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PubMed2004

Variable fluorescence parameters in the filamentous Patagonian rhodophytes, Callithamnion gaudichaudii and Ceramium sp. under solar radiation.

The filamentous rhodophytes Callithamnion gaudichaudi Agardh and Ceramium sp. were utilized to study the effects of solar radiation (PAR, 400-700 nm, UV-B, 280-315 nm and UV-A, 315-400 nm) on the photosynthetic performance in situ in Patagonia waters (Argentina). A pulse amplitude modulated (PAM) fluorometer was used to determine the fluorescence parameters. The two species grew in different habitats in the eulittoral: Ceramium sp. was found only in rock pools while C. gaudichaudii grew on exposed rocks and fell dry during low tide. Both species differed in their fluorescence parameters and their sensitivity to solar radiation exposure. The photosynthetic quantum yield had its lowest values at noon, but it recovered in the afternoon/evening hours, when irradiances were lower. PAR (irradiance of about 400 W m(-2) at noon) was responsible for most of the decrease in the yield on clear days, especially in Ceramium sp., but UVR (280-400 nm) also accounted for a significant decrease. Fluence rate response curves indicated that both species were adapted to low fluence rates and showed a pronounced non-photochemical quenching at intermediate and higher irradiances. Both species showed a rapid adaptation during measurement of fast induction kinetics but differed significantly in their fluorescence components. All photosynthetic pigments were bleached after 8 h exposure to solar radiation over a full day. Strong absorption in the UV-A range, most likely due to mycosporine-like amino acids, was detected in both strains. The pronounced sensitivity to solar radiation in situ and the recovery capacity of these two filamentous Rhodophyte species, as well as the presence of protective compounds, suggests that these algae have the ability to adapt to the relatively high radiation levels and changes in irradiance found in the Patagonia waters.

Chlorophyll↗

PubMed2006

Feasibility study of a water safety data collection for beaches.

This study examined the feasibility of a methodology for collecting information on water safety on beaches. Previous work showed that lifeguards and lifesavers were unreliable data collectors as they often did not have time to devote to it. The aim of this study was to trial a data collection using dedicated data collectors. The results showed the water safety-related items that could be consistently reported, and those items that were not. Items relating to beach conditions that could be reported were: wave type, tide times, sea conditions, rips and weather and wind conditions. Items associated with rescues that could be reported were: sex, age group, activity before rescue, who performed the rescue, water depth, safety flag location, nearest rescue and rescue equipment. Data collectors could collect some data on an hourly basis especially: exact or best estimates of beach attendance, exact or best estimates of major rescues and rescues, wind direction and first aid used. Some items could not be collected consistently and their inclusion in data collections should be reviewed. These include: exact age, suburb, indigenous status and swimming ability. While the validity of the collected information was not able to be established, the feasibility study showed which items could be practically included in a water safety data collection, but that dedicated data collectors may be needed to maintain a safety data collection on busy or dangerous beaches. This approach together with data collection by water safety professionals at less busy times would be cost-effective.

Australia↗

PubMed2005

Tidal eddies in a semi-enclosed basin: a model study.

A modeling study has been carried out to support a Marine Management Plan for the Gulf of Kachchh, India and here the hydrodynamic part of the programme is described. The hydrodynamic model accurately predicts the tides and tidal currents present in the Gulf and these have been validated with the measured data, albeit at only a few locations. The time averaged residual currents obtained from the model for one lunar cycle clearly reproduce the complex, small-scale, topographically induced flows with several eddies. The existence of a dynamic barrier along Sikka-Mundra section, which divides the Gulf into two distinct dynamic systems, is very evident. The model is further used to predict the movement of surface floating particles launched at different locations in the Gulf, as an aid to determining floating pollutants. The results indicate that industries discharging wastes upstream of the barrier should use extreme caution, as these will remain in the vicinity for at least one lunar cycle.

Forecasting↗

PubMed2005

Effects of infauna harvesting on tidal flats of a coastal lagoon (Ria Formosa, Portugal): implications on phosphorus dynamics.

The systematic collection of benthic organisms in tidal flats of coastal lagoons should be taken into account for the management of these systems, once sediment disturbance affects biogeochemical processes by favouring pore water renewal during tidal inundation. The objective of the present work was to evaluate the effects of infauna harvesting on the phosphorus dynamics of muddy and sandy intertidal areas in the Ria Formosa. Sediment cores and overlying water were collected during August 2000 and February 2001 from reworked and undisturbed sediment before and after flooding. Results obtained showed that during the first minutes of flooding there was a marked decrease of phosphate in pore water of disturbed sediments. However, phosphate tidal fluxes from sandy sediment were clearly higher (17 nmol cm(-2) d(-1) in summer and 3 nmol cm(-2) d(-1) in winter) than in muddy sediment (0.4 nmol cm(-2) d(-1) in summer and -0.01 nmol cm(-2) d(-1) in winter). After muddy sediment disturbance concentrations of iron oxides increased quickly (from 5 to 16 micromol g(-1)) and phosphate was sorbed onto these iron oxides, resulting in a buffering of phosphate pore water concentrations at low values in the oxidized sediment zone. The estimated P-output from muddy sediment decreased one to two orders of magnitude after sediment disturbance in contrast to sandy sediments in which the impact of infauna harvesting was minimal. Consequently, the P-cycle is influenced by the disruption of muddy habitats in tide-driven systems. Such information could be useful for the management of the lagoon.

Animals↗

PubMed2005

Are strandline meiofaunal assemblages affected by a once-only mechanical beach cleaning? Experimental findings.

The increasing usage of sandy beaches as recreational resources has forced regional authorities of many tourist countries to remove all litter of fabricated origin and natural wrack from the beach. Consequently, a variety of heavy equipment has been developed during the last decades and is now used almost daily at many beaches. A field experiment, following a 'before-after-control-impact' (BACI) design, was conducted at the strandline of De Panne (Belgium) to investigate the impacts of mechanical beach cleaning on the strandline-associated meiofaunal assemblages, focussing on the free-living nematodes. Natural strandline assemblages were exposed to a one-off 5 cm deep mechanical beach cleaning and observed for 24 h. Differences between cleaned plots and those from control plots in terms of decreased percentage of organic matter, decreased total abundance and changed community structure were noticed from immediately after the experimental cleaning onwards and recovered to initial values after the following high water. Any impacts due to cleaning on species richness, Pielou's evenness and taxonomic diversity were shown to be minor in relation to the daily changes. Recolonization in the cleaned sediments is assumed to occur from the underlying sediments initiated by the elevated water table during the rising tide.

Analysis of Variance↗

PubMed2006

Distribution and sources of surfzone bacteria at Huntington Beach before and after disinfection on an ocean outfall-- a frequency-domain analysis.

Fecal indicator bacteria (FIB) were measured approximately 5 days a week in ankle-depth water at 19 surfzone stations along Huntington Beach and Newport Beach, California, from 1998 to the end of 2003. These sampling periods span the time before and after treated sewage effluent, discharged into the coastal ocean from the local outfall, was disinfected. Bacterial samples were also taken in the vicinity of the outfall during the pre- and post-disinfection periods. Our analysis of the results from both data sets suggest that land-based sources, rather than the local outfall, were the source of the FIB responsible for the frequent closures and postings of local beaches in the summers of 2001 and 2002. Because the annual cycle is the dominant frequency in the fecal and total coliform data sets at most sampling stations, we infer that sources associated with local runoff were responsible for the majority of coliform contamination along wide stretches of the beach. The dominant fortnightly cycle in enterococci at many surfzone sampling stations suggests that the source for these relatively frequent bacteria contamination events in summer is related to the wetting and draining of the land due to the large tidal excursions found during spring tides. Along the most frequently closed section of the beach at stations 3N-15N, the fortnightly cycle is dominant in all FIBs. The strikingly different spatial and spectral patterns found in coliform and in enterococci suggest the presence of different sources, at least for large sections of beach. The presence of a relatively large enterococci fortnightly cycle along the beaches near Newport Harbor indicates that contamination sources similar to those found off Huntington Beach are present, though not at high enough levels to close the Newport beaches.

Bacteria↗

PubMed2006

Tidal transport and dispersal of marine toxic microalgae in a shallow, temperate coastal lagoon.

A numerical model was used to predict toxic microalgal transport and dispersion in Ria de Aveiro in Portugal. A previously developed Lagrangean particle tracking model coupled to a calibrated two-dimensional hydrodynamic model of Ria de Aveiro was used. Microalgae were regarded as passive particles and the methodology used allowed the determination of their trajectories, as induced by the tidal currents predicted by the hydrodynamic model. The model assumes Ria de Aveiro as vertically homogeneous and does not take into account the vertical distribution patterns of microalgae. Simulations were carried out during extreme spring and neap tides, with microalgal released at the mouth of the lagoon at the local flood. The maximum and minimum areas affected during the occurrence of toxic microalgal blooms were estimated to evaluate the suitability of the distribution of the sampling stations included in the local monitoring program. It was found that the tidal currents greatly determine the microalgal horizontal distribution and dispersal in the lagoon. The results confirmed that the locations of water and bivalve shellfish sampling stations, postulated by INIAP/IPIMAR, in the context of the local harmful algal bloom (HAB) program, were appropriate, although some possible refinements were identified.

Animals↗

PubMed2004

Species diversity and distribution for phytoplankton of the Pearl River estuary during rainy and dry seasons.

Based on data collected at 31 stations and 1 continuous station in the Pearl River estuary during cruises of July 1999 (rainy season) and January 2001 (dry season), this study examined taxonomic composition, abundance, and spatial distribution of phytoplankton. Results indicated 130 species of phytoplankton in the samples from the rainy season, and 132 species in the dry season. Among them, in the rainy season, 82 species of diatom, 39 fresh-water and half-fresh-water species and 41 species of red tide organisms were found. Within these, there were 54 tropical and sub-tropical species, 47 cosmopolitan species and 17 temperate species. The abundance of phytoplankton in the rainy season was higher than that of the dry season, with an average of 6.3 x 10(5) cells x L(-1) and 1.4 x 10(5) cells x L(-1), respectively. Diversity index (H') and evenness (J) were 2.47 and 0.57 in the rainy season, and 2.01 and 0.54 in the dry season. The dominant phytoplankton species in the rainy season was Skeletonema costatum with an average of 2.8 x 10(5) cells x L(-1) and 45.0% of the total phytoplankton abundance. In the dry season, Eucampia zoodiacus became the key dominant species (5.9 x 10(4) cells x L(-1)) when it was 43.47% of the total phytoplankton abundance. Distribution of the dominant species varied with salinity of sea-water, and their amounts correlated negatively with nutrients and zooplankton.

Animals↗

PubMed2004

Field assessment of innovative sensor for monitoring of sediment accumulation at inshore coral reefs.

Sediment accumulation rate is a frequently required parameter in environmental and management studies, in particular near coral reefs where sediment accumulation can potentially cause severe impact. However, opportunities to obtain accurate sediment accumulation measurements are often limited by a lack of adequate instrumentation, in particular for high temporal resolution monitoring. For instance the traditional use of sediment traps, as the most widespread technique, offers poor temporal resolution (commonly of weeks) besides having significant hydrodynamic shortcomings. Therefore, a new optical backscatter sediment accumulation sensor (SAS) was developed to continuously measure in situ short-term sediment accumulation in sensitive riverine and coastal environments, enabling high temporal and vertical resolution (order of 1 h and with a deposited thickness resolution in the order of 20 microm respectively). This allows investigations of various parameters that influence accumulation: tides, current, waves, rain, or anthropogenic activity such as sediment dumping. This paper briefly describes the SAS and presents three field applications on nearshore coral reefs at Ishigaki Island (Japan), Lihir Island (Papua New Guinea), and Magnetic Island (Australia).

Animals↗

PubMed2004

Phytoplankton distributions and their relationship with the environment in the Changjiang Estuary, China.

This study was carried out in the Changjiang Estuary from 19 to 26 May 2003. Based on the data collected from 29 stations, including two anchor stations, phytoplankton taxonomic composition, abundance, diurnal variability and spatial distribution were examined. Eighty-seven species, including 54 species of diatoms and 16 red tide causative species, were identified. Average diversity index (H') and evenness (J) values were 1.04 and 0.40, respectively. A bloom in abundance of certain phytoplankton species, especially Prorocentrum dentatum and Skeletonema costatum, was thought to be the cause of the low diversity index and evenness values. Total phytoplankton abundance averaged 6.75 x 10(5)cells l(-1), and was much higher than previous investigation carried out in the same month in 1986. Abundance increased seaward showing a distinct spatial difference, and the dominant species varied with salinity. Correlation between phosphorus and abundance further supported the former conclusion that phosphorus is the controlling factor in phytoplankton growth in the Changjiang Estuary where light is not limiting. Based on the relationship between DO, pH and abundance, it is likely that the bloom was caused by rapid in situ growth of phytoplankton with high nutrients and sufficient light. The data also indicated that the duration of the bloom was not long and <half a day.

China↗

PubMed2005

Modelling salmon lice dispersal in Loch Torridon, Scotland.

A particle transport model is described that is being used to simulate the dispersal of salmon lice (Lepeophtheirus salmonis) larvae in the waters of Loch Torridon. A hydrodynamic model, forced by tides and winds, drives the transport model. Particle movements are strongly influenced by winds, which can lead to formation of lice concentrations in coastal areas several kilometres from the source. Idealised constant wind simulations have been used to locate areas that larval lice may potentially reach from given source locations. Detailed analysis of simulations forced with real wind data is required to assess areas that larval lice from these sources are likely to reach. Further field and experimental work on the viability of lice is required to assess infection risk.

Animals↗

PubMed2006

Tidal and longitudinal variation of faecal indicator bacteria in an estuarine creek in south-east Queensland, Australia.

A two-part study conducted in Elimbah Creek, a shallow estuarine waterway in south-east Queensland, Australia, examined the variations in physico-chemical parameters of water quality, chlorophyll a, and faecal indicator bacteria abundances of total coliform, Escherichia coli and enterococci, spatially at high and low tide and also over a 12h tidal cycle. Gradients of increasing faecal indicator bacteria from the mouth to the upper, tidal freshwater reaches were observed, despite isolated peaks during either tidal phase. Phytoplankton biomass (measured as chlorophyll a) did not noticeably increase during the study. Variations in the abundances of all three faecal indicator bacteria and their correlations with physico-chemical parameters indicated that although the creek was likely subject to some level of faecal contamination, tidal movement serves to limit faecal indicator and phytoplankton levels in the creek through physico-chemical stress and dilution. However, each faecal indicator bacteria investigated provided different estimations of faecal contamination, which challenges the effectiveness of employing a single type of faecal indicator bacteria when investigating the level of faecal contamination in waterways.

Biomass↗

PubMed2006

What is the future fate of estuaries given nutrient over-enrichment, freshwater diversion and low flows?

Freshwater inflow is central to the definition of estuaries and if we lose control of the quantity of freshwater flow or discharge (including seasonal timing) to estuaries, then freshwater water quality has the potential to become a moot issue in estuarine ecosystems (Definition of estuaries: estuaries (aestus = tide) are physico-chemically, geomorphically, and biotically diverse ecosystems. Although numerous definitions of estuaries exist, we prefer the following: an estuary is a partially enclosed coastal water body in which freshwater runoff, often seasonally and episodically pulsed, dilutes salty ocean water and the biotic structure is influenced by dynamic tidal action and associated salinity gradients and reef building organisms and wetlands influence development and evolution of ecological structure and function (see for expanded definition)).

Ecosystem↗

PubMed2006

Drifting blooms of the endemic filamentous brown alga Hincksia sordida at Noosa on the subtropical east Australian coast.

Since 2002, the usually uncommon endemic filamentous brown alga Hincksia sordida (Harvey) Silva (Ectocarpales, Phaeophyta) has formed nuisance blooms annually during spring/early summer at Main Beach, Noosa on the subtropical east Australian coast. The Hincksia bloom coincides with the normally intensive recreational use of the popular bathing beach by the local population and tourists. The alga forms dense accumulations in the surf zone at Main Beach, giving the seawater a distinct brown coloration and deterring swimmers from entering the water. Decomposing algae stranded by receding tides emit a nauseating sulphurous stench which hangs over the beach. The stranded algal biomass is removed from the beach by bulldozers. During blooms, the usually crowded Main Beach is deserted, bathers preferring to use the many unaffected beaches on the Sunshine Coast to the south of Main Beach. The bloom worsens with north-easterly winds and is cleared from Noosa by south easterly winds, observations which have prompted the untenable proposal by local authorities that the bloom is forming offshore of Fraser Island in the South Pacific Ocean. The Noosa River estuarine system/Laguna Bay is the more probable source of the bloom and the nutrient inputs into this system must be substantial to generate the high bloom biomass. Current mitigation procedures of removing the blooming alga off the beach with bulldozers treat the symptom, not the cause and are proving ineffective. Environmental management must be based on science and the Noosa bloom would benefit greatly from the accurate ecological data on which to base management options.

Australia↗

PubMed2006

Using attached macroalgae to assess ecological status of British estuaries for the European Water Framework Directive.

The EC Water Framework Directive requires that ecological quality be assessed in transitional waters using the abundance and species composition of macroalgae. In estuaries, which form the majority of transitional waters, species composition is not a suitable measure. This arises from two features: (i) there is a continuous, natural change in species composition along the gradient of estuarine conditions which makes it difficult to know where within an estuary the species composition should be assessed, (ii) the inner estuarine macroalgal community of mat-forming species is very tolerant to both natural and anthropogenic stress and species poor which makes it insensitive to environmental variations in terms of species composition. An alternative feature is proposed based on the extent of upstream penetration of perennial fucoid algae. This proposal is founded on a series of case studies of the changes in fucoid limits, within a number of estuaries in the British Isles, consequent upon changes in pollution status over the last three decades. This also has to take into account variations of fucoid penetration owing to natural factors such as range of salinity variation and turbidity. The abundance criterion is taken to mean the absence of macroalgal blooms or "green tides", because general abundance of species is hard to quantify meaningfully in the upper estuarine mat-forming species and in the lower estuary is subject to great variation owing to the physical variability of estuary types.

Ecosystem↗

PubMed2005

Increased precision of microbial RNA quantification using NASBA with an internal control.

Detection and quantification of low abundance target RNA has wide utility in the fields of clinical diagnostics, environmental monitoring, gene expression analysis, and biodefense. Nucleic acid based sequence amplification (NASBA) is an isothermal amplification method that provides the sensitivity needed for these applications. However, the requirement for three separate enzymes in NASBA often results in a greater variability between replicate samples than that seen in PCR-based assays. To overcome this problem, we have adapted the bioMérieux Nuclisens Basic Kit and Nuclisens EasyQ Analyzer along with the introduction of a synthetic internal control RNA (IC-RNA) for quantification of potentially any RNA sequence. Using the rbcL gene from the Florida red tide organism Karenia brevis as our target, we describe a simple method to accurately quantify the native target by computing the ratio of the time to positivity (TTP) values for both the wild-type and IC-RNA, and plotting this ratio against the starting number of target molecules or cells. By utilizing this simple method, we have significantly increased our accuracy and precision of prediction over the standard TTP calculations.

Animals↗

PubMed2006

Machine learning in sedimentation modelling.

The paper presents machine learning (ML) models that predict sedimentation in the harbour basin of the Port of Rotterdam. The important factors affecting the sedimentation process such as waves, wind, tides, surge, river discharge, etc. are studied, the corresponding time series data is analysed, missing values are estimated and the most important variables behind the process are chosen as the inputs. Two ML methods are used: MLP ANN and M5 model tree. The latter is a collection of piece-wise linear regression models, each being an expert for a particular region of the input space. The models are trained on the data collected during 1992-1998 and tested by the data of 1999-2000. The predictive accuracy of the models is found to be adequate for the potential use in the operational decision making.

Algorithms↗

PubMed2026

Multiplexed CRISPR/Cas9 mediated knockdown of BCH gene in potato enhances beta-carotene to combat vitamin A deficiency.

The inadequate amounts of provitamin A carotenoids in crops contribute to the widespread vitamin A deficiency, leading to malnutrition and blindness in humans. Suppression of the β-carotene hydroxylase (BCH) increases β-carotene levels. In the current study, we utilized the multiplexed CRISPR/Cas9 approach by designing three targets against the BCH gene in a local potato cultivar. Transformation efficiency was recorded as 15%, the successful integration of the CRISPR/Cas9-BCH multiplex construct in potatoes was confirmed through PCR. When analysed using TIDE software, Sanger sequencing revealed the highest indel efficacy of 92.1% in plant 7 and 26.6% in plant 1. qRT-PCR (quantitative real-time PCR) analysis indicated a significant 89-fold reduction in BCH transcript levels in genome-edited potato lines compared to control plants. Spectrophotometry demonstrated a notable increase in beta-carotene levels in genome-edited potato plants, ranging from 0.831 µg/mL FW to 4.236 µg/mL FW, compared to the control plant with the lowest beta-carotene concentration (0.344 µg/mL FW). HPLC analysis further confirmed increased beta-carotene levels in genome-edited potato plants, ranging from 0.11 mg/mL FW to 0.36 mg/mL FW, compared to the unmodified control plant with a minimum beta-carotene value of 0.09 mg/mL. Our results revealed that the multiplexed CRISPR-Cas9 approach targeting the BCH gene results in enhanced beta-carotene contents in potato tubers.

Solanum tuberosum↗