High 16S rDNA bacterial diversity in glacial meltwater lake sediment, Bratina Island, Antarctica

Sjöling, Sara; Cowan, Don A.

doi:10.1007/s00792-003-0321-z

Cited by 66 publications

(35 citation statements)

References 35 publications

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“…Previous studies of the diversity of microorganisms in glacial ice and meltwaters show a dominance of bacterial over archaeal species (Sjöling and Cowan, 2003;Simon and others, 2009), which is reflected in the 16S real-time PCR results from Engabreen and the surrounding environment (Table 3). As the choice of functional pathway primers was based on previous studies in icy environments, it was expected that they would be present in Engabreen (Tables 3, 4).…”

Section: Relevance and Interpretation Of Resultant Datasetmentioning

confidence: 81%

Demonstration of a multi-technique approach to assess glacial microbial populations in the field

et al. 2016

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ABSTRACT. The ability to perform microbial detection and characterization in-field at extreme environments, rather than on returned samples, has the potential to improve the efficiency, relevance and quantity of data from field campaigns. To date, few examples of this approach have been reported. Therefore, we demonstrate that the approach is feasible in subglacial environments by deploying four techniques for microbial detection: real-time polymerase chain reaction; microscopic fluorescence cell counts, adenosine triphosphate bioluminescence assay and recombinant Factor C assay (to detect lipopolysaccharide). Each technique was applied to 12 subglacial ice samples, 12 meltwater samples and two snow samples from Engabreen, Northern Norway. Using this multi-technique approach, the detected biomarker levels were as expected, being highest in debris-rich subglacial ice, moderate in glacial meltwater and low in clean ice (debris-poor) and snow. Principal component analysis was applied to the resulting dataset and could be performed in-field to rapidly aid the allocation of resources for further sample analysis. We anticipate that in-field data collection will allow for multiple rounds of sampling, analysis, interpretation and refinement within a single field campaign, resulting in the collection of larger and more appropriate datasets, ultimately with more efficient science return.

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Section: Relevance and Interpretation Of Resultant Datasetmentioning

confidence: 81%

Demonstration of a multi-technique approach to assess glacial microbial populations in the field

et al. 2016

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“…This technique has been shown to be a useful tool for screening environmental bacterial isolates and/or clone libraries (Sjöling and Cowan 2003). Among the presently described 55 isolates, 44% closely related to Streptomyces variabilis, previously reported to be soil inhabitants (Preobrazhenskaya et al 1957), 13% to S. viridochromogenes, as colonizers of sugarcane roots (Fernandez and Szabó 1982), 7% to S. viridis, that alleviate soil contaminations (Wyszkowska et al 2008), and 7% to S. cinnabarinus from hot climate (Preobrazhenskaya et al 1957).…”

Section: Discussionmentioning

confidence: 99%

Genetic and metabolic diversity of streptomycetes in pulp and paper mill effluent treated crop fields

Tripathi

Kaushik

Kumari

et al. 2010

World J Microbiol Biotechnol

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Irrigation of farm field with water mixed with pulp and paper mill effluent from Century pulp and paper mill in Uttrakhand state of India for over last 25 years in succession increased streptomycetes population (120 9 10 5 ) compared to the fresh water irrigated fields (48 9 10 3 in WIF). Denaturing gradient gel electrophoresis, amplified ribosomal DNA restriction analysis, 16S rRNA gene sequencing, BIOLOG TM substrate usage, production of extracellular enzymes (xylanase and cellulase) and plant growth promoting attributes were applied to monitor changes in genetic and metabolic diversity of streptomycetes. Significant variation was observed for production of extracellular enzymes, Indolic compounds, siderophore and P-solubilisation among isolates. Metabolic substrate usage of Streptomyces isolates was evaluated using the BIOLOG TM GP2 plates and unique carbon substrate usage profiles were observed. Based on 16S rRNA gene sequencing, the isolates were identified as Streptomyces variabilis, Streptomyces spp.

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“…To test for the presence of the Cam1-gfp2 strain, PCR was performed to detect the chromosomal gfp insertion with the primers gfpF (5Ј-TGTGCTCTCTCTTTTCGTTGG G-3Ј) and gfpR (5Ј-TGGTGTTCAATGCTTTGCCAG-3Ј), which produced a 455-bp PCR amplicon. To detect the presence of bacterial DNA in the extracts as a positive PCR amplification control, bacterial 16S rRNA genes were amplified by PCR using the bacterial universal primers 341F (5Ј-CCTACGGGAGG CAGCAG-3Ј) and 926R (5Ј-CCGTCAATTCITTTGAGTTT-3Ј), which yields a 585-bp PCR amplicon (29). PCR mixtures were prepared with reagents and procedures from Invitrogen Canada, Inc. (Burlington, Ontario, Canada), with the exception that 0.625 l of a 10-mg/ml concentration of bovine serum albumin was added to the reaction mixture.…”

Section: Methodsmentioning

confidence: 99%

Utilization of Fluorescent Microspheres and a Green Fluorescent Protein-Marked Strain for Assessment of Microbiological Contamination of Permafrost and Ground Ice Core Samples from the Canadian High Arctic

Juck

Whissell

Steven³

et al. 2005

Appl Environ Microbiol

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Fluorescent microspheres were applied in a novel fashion during subsurface drilling of permafrost and ground ice in the Canadian High Arctic to monitor the exogenous microbiological contamination of core samples obtained during the drilling process. Prior to each drill run, a concentrated fluorescent microsphere (0.5-m diameter) solution was applied to the interior surfaces of the drill bit, core catcher, and core tube and allowed to dry. Macroscopic examination in the field demonstrated reliable transfer of the microspheres to core samples, while detailed microscopic examination revealed penetration levels of less than 1 cm from the core exterior. To monitor for microbial contamination during downstream processing of the permafrost and ground ice cores, a Pseudomonas strain expressing the green fluorescent protein (GFP) was painted on the core exterior prior to processing. Contamination of the processed core interiors with the GFP-expressing strain was not detected by culturing the samples or by PCR to detect the gfp marker gene. These methodologies were quick, were easy to apply, and should help to monitor the exogenous microbiological contamination of pristine permafrost and ground ice samples for downstream culture-dependent and culture-independent microbial analyses.

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High 16S rDNA bacterial diversity in glacial meltwater lake sediment, Bratina Island, Antarctica

Cited by 66 publications

References 35 publications

Demonstration of a multi-technique approach to assess glacial microbial populations in the field

Demonstration of a multi-technique approach to assess glacial microbial populations in the field

Genetic and metabolic diversity of streptomycetes in pulp and paper mill effluent treated crop fields

Utilization of Fluorescent Microspheres and a Green Fluorescent Protein-Marked Strain for Assessment of Microbiological Contamination of Permafrost and Ground Ice Core Samples from the Canadian High Arctic

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