Characterization of organic contaminants in environmental samples associated with Mount St. Helens 1980 volcanic eruption

1982 ◽  
Vol 16 (7) ◽  
pp. 387-396 ◽  
Author(s):  
Wilfred E. Pereira ◽  
Colleen E. Rostad ◽  
Howard E. Taylor ◽  
John M. Klein
Keyword(s):  
Organic Contaminants ◽  
Volcanic Eruption ◽  
Environmental Samples ◽  
Mount St Helens

scholarly journals Microbial diversity characterization of seawater in a pilot study using Oxford Nanopore Technologies long-read sequencing

2020 ◽  
Author(s):  
Michael Liem ◽  
Tonny Regensburg-Tuïnk ◽  
Christiaan Henkel ◽  
Hans Jansen ◽  
Herman Spaink
Keyword(s):  
Microbial Diversity ◽  
Environmental Samples ◽  
Sea Water ◽  
Flow Cells ◽  
Oxford Nanopore ◽  
Challenging Tasks ◽  
Long Read ◽  
Close Relatives ◽  
Oxford Nanopore Technologies

Abstract Objective: Currently the majority of non-culturable microbes in sea water are yet to be discovered, Nanopore offers a solution to overcome the challenging tasks to identify the genomes and complex composition of oceanic microbiomes. In this study we evaluate the utility of Oxford Nanopore Technologies (ONT) sequencing to characterize microbial diversity in seawater from multiple locations. We compared the microbial species diversity of retrieved environmental samples from two different locations and time points.Results: With only three ONT flow cells we were able to identify thousands of organisms, including bacteriophages, from which a large part at species level. It was possible to assemble genomes from environmental samples with Flye. In several cases this resulted in >1 Mbp contigs and in the particular case of a Thioglobus singularis species it even produced a near complete genome. k-mer analysis reveals that a large part of the data represents species of which close relatives have not yet been deposited to the database. These results show that our approach is suitable for scalable genomic investigations such as monitoring oceanic biodiversity and provides a new platform for education in biodiversity.

scholarly journals Isolation and characterization of Anoxygenic phototrophs from shrimp ponds in Thailand

2020 ◽  
Vol 2 (7A) ◽  
Author(s):  
Xelimar Ramirez ◽  
Imeleta Luamanu ◽  
Ruben Michael Ceballos ◽  
Elizabeth Padilla Crespo
Keyword(s):  
Environmental Samples ◽  
Production Systems ◽  
Phenotypic Diversity ◽  
Purple Bacteria ◽  
Shrimp Farming ◽  
Post Inoculation ◽  
Shrimp Ponds ◽  
Anoxygenic Phototrophs ◽  
Isolation And Characterization

Anoxygenic phototrophic purple bacteria are ubiquitous in aquatic and terrestrial environments and demonstrate broad phenotypic diversity. Purple bacteriaderive energy from light under anaerobic conditions via anoxygenic photosynthesis, a process in which water is not the electron donor. It has been suggested that these bacteria are useful for a variety of applications, including: wastewater treatment; heavy metal remediation; nitrogen fixation; and, control of CH4 emissions. In this study, the goal was to isolate and characterize PNSB from shrimp ponds in Thailand. Surface water and sediment were collected. Enrichment cultures were prepared using Pfenning’s mineral media. As indicated by development of reddish color and turbidity, anoxygenic phototrophic growth was observed within two days of incubation. Cultures in liquid media and on solid plates exhibited a deep red or purple color ten weeks post-inoculation. Under light microscopy, enrichments consist of communities dominated by thin, elongated gram-negative cells with granules of elemental sulfur, which are characteristic of purple bacteria. Molecular methods confirm the presence of pufLM, a genetic biomarker for purple bacteria (e.g., Thiohalocapsa marina, Allochromatium vinosum, Roseovarius tolerans). Initial sequencing of key genes (i.e., pufLM) indicate that these environmental samples contain novel isolates or “geographic variants” that have not been previously described. We have developed a few pure cultures of multiple species from these environmental samples. Since shrimp farming is a key industry in southern Thailand, the characterization of the microbial communities in these ecosystems, including anoxygenic phototrophs, will provide insights into how to maintain water quality in these food production systems.

Mass spectrometric characterization of naphthenic acids in environmental samples: A review

2008 ◽  
Vol 28 (1) ◽  
pp. 121-134 ◽  
Author(s):  
John V. Headley ◽  
Kerry M. Peru ◽  
Mark P. Barrow
Keyword(s):  
Environmental Samples ◽  
Naphthenic Acids ◽  
Mass Spectrometric
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