Isolation of novel bacteria and actinomycetes using soil-extract agar medium

Hamaki, Takefumi; Suzuki, M.; Fudou, Ryosuke; Jojima, Yasuko; Kajiura, Takayuki; Tabuchi, Akira; Sen, Kikuo; Shibai, Hiroshiro

doi:10.1263/jbb.99.485

Cited by 129 publications

(70 citation statements)

References 14 publications

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“…The pH of the final medium was adjusted to 7.2. If appropriate, 50 mg/L of actinomycin D was added to the medium to preclude the growth of fungi (Hamaki et al 2005). The soil extract was prepared by mixing 1,000 g of soil with 2 L of 50 mM NaOH and incubating overnight at room temperature.…”

Section: Methodsmentioning

confidence: 99%

The isolation of heavy-metal resistant culturable bacteria and resistance determinants from a heavy-metal-contaminated site

et al. 2010

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In this study we performed a phylogenetic analysis of a culturable bacterial community isolated from heavymetal-contaminated soil from southwest Slovakia using 16S rRNA (16S rDNA) and heavy-metal resistance genes. The soil sample contained high concentrations of nickel (2,109 mg/kg), cobalt (355 mg/kg) and zinc (177 mg/kg), smaller concentrations of iron (35.75 mg/kg) and copper (32.2 mg/kg), and a trace amount of cadmium (<0.25 mg/kg). A total of 100 isolates were grown on rich (Nutrient agar No. 2) or minimal (soil-extract agar medium) medium. The isolates were identified by phylogenetic analysis using partial sequences of their 16S rRNA (16S rDNA) genes. Representatives of two broad taxonomic groups, Firmicutes and Proteobacteria, were found on rich medium, whereas four taxonomic groups, Actinobacteria, Bacteroidetes, Firmicutes and Proteobacteria, were represented on minimal medium. Forty-two isolates grown on rich medium were assigned to 20 bacterial species, while 58 bacteria grown on minimal medium belonged to 49 species. Twenty-three isolates carried czcA-and/or nccA-like heavy-metal-resistance determinants. The heavy-metalresistance genes of nine isolates were identified by phylogenetic analysis of their protein sequences.

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Section: Methodsmentioning

confidence: 99%

The isolation of heavy-metal resistant culturable bacteria and resistance determinants from a heavy-metal-contaminated site

et al. 2010

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“…This method was based on a combination of long incubation, sonication, selection of microcolonies with the help of a magnifying lens, increasing the number of inoculation plates of each dilution, half-strength R2A agar, 25 % soil extract (v/v) and some additional modifications (Hamaki et al, 2005;Janssen et al, 2002). The half-strength R2A agar consisted of 0.25 g yeast extract, 0.25 g proteose peptone no.…”

mentioning

confidence: 99%

Arenimonas oryziterrae sp. nov., isolated from a field of rice (Oryza sativa L.) managed under a no-tillage regime, and reclassification of Aspromonas composti as Arenimonas composti comb. nov.

Aslam¹,

Park²,

Kim³

et al. 2009

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

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Arenimonas oryziterrae sp. nov., isolated from a field of rice (Oryza sativa L.) managed under a notillage regime, and reclassification of Aspromonas composti as Arenimonas composti comb. nov. The taxonomic position of a novel bacterial strain, YC6267 T isolated from a field of rice (Oryza sativa L.) managed under a no-tillage regime in Jinju, Korea, was studied using a polyphasic taxonomic approach. Cells of the strain were Gram-stain-negative, rod-shaped and aerobic. It grew at 15-37 6C (optimum at 28 6C). Growth of the strain occurred between pH 5.0 and 10.0, with an optimum of pH 7.0-8.0. The G+C content of the total DNA was 65.8 mol%. The 16S rRNA gene sequence of the strain was most closely related to species of the genera Arenimonas (95.6-94.4 %) and Aspromonas (95.1 %), with ,95.0 % similarity to species of the genus Lysobacter and other genera of the family Xanthomonadaceae. Chemotaxonomic data (major quinone Q-8; major polar lipids phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol; and major fatty acids iso-C 15 : 0 , iso-C 14 : 0 , iso-C 16 : 0 , and iso-C 17 : 1 v9c) supported the affiliation of strain YC6267 T to the genus Arenimonas. Phylogenetic analysis based on 16S rRNA gene sequences and biochemical and physiological characteristics strongly supported the genotypic and phenotypic differentiation of strain YC6267 T from described species of the genus Arenimonas. Strain YC6267 T , therefore, represents a novel species, for which the name Arenimonas oryziterrae sp. nov. is proposed. The type strain is YC6267 T (5KCTC 22247 T 5DSM 21050 T ). In addition, the reclassification of Aspromonas composti as Arenimonas composti comb. nov. is proposed (type strain TR7-09 T 5KCTC 12666 T 5DSM 18010 T ). A common line of descent and a number of shared phenotypic traits support this reclassification.

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“…4 Over 10 000 microbial secondary metabolites have been discovered. 5 The filamentous bacteria, that is, the actinomycetes, are amazingly prolific in the number of antibiotics which they can produce. About 75% of known antibiotics are produced by actinomycetes and about 75% of these are made by a single genus, that is, Streptomyces.…”

Section: The Era Of Antibiotic Discoverymentioning

confidence: 99%