Diatoms and pollen in a trial core from Sandwich Harbour,South West Africa (Namibia)

Sandwich Harbour forms a largely enclosed bay and extensive lagoon system that receives a limited subsurface, freshwater inflow from the Kuiseb River. It has been suggested that the Kuiseb River contributed more freshwater to Sandwich Harbour in the past, and that the river has since been displaced northwards towards Walvis Bay. Pollen and diatom analyses were carried out on a trial core from the central inshore region of the harbour to determine whether sufficient biological material for extensive studies had been preserved, whether the sediments were undisturbed and whether changes in salinity were evident. Pollen was not preserved in sufficient quantities to analyse but diatoms were abundant in the upper portion of the core. Diatom analysis indicated that the sediments were relatively undisturbed. The earliest sediments were dominated by a freshwater soil flora, and this was displaced by a marine littoral flora with brackish and freshwater diatoms increasing in frequency in the uppermost sediments. The increase in brackish forms is correlated with the formation of a sandbar across the harbour at the end of the last century. Further analyses of the present day flora and sediment cores from different parts of the harbour should provide a clear indication of the history and development of the area, especially the role played by the Kuiseb River.     

A bioassay to assess the potential effects of sediment resuspension on phytoplankton community composition

A laboratory assay (SAGA or Sediment Algal Growth Assay) was developed to assess the potential impact of sediment resuspension on the structure of phytoplankton communities, and to evaluate the effectiveness of various sediment treatments in decreasing the abundance of blue-green algae in the event of sediment resuspension during storms. In assays with sediment from eutrophic Akanoi Bay, Lake Biwa, Japan, 7–11 species of phytoplankton seeded from the sediments grew during the 3-week assay indicating that sediment resuspension has the potential to increase both phytoplankton biomass and species diversity. Treatment of sediments with Ca(NO3)2 substantially decreased phytoplankton biomass (measured as chlorophyll concentration) in assays with sediments from Akanoi Bay and the North Basin of Lake Biwa. Further, among various oxidation treatments of sediments, Ca(NO3)2 was most effective in decreasing or preventing filamentous blue-green algal growth in N- and P-replete media. In contrast, when sediments were added to P-limited phytoplankton dominated by green algae and diatoms, no growth of blue-green algae occurred regardless of sediment treatment. This revised version was published online in June 2006 with corrections to the Cover Date.     

Ecology and taxonomy of potentially toxic Pseudo-nitzschia species in Lim Bay (north-eastern Adriatic Sea)

The population dynamics of Pseudo-nitzschia in relation to environmental factors was investigated from March 2002 to July 2008 in Lim Bay, in the north-eastern Adriatic Sea. Domoic acid was monitored in the breeding population of Mytilus galloprovincialis from 2005 to 2008. The principal-component analysis of environmental parameters showed that the system is mostly temperature driven. The phytoplankton community was mainly composed of diatoms. Pseudo-nitzschia was the dominant diatom, present in 60% of samples, with a maximum (1.6 × 10⁶ cells L⁻¹) contribution up to 97% of the total diatom abundance. Morphological analysis revealed Pseudo-nitzschia manii and potentially toxic Pseudo-nitzschia pseudodelicatissima, Pseudo-nitzschia pungens, Pseudo-nitzschia fraudulenta and Pseudo-nitzschia calliantha as the dominant species in blooms. Pseudo-nitzschia abundance positively correlated to temperature, phosphate and ammonia in accordance with its maximal abundance in the summer/autumn period when fish farms had a maximum impact on the environment. Domoic acid was detected in M. galloprovincialis in concentrations below regulatory limits, ranging from 0.097 to 0.8721 μg g⁻¹ in five cases from April to October 2005 in Lim Bay, but so far it is not clear which of the species was responsible for DA production. This study is also the first record of P. manii, P pungens and P. fraudulenta species in the Adriatic Sea.     

Vertical distribution and abundance of gymnamoebae (Rhizopoda) in bottom sediments of the brackish water Nivå Bay (Baltic Sea,The Sound)

The sandy sediments of Niv? Bay (Baltic Sea, The Sound, Denmark) are often covered with the mats of sulphur bacteria and are temporarily anoxic. The vertical distribution and abundance of naked amoebae species in three sediment cores from this bay were studied. Amoebae were most abundant and diverse in the upper 1 cm of sediment, and their number and diversity decreased with increasing depth into the sediment. Amoebae were recovered from both upper oxygenated and deep anoxic layers of sediments. The species composition and abundance of amoebae was very heterogeneous, even at spatial scales of several centimeters, suggesting the existence of microhabitats selectively occupied by particular species. All species found were recorded from aerobic cultures and some of these amoebae occur in both the aerobic and anaerobic layers of the sediment. Minimal possible number of amoebae in the sediments, estimated for the first time as areal abundance integrated for depth was: core 1 -597 cm(-2); core 2 -1,110 cm(-2); core 3 -1,430 cm(-2). These abundances are probably best regarded as "potential" abundances of amoebae hidden in the sediments, as the question of the ratio between active and resting amoebae remains open.     

Biogenic silica as an estimate of siliceous microfossil abundance in Great Lakes sediments

Biogenic silica concentration (BSi) in sediment cores from the Great Lakes is evaluated as an estimate of siliceous microfossil abundance. A significant linear relationship was found between measured BSi and diatom valve abundance for sediment cores from the Bay of Quinte, Lake Ontario, Lake Erie, Lake Michigan and Lake Superior and between measured BSi and diatom biovolume for Lake Erie, Lake Michigan, and Lake Superior but not for Lake Ontario. Diatom silica predicted from diatom species abundance and an estimated silica content per cell in the Lake Erie cores accounted for 117% and 103% of measured BSi, respectively. By contrast, predicted diatom silica could only account for 28% of measured BSi in the Lake Michigan core and only 25% in the Lake Superior core. A few large diatoms with a large silica content per cell comprised a major portion of predicted diatom silica in all cores. The discrepancy between chemically measured BSi and the silica predicted from diatoms in the Lake Michigan and Lake Superior cores was partially due to the inability of the regression model, used to estimate diatom silica content, to account for different degrees of silicification in the diatom asemblages from the more dissolved silica rich Lake Michigan and Lake Superior.     

Diatoms in the plankton and sediments of two lakes of different trophic type

Species composition, quantity and distribution of diatoms in both the plankton and the surface sediments (0–30 cm) of mesotrophic Lake Krasnoye and eutrophic Lake Vishnevskoye (Karelian Isthmus) were studied. In the mesotrophic lake the composition of dominant diatoms (mainly Melosira) corresponded to those in the plankton. The Araphidineae/Centrales (A/C) ratio was 0.2–0.3%, increasing in the upper layers to 7%. Alkaliphilous and alkalibiontic forms constituted 60% of the total. In the eutrophic lake diatoms with thin valves (mainly Synedra) predominated in the plankton but their quantity in the sediments was insignificant in comparison with other plankton. Nevertheless, the A/C ratio was much higher, 17–35%. Alkaliphilous and alkalibiontic forms accounted for 78–90% of the total number of valves. In both lakes the highest number of diatom valves was registered in the upper layer of the sediments. From the ratio of the total number of diatoms in the upper 5 cm layer to their annual flux to the sediment from the plankton the approximate sediment accumulation rate was calculated to be 1.9 mm a^?1 for the mesotrophic lake and 2.5 mm a^?1 for the eutrophic one.     

A comparison of epiphytic diatom communities on <Emphasis Type="Italic">Plocamium cartilagineum</Emphasis> (Plocamiales,Florideophyceae) from two Antarctic areas

Our understanding of diatoms, one of the most important Antarctic primary producers, is based mostly on investigations of plankton, sea-ice, and sediment samples. Herein, we contribute to the limited research devoted to benthic Antarctic diatoms by presenting a study on epiphytic diatom communities sampled in two remote Antarctic regions: Admiralty Bay (maritime Antarctica, Antarctic Peninsula) and Terra Nova Bay (Ross Sea). Recent studies have demonstrated that the most critical factor for the local epiphytic diatom communities was the nature of the substrate. In order to eliminate this factor so we could evaluate other potential controls, we sampled epiphytic diatoms from only one substrate that is common to both regions: the macroalgae Plocamium cartilagineum (L.) Dixon. Thalli of P. cartilagineum and their associated microalgal community was collected in January 2011 (Admiralty Bay) and 2012 (Terra Nova Bay) from a water depth of 5–25 m. Dehydrated macroalgal pieces were placed on stubs and sputter-coated, which allowed observation of diatoms attached to the substrate in their original position using scanning electron microscopy. A total of 72 taxa were observed, of which 31 taxa were common to both regions. Cell abundance and diatom growth form dominance were significantly different in Admiralty Bay and Terra Nova Bay samples. Total diatom abundance was higher in Admiralty Bay samples, dominated by adnate diatoms (Cocconeis spp.), but the number of taxa found as well as the values of ecological indices were higher for samples from the Ross Sea, where motile forms were dominant (Navicula spp.). Our results suggest that Antarctic shallow-water benthic habitats may present a high degree of microniche heterogeneity and highlight the need of fine-scale analyses in microbial studies. We also suggest grazers as a factor that contributes greatly to the observed differences.     

Experimental measurement of sediment nitrification and denitrification in Hamilton Harbour,Canada

This research examines the role of sediment nitrification and denitrification in the nitrogen cycle of Hamilton Harbour. The Harbour is subject to large ammonia and carbon loadings from a waste-water treatment plant and from steel industries. Spring ammonia concentrations rapidly decrease from 4.5 to 0.5 mg 1⁻¹, while spring nitrate concentrations increase from 1 to 2 mg l⁻¹, by mid-summer. A three-layer sediment model was developed. The first layer is aerobic; in it, oxidation of organics and nitrification occurs. The second layer is for denitrification, and the third layer is for anaerobic processes. Ammonia sources for nitrification include diffusion from the water column, sources associated with the oxidation of organics, sources from denitrification and from anaerobic processes. Diffusion of oxygen, ammonia and nitrate across the sediment-water interface occurs. Temperature effects are modelled using the Arrhenius concept. A combination of zero-order kinetics for nitrate or ammonia consumption with diffusion results in a half-order reaction, with respect to the water column loss rate to sediments. From experimental measurement, the rate of nitrification is 200 mg N 1⁻¹ sediment per day, while that of denitrification is 85 mg N 1–1 sediment per day at 20 °C. The Arrhenius activation energy is estimated as 15 000 cal/ mole-K and 17 000 cal/ mole-K for nitrification and denitrification, respectively, between 10 °C and 20 °C. Calculations of the flux of ammonia with the sediments, using the biofilm model, compare favourably with experimental observations. The ammonia flux from the water column is estimated to account for 20% of the observed decrease in water column stocks of ammonia, while the nitrate flux from the water column is estimated to account for 25% of the total nitrogen produced by the sediments.     

Species of the planktonic diatom genus Pseudo-nitzschia of the Pacific coasts of Mexico

Species of the diatom genus Pseudo-nitzschia are common in the marine phytoplankton world-wide. Some species of this genus have been proved to be source of domoic acid (DA), a powerful toxin causing Amnesic Shellfish Poisoning (ASP) in humans and probably mass mortality in sea birds and mammals. Net plankton samples obtained during several cruises and seasons from the Pacific coasts of Mexico: western coasts of Baja California, Gulf of California, coasts of the tropical Pacific of Mexico (including the Gulf of Tehuantepec), were analyzed to study the species of the diatom genus Pseudo-nitzschia. Four species ( P. australis, a presumed toxic species, P. fraudulenta, P. lineola, P. pungens) and one former species of the genus, Nitzschia americana were recorded and studied by light and electron microscopy. The most common species was P. pungens, widely distributed along the Pacific coasts of Mexico. All other species appeared occasionally and in low relative abundances. The probable misidentification of P. australis as P. seriata is discussed, as well as the presence of another potentially toxic species, P. delicatissima, in the Gulf of California. No case of toxicity (ASP) has been fully documented and therefore related to toxic Pseudo-nitzschia species in the Gulf of California. This revised version was published online in July 2006 with corrections to the Cover Date.     

Relating macroinvertebrate community structure to environmental characteristics and sediment contamination at the scale of the St. Lawrence River

There is still no assessment of the impact of sediment chemicals and environmental conditions on macroinvertebrates at the scale of the St. Lawrence River. In order to assess these impacts in the fluvial section of the St. Lawrence River including the Montreal harbour, the community structure of macroinvertebrates using different taxonomic aggregations (genus and family) and taxa attributes (abundance, presence–absence, indicator taxa) was assessed. The goal of the study was to determine the indicator taxa of macroinvertebrates along the fluvial continuum and relate changes in macroinvertebrate community to sediment chemical conditions and environmental characteristics of habitats using variance partitioning. This study also evaluated which taxonomic level and taxa attributes of macroinvertebrates were the most suitable for bioassessment of quality of sediments and habitat environment in the St. Lawrence River. Four different macroinvertebrate assemblages were found distributed along the fluvial continuum using either abundance or presence–absence data and genus or family levels. Indicator taxa characteristic of the different macroinvertebrate communities were associated with the sediment contamination gradient. However, habitat environmental characteristics (water masses, sulphur and DOC in sediments) had more influence on macroinvertebrate assemblages than sediment contamination. Our study confirms that family level analysis can give information comparable to the genus level analysis using presence–absence or abundance of macroinvertebrates, yet a higher number of indicator taxa were detected at the genus level.     

Increasing dominance of small zooplankton with toxic cyanobacteria

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Nitrogen-fixing phylotypes of Chesapeake Bay and Neuse River estuary sediments

Sediments often exhibit low rates of nitrogen fixation, despite the presence of elevated concentrations of inorganic nitrogen. The organisms that potentially fix nitrogen in sediments have not previously been identified. Amplification of nifH genes with degenerate primers was used to assess the diversity of diazotrophs in two distinct sediment systems, anoxic muds of Chesapeake Bay and shallow surficial sediments of the Neuse River. Phylogenetic analysis revealed that sequences obtained from mid-Chesapeake Bay, which receive high organic loading and are highly reducing, clustered closely with each other and with known anaerobic microorganisms, suggesting a low abundance of aerobic or facultative diazotrophs in these sediments. Sulfate reduction dominates in the surface, but methanogenesis becomes more important with depth. A thin (<1 cm) oxidized layer is present only in the spring. No archaeal nifH sequences were obtained from Chesapeake Bay. Sequences of nifH amplified from surficial sediments of the Neuse River were distant from Chesapeake Bay sequences and included nif phylotypes related to sequences previously reported from marine mats and the Spartina rhizosphere. Differences in environmental site characteristics appear to select for different types of sediment diazotrophs, which is reflected in the phylogenetic composition of amplified nifH sequences.     

Concentrations of nitrogen in sandy sediments of a eutrophic estuarine lagoon

Concentrations of sediment organic nitrogen, dissolved inorganic nitrogen (ammonium, nitrite and nitrate), and dissolved organic nitrogen (DON) in sediments were measured at two sites in a eutrophic estuarine lagoon. One is a shallow aerobic site where macrobenthos are abundant and the other is a deep anaerobic site devoid of macrobenthos. Four species of macrobenthos (Bivalvia: Corbicula japonica, Annelida: Notomastus sp., Neanthes japonica and Oligochaeta sp.) were found in 8 sandy sediment cores collected at a shallow site in three succcessive summers. DON (170–1500 μg atom N l-1) was the major constituent of dissolved nitrogen with 10 times greater concentration than ammonium (55–180 μg atom N l-1) and 1000 times greater than nitrate (0.14–5.9 μg atom N l-1) and nitrite (0.21–1.4 μg atom N l-1). The ammonium content in anaerobic muddy sediments at the deep site (210–350 μg atom N l-1) was higher than in aerobic sandy sediments, whereas DON was higher in aerobic sediments than anaerobic sediments (90–240 μg atom N l-1). In aerobic sediments, depth profiles of DIN were nearly constant whereas DON was mostly highest at the surface. On the other hand, the increase of DON and ammonium was observed where macrobenthos was found. The occurrence of macrobenthos and high content of DON and ammonium content in the layers of sediment may suggest the influence of macrobenthos in the partitioning of nitrogen species through their motion and excretion. This revised version was published online in July 2006 with corrections to the Cover Date.     

The colonization of two Phaeocystis species (Prymnesiophyceae) by pennate diatoms and other protists: a significant contribution to colony biomass

The association of Phaeocystis spp. with small pennate diatoms during three Phaeocystis-dominated spring blooms were investigated in the Eastern English Channel (2003 and 2004) and in coastal waters of Western Norway during a mesocosm experiment (2005). In each of these studies, colonization of the surface of large Phaeocystis spp. colonies by small needle-shaped diatoms (Pseudo-nitzschia spp.) were observed. In the English Channel the diatom Pseudo-nitzschia delicatissima colonized the surface of large (>100 μm) Phaeocystis globosa colonies. The abundance of Pseudo-nitzschia delicatissima reached 130 cells per colony and formed up to 70% of the total carbon associated with Phaeocystis cells during late bloom stages. In Norwegian waters, the surface of large (>250 μm) Phaeocystis pouchetii colonies were colonized by Pseudo-nitzschia cf. granii var. curvata and to a lesser degree by other phytoplankton and protist species, although the abundance of these diatoms was never greater than 40 cells per colony. Based on these observations we suggest that diatoms utilize Phaeocystis colonies not only as habitat, but that they are able to utilize the colonial matrix as a growth substrate. Furthermore, these observations indicate that a considerable fraction of biomass (chlorophyll) associated with Phaeocystis colonies, especially large colonies concerned with intense and prolonged blooms, are due to co-occurring plankton species and not exclusively Phaeocystis cells.     

东海南部陆缘(莆、泉段)全新世沉积硅藻

对东海南部陆缘莆田、泉州地区两口钻井岩芯系统的沉积硅藻研究,共发现33属117种（或变种）硅藻化石,根据剖面硅藻组合特征的变化,结合计算机的对应分析结果划分了硅藻带,建立该区全新世的7个硅藻组合序列,恢复当时古环境演变的7个阶段,填补该区沉积硅藻系统研究的空白,丰富了海陆过渡沉积硅藻的研究。     

Direct and indirect effects of hypoxia on benthos in Corpus Christi Bay, Texas, U.S.A.

Hypoxia (low oxygen conditions) has been found in the southeastern region of Corpus Christi Bay, Texas, U.S.A. every summer since 1988. The objectives of the current study were to determine direct and indirect effects of hypoxia on macrofauna. Direct physiological effects of hypoxia include reduction of benthic abundance, biomass, diversity, species richness and species evenness because of physiological intolerance. Indirect ecological effects of hypoxia include predation of emerging benthic fauna from the sediment. Macrofaunal community characteristics were compared vertically within sediments in caged and uncaged sediment samples in hypoxic and normoxic areas. Cage effects were determined with partial cages, which had reduced flow and no predator exclusion. Dissolved oxygen concentrations during the experiment was monitored in water column profiles and continuous measurement of bottom water in the hypoxic and normoxic areas. Hypoxia in Corpus Christi Bay in 1999 occurred as transient events, many of which were of short duration (less than 1 h) and moderate intensity (around 2 mg l^− 1). The macrobenthic community characteristics (i.e., abundance, biomass, species richness, diversity, and evenness) were directly affected by hypoxia as indicated by depressed levels and few deeper-dwelling organisms in the hypoxic area. Community structure was also different between the hypoxic and normoxic areas because of loss of species (presumably due to intolerance to low oxygen) in the hypoxic areas. Benthic invertebrates were found primarily in the surface in the hypoxic area, but there was no significant indication of indirect effects, i.e., increased predation pressure in the hypoxic area. The increased exposure to predation risk may be mitigated by predator avoidance of hypoxic areas. In conclusion, hypoxia in Corpus Christi Bay has negative direct effects on benthic organisms, but no indirect effects, such as increased predation pressure. The most significant finding is the interaction between hypoxia and vertical distributions of infauna, which drive hypoxia intolerant organisms to the surface and out of sediments.     

Quantitative PCR coupled with melt curve analysis for detection of selected pseudo-nitzschia spp. (Bacillariophyceae) from the Northwestern Mediterranean sea

The frequency and intensity of Pseudo-nitzschia spp. blooms along the coast of Catalonia have been increasing over the past 20 years. As species from this genus that are documented as toxigenic have been found in local waters, with both toxic and nontoxic species cooccurring in the same bloom, there is a need to develop management tools for discriminating the difference. Currently, differentiation of toxic and nontoxic species requires time-consuming electron microscopy to distinguish taxonomic features that would allow identification as to species, and cryptic species can still remain misidentified. In this study, cells of Pseudo-nitzschia from clonal cultures isolated from seawater were characterized to their species identity using scanning electron microscopy, and subsamples of each culture were used to create an internal transcribed spacer 1 (ITS-1), 5.8S, and ITS-2 ribosomal DNA database for development of species-specific quantitative PCR (qPCR) assays. Once developed, these qPCR assays were applied to field samples collected over a 2-year period in Alfaques Bay in the northwestern Mediterranean Sea to evaluate the possibility of a comprehensive surveillance for all Pseudo-nitzschia spp. using molecular methods to supplement optical microscopy, which can discern taxonomy only to the genus level within this taxon. Total Pseudo-nitzschia cell density was determined by optical microscopy from water samples collected weekly and compared to results obtained from the sum of eight Pseudo-nitzschia species-specific qPCR assays using duplicate samples. Species-specific qPCR followed by melt curve analysis allowed differentiation of amplicons and identification of false positives, and results correlated well with the total Pseudo-nitzschia cell counts from optical microscopy.     

大亚湾澳头水域浮游植物群落结构及周年数量动态

对1997年至1998年广东省大亚湾澳头水域的浮游植物群落进行调查和分析。结果发现浮游植物65属198种;硅藻在种类组成和数量上都比甲藻占有优势,存在春季和秋季高峰,主要优势类群依次是角毛藻、骨条藻、拟菱形藻等;甲藻只存在春季高峰,代表种类有裸甲藻、原甲藻等。主要优势种类的生长与调查水域的盐度没有明显关系,但全年水温的季节性变化对优势种类的消长影响显著。Simpson多样性指数、Shannon-Weaver多样性指数、均匀度的年平均值分别是0.611、2.107、0.557,多样性指数没有明显的季节变化规律和水平分布规律。       

Re-assessment of ossicle frequency patterns in sediment cores: rate of sedimentation related to Acanthaster planci

Data on Acanthaster planci skeletal element distribution in reefal subsurface sediment cores of two reefs of the central Great Barrier Reef (Walbran et al. 1989 a, b) were shown to be readily interpretable after a timescaled evaluation of element frequencies. After re-scaling using ¹⁴C bulk sediment ages, high frequencies of elements were recognized in the top layers of John Brewer Reef sediment cores and attributed to the two recent A. planci population outbreaks. Beneath these top layers, the subsurface sediments contain consistently low element frequencies down to bulk-sediment ages of 7750±100 years BP. From Green Island, the maximum abundance of skeletal elements was found in the sediment layers of about 1900 to 2300 years BP in some cores, but patterns were too inconsistent and the number of cores too small to suggest former A. planci outbreaks from these data. A strong correlation was found between the frequency of A. planci elements and the rate of sedimentation per time unit in sediment cores of all sites. This correlation was attributed to increased erosion of coral reefs as a consequence of the activities of high-density populations of A. planci. We conclude that reef erosion, after intense predation of reef-constructing organisms, has to be considered when causes of deterioriation of reef growth or termination of a reef facies in the geological past are discussed.     

Physical background of the development of oxygen depletion in ice-covered lakes

The effect of the heat interaction between a water column and sediments on the formation, development, and duration of existence of anaerobic zones in ice-covered lakes is estimated based on observational data from five frozen lakes located in northwestern Russia and North America. A simple one-dimensional model that describes the formation and development of the dissolved oxygen deficit in shallow ice-covered lakes is suggested. The model reproduces the main features of dissolved oxygen dynamics during the ice-covered period; that is, the vertical structure, the thickness, and the rate of increase of the anaerobic zone in bottom layers. The model was verified against observational data. The results from the verification show that the model adequately describes the dissolved oxygen dynamics in winter. The consumption rates of DO by bacterial plankton and by bottom sediments, which depend on the heat transfer through the water–sediment interface, are calculated. The results obtained allow the appearance of potentially dangerous anaerobic zones in shallow lakes and in separate lake areas, which result from thermal regime changes, to be predicted. Priority programme of the German Research Foundation—contribution 10.