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Marine Samples (marine + sample)
Selected AbstractsActinorhodopsins: proteorhodopsin-like gene sequences found predominantly in non-marine environmentsENVIRONMENTAL MICROBIOLOGY, Issue 4 2008Adrian K. Sharma Summary Proteorhodopsins are light-energy-harvesting transmembrane proteins encoded by genes recently discovered in the surface waters of the world's oceans. Metagenomic data from the Global Ocean Sampling expedition (GOS) recovered 2674 proteorhodopsin-related sequences from 51 aquatic samples. Four of these samples were from non-marine environments, specifically, Lake Gatun within the Panama Canal, Delaware Bay and Chesapeake Bay and the Punta Cormorant Lagoon in Ecuador. Rhodopsins related to but phylogenetically distinct from most sequences designated proteorhodopsins were present at all four of these non-marine sites and comprised three different clades that were almost completely absent from marine samples. Phylogenomic analyses of genes adjacent to those encoding these novel rhodopsins suggest affiliation to the Actinobacteria, and hence we propose to name these divergent, non-marine rhodopsins ,actinorhodopsins'. Actinorhodopsins conserve the acidic amino acid residues critical for proton pumping and their genes lack genomic association with those encoding photo-sensory transducer proteins, thus supporting a putative ion pumping function. The ratio of recA and radA to rhodopsin genes in the different environment types sampled within the GOS indicates that rhodopsins of one type or another are abundant in microbial communities in freshwater, estuarine and lagoon ecosystems, supporting an important role for these photosystems in all aquatic environments influenced by sunlight. [source] Determination of refractory organic matter in marine sediments by chemical oxidation, analytical pyrolysis and solid-state 13C nuclear magnetic resonance spectroscopyEUROPEAN JOURNAL OF SOIL SCIENCE, Issue 3 2008J. M. De La Rosa Summary Seeking to quantify the amount of refractory organic matter (ROM), which includes black carbon-like material (BC), in marine sediments, we have applied a two-step procedure that consists of a chemical oxidation with sodium chlorite of the demineralized sediments followed by integration of the aromatic C region in the remaining residues by solid-state 13C nuclear magnetic resonance (NMR) spectroscopy. The efficacy for lignin removal was tested by analytical pyrolysis in the presence of tetramethyl ammonium hydroxide (TMAH). Riverine, estuarine and offshore marine sediment samples were collected from the southwest Atlantic coast of Spain, a site of geological and environmental interest. Measured contents of BC-like material ranged between 3.0 and 45.7% of the total organic carbon. Greater relative BC contents were found in riverine sediments close to urban areas, which show an elevated input of anthropogenic organic material. The contents of BC-like material in offshore marine sediments (5.5,6.1%) were similar to those previously reported for these kinds of samples. However, NMR and pyrolysis-GC/MS of the isolated ROM reveals that abundant refractory aliphatic organic material remains in most of the marine samples after chlorite oxidation. We suggest that this pool of aliphatic carbon may play an important role as a stable carbon pool within the global C cycle. [source] High gene flow promotes the genetic homogeneity of the fish goby Pomatoschistus marmoratus (Risso, 1810) from Mar Menor coastal lagoon and adjacent marine waters (Spain)MARINE ECOLOGY, Issue 2 2010Carlos Vergara-Chen Abstract The extreme environmental variability of coastal lagoons suggests that physical and ecological factors could contribute to the genetic divergence among populations occurring in lagoon and open-coast environments. In this study we analysed the genetic variability of lagoon and marine samples of the sand goby, Pomatoschistus marmoratus (Risso, 1810) (Pisces: Gobiidae), on the SW Spain coast. A fragment of mitochondrial DNA control region (570 bp) was sequenced for 196 individuals collected in five localities: Lo Pagan, Los Urrutias and Playa Honda (Mar Menor coastal lagoon), and Veneziola and Mazarrón (Mediterranean Sea). The total haplotype diversity was h = 0.9424 ± 0.0229, and the total nucleotide diversity was , = 0.0108 ± 0.0058. Among-sample genetic differentiation was not significant and small-scale patterns in the distribution of haplotypes were not apparent. Gene flow and dispersal-related life history traits may account for low genetic structure at a small spatial scale. The high genetic diversity found in P. marmoratus increases its potential to adapt to changing conditions of the Mar Menor coastal lagoon. [source] Microbial status in seawater and coastal sediments during pre- and post-tsunami periods in the Bay of Bengal, IndiaMARINE ECOLOGY, Issue 3 2006Subramani Ramesh Abstract Tsunami, the natural disaster, which occurred on December 26, 2004 in the Indian Ocean, caused severe damage to mankind in the coastal areas. Total loss of life and economic loss because of this disaster have been estimated by various agencies but its effect on microbial density has not been probed. With our previous results on microbial populations in four locations of the Chennai coast of the Bay of Bengal, India in the pre-tsunami period, the change in microbial populations was studied after the tsunami at regular intervals in the same locations. Coastal sediment and seawater samples were collected from four different locations after 5,10 h and thereafter at intervals of every 7 days up to 28 days post-tsunami. Bacteria, fungi and actinomycetes were isolated from the marine samples by serial dilution on respective media. Before the tsunami, the bacterial population was higher in seawater samples than the sediments, whereas fungi and actinomycetes were recorded only in the sediments. The microbial population remarkably increased 5,10 h post-tsunami in all the marine samples irrespective of the location. However, it slowly declined in the subsequent days and became similar to that of the population recorded before the tsunami. The population of gram-positive bacteria increased whereas the gram-negative bacterial population decreased after the tsunami. Further, populations of pathogenic bacteria such as coliform and vibrios did not increase after the tsunami. It has been observed that the increase in populations of bacteria and actinomycetes even after 28 days of tsunami may be due to the introduction of foreign microorganisms that developed the ability to survive in the extreme environment by exhibiting special characteristics such as pigmentation and production of exopolysaccharides. [source] Studies on azaspiracid biotoxins.RAPID COMMUNICATIONS IN MASS SPECTROMETRY, Issue 24 2002In this report, the mass spectral analysis of azaspiracid biotoxins is described. Specifically, the collision-induced dissociation (CID) behavior and differences between CID spectra obtained on a triple-quadrupole, a quadrupole time-of-flight, and an ion-trap mass spectrometer are addressed here. The CID spectra obtained on the triple-quadrupole mass spectrometer allowed the classification of the major product ions of the five investigated compounds (AZA 1,5) into five distinct fragment ion groups, according to the backbone cleavage positions. Although the identification of unknown azaspiracids was difficult based on CID alone, the spectra provided sufficient structural information to allow confirmation of known azaspiracids in marine samples. Furthermore, we were able to detect two new azaspiracid analogs (AZA 1b and 6) in our samples and provide a preliminary structural analysis. The proposed dissociation pathways under tandem mass spectrometry (MS/MS) conditions were confirmed by a comparison with accurate mass data from electrospray quadrupole time-of-flight MS/MS experiments. Regular sequential MSn analysis on an ion-trap mass spectrometer was more restricted in comparison to the triple-quadrupole mass spectrometer, because the azaspiracids underwent multiple [M,+,H,,,nH2O]+ (n,=,1,6) losses from the precursor ion under CID. Thus, the structural information obtained from MSn experiments was somewhat limited. To overcome this limitation, we developed a wide-range excitation technique using a 180-u window that provided results comparable to the triple-quadrupole instrument. To demonstrate the potential of the method, we applied it to the analysis of degraded azaspiracids from mussel tissue extracts. Copyright © 2002 John Wiley & Sons, Ltd. [source] | ||||||||||