata

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 531-536 ◽  
Author(s):  
Pil Soo Kim ◽  
Na-Ri Shin ◽  
Dong-Wook Hyun ◽  
Joon Yong Kim ◽  
Tae Woong Whon ◽  
...  
Keyword(s):  
Cell Wall ◽  
Gastrointestinal Tract ◽  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Pen Shell ◽  
Atrina Pectinata

A novel Gram-stain-positive, non-motile, facultatively anaerobic and rod-shaped bacterium, strain PSPT56T, was isolated from the gastrointestinal tract of a pen shell (Atrina pectinata). Optimal growth of strain PSPT56T was ascertained to occur at 30 °C, pH 8.0 and in the presence of 1–2 % (w/v) NaCl. The strain was catalase-positive and oxidase-negative. The major cellular fatty acids were C18 : 1ω9c, C16 : 0, C17 : 1ω8c and C17 : 0. Tuberculostearic acid was not present. The major cell-wall sugars were ribose, galactose, glucose and arabinose. Peptidoglycan amino acids were meso-diaminopimelic acid, alanine and glutamic acid. The predominant isoprenoid quinone was MK-8(H2). Strain PSPT56T contained phosphatidylglycerol, diphosphatidylglycerol, an unidentified phospholipid, two unidentified lipids and two unidentified amino-lipids. Mycolic acids were detected as constitutive components of the cell wall. A phylogenetic analysis based on 16S rRNA gene sequence similarity showed that strain PSPT56T was most closely related to Corynebacterium testudinoris M935/96/4T and Corynebacterium felinum M714/95/5T with 98.69 % and 97.01 % similarity, respectively. DNA–DNA hybridization experiments indicated less than 29.9 % relatedness to the phylogenetically closest species. The G+C content of genomic DNA was 67.6 mol%. The phenotypic, phylogenetic and genotypic analyses indicated that strain PSPT56T represents a novel species within the genus Corynebacterium , for which the name Corynebacterium atrinae is proposed. The type strain is PSPT56T ( = KACC 17525T = JCM 19266T).

Rothia endophytica sp. nov., an actinobacterium isolated from Dysophylla stellata (Lour.) Benth

2013 ◽  
Vol 63 (Pt_11) ◽  
pp. 3964-3969 ◽  
Author(s):  
Zi-Jun Xiong ◽  
Jin-Li Zhang ◽  
Dao-Feng Zhang ◽  
Zhi-Li Zhou ◽  
Min-Jiao Liu ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Endophytic Actinobacterium

A novel endophytic actinobacterium, designated strain YIM 67072T, was isolated from healthy roots of Dysophylla stellata (Lour.) Benth. Cells of this aerobic, cream–yellow-coloured strain occurred singly, in pairs or in tetrads, were Gram-stain-positive and ovoid- to spherical-shaped. Strain YIM 67072T grew at 4–45 °C, pH 5.0–10.0 and in the presence of 0–7 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM 67072T belonged to the genus Rothia . The isolate contained MK-7 as the major component of the quinone system. The peptidoglycan type was A3α. The polar lipid profile consisted predominantly of diphosphatidylglycerol and glycolipids. The major fatty acids were anteiso-C15 : 0, iso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0. The DNA G+C content was 53.2 mol%. However, strain YIM 67072T differed from its closest relatives Rothia nasimurium CCUG 35957T (98.5 % 16S rRNA gene sequence similarity), Rothia amarae JCM 11375T (97.6 %) and Rothia terrae L-143T (97.3 %) in many phenotypic characteristics. Moreover, the levels of DNA–DNA relatedness between the novel isolate and the three above-mentioned type strains were 28.7±1.3 %, 36.5±1.2 %, 46.8±1.5 %, respectively. Based on comparative analysis of physiological and chemotaxonomic data, strain YIM 67072T represents a novel species of the genus Rothia , for which the name Rothia endophytica sp. nov. is proposed. The type strain is YIM 67072T ( = DSM 26247T = JCM 18541T).

Amycolatopsis dendrobii sp. nov., an endophytic actinomycete isolated from Dendrobium heterocarpum Lindl.

2021 ◽  
Vol 71 (7) ◽  
Author(s):  
Nisachon Tedsree ◽  
Somboon Tanasupawat ◽  
Boonchoo Sritularak ◽  
Nattakorn Kuncharoen ◽  
Kittisak Likhitwitayawuid
Keyword(s):  
Cell Wall ◽  
Type Species ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Taxonomic Approach ◽  
Genotypic Characteristics

Three novel actinomycete strains, designated as DR6-1T, DR6-2 and DR6-4, isolated from the roots of Dendrobium heterocarpum Lindl in Thailand were studied using a polyphasic taxonomic approach. The strains grew at 20–37 °C, at pH 5–10 and with 5 % (w/v) NaCl. They contained meso-diaminopimelic acid in the cell-wall peptidoglycan and MK-9(H4) was a major menaquinone. Arabinose and galactose were the major sugars in the cell wall. The predominant cellular fatty acids were iso-C16 : 0 and iso-C15 : 0. The detected polar lipids were diphosphatidylglycerol, hydroxyphosphatidylethanolamine, phosphatidylethanolamine, phosphatidylinositol and phosphatidylglycerol. Strains DR6-1T, DR6-2 and DR6-4 shared 99.9–100 % 16S rRNA gene sequence similarity and were closely related to Amycolatopsis echigonensis JCM 21831T (98.7-98.8%). The approximate genome size of strain DR6-1T was 9.6 Mb with a G+C content of 69.6 mol%. The ANIb and dDDH values between genomic sequences of strain DR6-1T and Amycolatopsis echigonensis JCM21831T, Amycolatopsis rubida JCM 10871T and Amycolatopsis nivea KCTC 39515T were 90.55, 92.25, 92.60%, and 47.20, 52.10 and 52.50%, respectively. Based on the phenotypic, chemotaxonomic and genotypic characteristics, it has been concluded that strains DR6-1T, DR6-2 and DR6-4 represent a novel species of the genus Amycolatopsis for which the name Amycolatopsis dendrobii sp. nov. is proposed. The type strain is DR6-1T (=JCM 33742T=KCTC 49546T=TISTR 2840T).

scholarly journals Myceligenerans cantabricum sp. nov., a barotolerant actinobacterium isolated from a deep cold-water coral

2015 ◽  
Vol 65 (Pt_4) ◽  
pp. 1328-1334 ◽  
Author(s):  
Aida Sarmiento-Vizcaíno ◽  
Verónica González ◽  
Alfredo F. Braña ◽  
Axayacatl Molina ◽  
José L. Acuña ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Cold Water ◽  
Micrococcus Luteus ◽  
Antibiotic Production ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type

An actinobacterium strain (M-201T) was isolated from a deep-sea scleractinian coral (Fam. Caryophillidae) collected at 1500 m depth in the Avilés Canyon in the Cantabrian Sea, Asturias, Spain. Strain M-201T grew at pH 6.0–9.0 (optimum pH 7.0), between 4 and 37 °C (optimum 28 °C) and at salinities of 0.5–10.5 % (w/v) NaCl (optimum 0.5–3.0 %). The peptidoglycan contained the amino acids Lys, Ala, Thr, Glu and one unknown amino acid component, and belonged to type A4α, and the cell-wall sugars are glucose, mannose and galactose. The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, an unknown phosphoglycolipid and seven unknown glycolipids. The predominant menaquinones were MK-9(H4) and MK-9(H6). Major cellular fatty acids were anteiso-C15 : 0, iso-C15 : 0 and anteiso-C17 : 0. The genomic DNA G+C content was 72.4 mol%. The chemotaxonomic properties supported the affiliation of strain M-201T to the genus Myceligenerans . Phylogenetic analysis based on 16S rRNA gene sequences revealed that the organism was most closely related to Myceligenerans crystallogenes CD12E2-27T (98.2 % 16S rRNA gene sequence similarity). However, it had a relatively low DNA–DNA relatedness value with the above strain (48 %). The isolate showed antibiotic activity against Escherichia coli , Micrococcus luteus ATCC 14452 and Saccharomyces cerevisiae var. carlsbergensis. To the best of our knowledge, this is the first report of antibiotic production in the genus Myceligenerans . The differences in phenotypic, metabolic, ecological and phylogenetic characteristics justify the proposal of a novel species of the genus Myceligenerans , Myceligenerans cantabricum sp. nov., with M-201T ( = CECT 8512T = DSM 28392T) as the type strain.

Rhodococcus artemisiae sp. nov., an endophytic actinobacterium isolated from the pharmaceutical plant Artemisia annua L.

2012 ◽  
Vol 62 (Pt_4) ◽  
pp. 900-905 ◽  
Author(s):  
Guo-Zhen Zhao ◽  
Jie Li ◽  
Wen-Yong Zhu ◽  
Shou-Zheng Tian ◽  
Li-Xing Zhao ◽  
...  
Keyword(s):  
Cell Wall ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Artemisia Annua ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Endophytic Actinobacterium

A Gram-positive, non-motile actinobacterium, designated YIM 65754T, was isolated from the stem of Artemisia annua L., collected from Yunnan province, south-west China. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain YIM 65754T comprised an evolutionary lineage within the genus Rhodococcus . The isolate clustered with Rhodococcus pyridinivorans PDB9T, Rhodococcus gordoniae W 4937T and Rhodococcus rhodochrous DSM 43241T, with which it shared 98.4, 97.9 and 97.8 % 16S rRNA gene sequence similarities, respectively. However, DNA–DNA relatedness demonstrated that strain YIM 65754T was distinct from its closest phylogenetic neighbours. The cell-wall peptidoglycan contained meso-diaminopimelic acid, arabinose, galactose, mannose and glucose (cell-wall chemotype IV). The major menaquinone was MK-8(H2) and the predominant fatty acids were C16 : 0 (27.83 %), iso-C15 : 0 2-OH and/or C16 : 1ω7c (20.21 %) and 10-methyl C18 : 0 (17.50 %). The DNA G+C content was 66.2 mol%. On the basis of phenotypic, chemotaxonomic and phylogenetic evidence, the isolate represents a novel species of the genus Rhodococcus , for which the name Rhodococcus artemisiae sp. nov. is proposed; the type strain is YIM 65754T ( = CCTCC AA 209042T = DSM 45380T).

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