Bacterial community fingerprinting of amplified 16S and 16–23S ribosomal DNA gene sequences and restriction endonuclease analysis(ARDRA)

Massol-Deyá, Arturo; Odelson, David A.; Hickey, Robert F.; Tiedje, James M.

doi:10.1007/978-94-011-0351-0_20

Cited by 164 publications

(116 citation statements)

References 6 publications

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“…The amplified 16S rRNA gene fragments were digested using BsuRI (GG CC) and Msp1 (C CGG) restriction enzymes (10 U μL −1 , Fermentas), as described by Massol-Deya et al [16]. The fragments were separated by the same method, as previously described [5].…”

Section: Pcr Amplification Of the 16s Rrna Genes Of Bacterial Strainsmentioning

confidence: 99%

Microbiological investigations on the water of a thermal bath at Budapest

Szuróczki¹,

Kéki²,

Káli³

et al. 2016

Acta Microbiologica et Immunologica Hungarica

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Thermal baths are unique aquatic environments combining a wide variety of natural and anthropogenic ecological factors, which also appear in their microbiological state. There is limited information on the microbiology of thermal baths in their complexity, tracking community shifts from the thermal wells to the pools. In the present study, the natural microbial community of well and pool waters in Gellért bath was studied in detail by cultivation-based techniques. To isolate bacteria, 10% R2A and minimal synthetic media (with "bath water") with agar-agar and gellan gum were used after prolonged incubation time; moreover, polyurethane blocks covered with media were also applied. Strains were identified by sequencing their 16S rRNA gene after grouping them by amplified rDNA restriction analysis. From each sample, the dominance of Alphaproteobacteria was characteristic though their diversity differed among samples. Members of Actinobacteria, Firmicutes, Beta-and Gammaproteobacteria, Deinococcus-Thermus, and Bacteroidetes were also identified. Representatives of Deinococcus-Thermus phylum appeared only in the pool water. The largest groups in the pool water belonged to the Tistrella and Chelatococcus genera. The most dominant member in the well water was a new taxon, its similarity to Hartmannibacter diazotrophicus as closest relative was 93.93%.

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Section: Pcr Amplification Of the 16s Rrna Genes Of Bacterial Strainsmentioning

confidence: 99%

Microbiological investigations on the water of a thermal bath at Budapest

Szuróczki¹,

Kéki²,

Káli³

et al. 2016

Acta Microbiologica et Immunologica Hungarica

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“…PCR products from all strains and clones were subjected to Amplified Ribosomal DNA Restriction Analysis (ARDRA) using MspI and BsuI (Fermentas, Vilnius, Lithuania) enzymes as described by Massol-Deya et al (1995). The fragments were electrophoresed in 1.5% ethidium bromide stained agarose gel and visualized by UV excitation.…”

Section: Ardra 16s Rrna Gene Sequencing and Phylogenetic Analysis Ofmentioning

confidence: 99%

Planktonic bacterial community composition of an extremely shallow soda pond during a phytoplankton bloom revealed by cultivation and molecular cloning

et al. 2013

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Böddi-szék is one of the shallow soda ponds located in the Kiskunság National Park, Hungary.In June 2008, immediately prior to drying out, an extensive algal bloom dominated by a green alga (Oocystis submarina Lagerheim) was observed in the extremely saline and alkaline water of the pond. The aim of the present study was to reveal the phylogenetic diversity of the bacterial communities inhabiting the water of Böddi-szék during the blooming event. By using two different selective media, altogether 110 aerobic bacterial strains were cultivated.According to the sequence analysis of the 16S rRNA gene, most of the strains belonged to alkaliphilic or alkalitolerant and moderately halophilic species of the genera Bacillus and and Desulfonatronum (Deltaproteobacteria) were also abundant. Further clone sequences showed less than 95% similarity values to cultivated species of the phyla Actinobacteria, Cyanobacteria, Deinococcus-Thermus, Fibrobacteres, Gemmatimonadetes and Lentisphaerae.

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“…The PCR reactions for the rRNA 16S followed the methodologies described by Fernández et al (1999) for Bacteria and that reported by Hales et al (1996) for Archaea. The PCR products were submitted to amplified rDNA restriction analysis (ARDRA) (Massol-Deyá et al 1995), i.e., digested with the endonucleases Alu I and Hae III, followed by agarose-gel electrophoresis. …”

Section: Methodsmentioning

confidence: 99%