Microbiota and Microsatellite genotypes of Pacific oysters stemming from three oyster bed in the Northern Wadden Sea

Background: Studies of oyster microbiomes have revealed that a limited number of microbes, including pathogens, can dominate microbial communities in host tissues such as gills and gut. Much of the bacterial diversity however remains underexplored and unexplained, although environmental conditions and host genetics have been implicated. We used 454 next generation 16S rRNA amplicon sequencing of individually tagged PCR reactions to explore the diversity of bacterial communities in gill tissue of the invasive Pacific oyster Crassostrea gigas stemming from genetically differentiated beds under ambient outdoor conditions and after a multifaceted disturbance treatment imposing stress on the host. Results: While the gill associated microbial communities in oysters were dominated by few abundant taxa (i.e. Sphingomonas, Mycoplasma) the distribution of rare bacterial groups correlated to relatedness between the hosts under ambient conditions. Exposing the host to disturbance broke apart this relationship by removing rare phylotypes thereby reducing overall microbial diversity. Shifts in the microbiome composition in response to stress did not result in a net increase in genera known to contain potentially pathogenic strains. Conclusion: The decrease in microbial diversity and the disassociation between population genetic structure of the hosts and their associated microbiome suggest that disturbance (i.e. stress) may play a significant role for the assembly of the natural microbiome. Such community shifts may in turn also feed back on the course of disease and the occurrence of mass mortality events in oyster populations.

Abundance and biomass of phytoplankton in the western part of the Black Sea in September 1991 during the NATO Programme Hydroblack

The samples were concentrated down to 50 cm**3 by slow decantation after storage for 20 days in a cool and dark place. The species identification was done under light microscope OLIMPUS-BS41 connected to a video-interactive image analysis system at magnification of the ocular 10X and objective - 40X. A Sedgwick-Rafter camera (1ml) was used for counting. 400 specimen were counted for each sample, while rare and large species were checked in the whole sample (Manual of phytoplankton, 2005). Species identification was mainly after Carmelo T. (1997) and Fukuyo, Y. (2000). Total phytoplankton abundance was calculated as sum of taxon-specific abundances. Total phytoplankton biomass was calculated as sum of taxon-specific biomasses. The cell biovolume was determined based on morpho-metric measurement of phytoplankton units and the corresponding geometric shapes as described in detail in (Edier, 1979).

Phytoplankton in the Nhatrang Bay, South China Sea

Species composition, phytoplankton abundance, and relative yield of variable fluorescence (F_v/F_m) were determined in the mesotrophic Nhatrang Bay in October-November 2004. Species diversity (250 taxonomic units) and heterogeneity of the phytoplankton structure were high. With respect to number of species and their abundance, diatoms prevailed. In selected parts of the bay, dinoflagellates dominated. Average biomass in the water column under 1 m**2 (Bt) varied from 2.3 to 64.4 mg C/m**3 (av. 31.0 mg C/m**3). Bt values were the lowest at stations nearest to the river mouth. Seaward, Bt increased. Bt values increased with depth at some stations and decreased at others. In surface layers biomass was lower than that in the underlying waters. F_v/F_m values ranged from 0.10 to 0.64 (av. 0.49). The lowest F_v/F_m values were observed in the area close to the seaport. Over greater part of the bay, F_v/F_m values were higher than 0.47. Such values are indicative of relatively high potential of photosynthetic activity of phytoplankton. Abundance and species diversity were higher than those in the dry season (March-April).

List of phytoplankton, zooplankton and zoobenthos species abundances

We studied the effects of changed quality of inflow water of aquaculture ponds on three aquatic communities, phytoplankton, zooplankton and zoobenthos, during two seasons of rearing common carp (Cyprinus carpio). The new water source coming from a deep tube well was markedly different in water chemistry from the surface water sources previously used to maintain the investigated fish ponds. Ponds supplied by the tube well water were characterized by lower oxygen and water hardness, and higher total ammonia and conductivity reaching subsaline conditions. Multivariate analysis (co-inertia) revealed that all investigated groups, except Mollusca (zoobenthos), decreased in species richness, abundance and biomass due to changed water chemistry, but differed in the level of susceptibility to stressors. Assemblages of Rotifera and Cladocera were the most affected showing a sharp decline in density and number of species since 29 out of 44 species disappeared from the ponds. The abundance of Copepoda (Cyclopoida) was relatively high although significantly lower in new environmental conditions (P<0.05), with adults being more tolerant to changed inflow water than larvae. Phytoplankton, except Bacillariophyta, had a highest potential to replace previous species with newcomers more adapted to changed inflow water, providing 36 immigrant species while 49 became extinct. Although mainly influenced by fish predation, Chironomidae (zoobenthos) were undoubtedly affected by changed water chemistry, decreasing from 11 to only 3 species. These results suggest that this pattern was a result of the shift from freshwater to subsaline conditions.

Water chemistry, and pigments and geochemistry of sediments from northern Victoria Land lakes

Total concentrations of algal pigments, organic C, C, N, P and S were determined in surface sediments from the littoral zone of 21 lakes in ice-free areas of northern Victoria Land (Antarctica) with different climatic and environmental conditions. Concentrations of major ions and nutrients were also determined in water samples from the same lakes. The latter samples had extremely variable chemical compositions; however, all the lakes resulted oligotrophic. Pigment concentrations in surface sediments were comparable to those reported for other Antarctic lakes and lower than those in oligotrophic lakes at lower latitudes. Cyanophyta, Chlorophyta and Bacillariophyta were the main taxa identified. These taxa correspond to those reported in previous microscopy-based studies on Antarctic phytoplankton and phytobenthos. Discriminant Function Analysis and Canonical Correspondence Analysis of data indicate that the distribution of pigments in these Victoria Land lakes depends mainly on their geographical location (particularly the distance from the sea) and nutrient status.

Site characteristics, sediment geochemistry and pigment concentration of northern Victoria Land lakes

Antarctic ice-free areas contain lakes and ponds that have interesting limnological features and are of wide global significance as early warning indicators of climatic and environmental change. However, most limnological and paleolimnological studies in continental Antarctica are limited to certain regions. There are several ice-free areas in Victoria Land that have not yet been studied well. There is therefore a need to extend limnological studies in space and time to understand how different geological and climatic features affect the composition and biological activity of freshwater communities. With the aim of contributing to a better limnological characterization of Victoria Land, this paper reports data on sedimentary pigments (used to identify the main algal taxa) obtained through a methodology that is more sensitive and selective than that of previous studies. Analyses were extended to 48 water bodies in ice-free areas with differing lithology, latitude, and altitude, and with different morphometry and physical, chemical, and biological characteristics in order to identify environmental factors affecting the distribution and composition of freshwater autotrophic communities. A wider knowledge of lakes in a limnologically important region of Antarctica was obtained. Cyanophyta was found to be the most important algal group, followed by Chlorophyta and Bacillariophyta, whereas latitude and altitude are the main factors affecting pigment distribution.

Phytoplankton pigments and biomass in the northeastern Sea of Okhotsk from March 23 to April 14, 1998

Studies were carried out in the northeastern Sea of Okhotsk, in the zone of interaction of the West Kamchatka and Compensating Currents at the beginning of spring seasonal succession from March 23 to April 14,1998. Samples for analysis of pigmentary and species compositions of phytoplankton were taken from the sea surface layer, depth 0.5 m. To reduce influence of micropatchiness on phytoplankon distribution at each station subsamples 0.7-1 l were collected every 50-100 m. These subsamples were used to make integral samples 4.5-8.0 l. Phytoplankton biomass and concentration of chlorophyll a varied from 18.7 to 490.9 mg/m**3 and from 0.129 to 2.422 mg/m**3, respectively. Total concentration of phytoplankton pigments varied from 0.622 to 6.679 mg/m**3. In samples studied 51 species of microalgae from 5 orders were found. In terms of the number of species, Bacillariophyta (31 species) and Dinophyta (15 species) prevailed. Diatomaceous algae make up more than 80% of the total phytoplankton biomass in waters of the Compensating Current, from 50 to 80% in intermediate waters, and less than 50% in waters of the West Kamchatka Current. Phytoplankton populations consisting primarily of diatoms were characterized by very low chlorophyll a to biomass ratio (0.1 %). It is three times lower than the ratio observed in phytoplankton populations that were close by species composition and size composition in this area in the late April-early May 1996.