Using dielectrophoretic spectra to identify and separate viable yeast cells

Immotile yeast cells were transiently moved in nonuniform sinusoidal electric fields using multiple pairs of micro-parallel cylindrical electrodes equipped with a sequential signal generator (SSG) to analyze cell viability at a clinical scale for the brewery/fermentation industry. Living yeast cells of Saccharomyces cerevisiae during the exponential-stationary phase, with a cell density of 1.15 × 105 cells mL-1 were suspended in sucrose medium. The conductivity (σs) was adjusted to 0.01 S m-1 with added KCl. Cells exposed in electric field strengths ranging from 32.89 to 40.98 kV m-1, exhibited positive dielectrophoresis (pDEP) with the lower critical frequencies (LCF) at 85.72 ± 3.59 kHz. The optimized value of LCF was shifted upwards to 780.00 ± 83.67 kHz when σswas increased to 0.10 S m-1. Dielectrophoretic and LCF spectra (translational speed of cells vs. electric field frequencies) of yeast suspensions during positive dielectrophoresis were analyzed in terms of the dielectric properties of the cell membrane and cytoplasm which reflect yeast cell viability and metabolic health status. The dielectrophoretic collection yield of cells using positive dielectrophoresis was reported on the monitor of sequential signal generator software to evaluate the number of living and dead cells through a real-time image processing analyzer. The spectra of both positive dielectrophoresis of the living and dead cells had distinguishable dielectric properties. The conductivity of the yeast cytoplasm (σc) of the dead cells was significantly less (≈ ≤ 0.05 S m-1) than that of the living yeast cells which typically had a cytoplasmic conductivity of ≈ 0.2 S m-1. This difference between viable and non-viable cells is sufficient for cell separation procedures. KEY POINTS: • Dielectrophoresis can be used to separate viable and non-viable yeast cells, • Cellular dielectric properties can be derived from the analysis of their dielectric spectra, • Cytoplasmic conductivity of viable cells is ≈ 0.2 S m-1 while that of non-viable cells ≈ ≤ 0.05 S m-1.

Influence of Na+ disorder on cytoplasmic conductivity and cellular electromagnetic (EM) energy absorption of human erythrocytes (PONE-D-21-36089)

Cytoplasmic conductivity of human erythrocytes may be significantly disturbed by the composition of the external suspending media. Effects of external NaCl on cytoplasmic conductivity of human erythrocyte (Human Red Blood Cells, HRBC) were investigated in a simple NaCl system. Using thermodynamic theory cytoplasmic conductivities could be calculated from internal [K+], [Na+], [Cl-] and [HCO3-]. Effect of cell volume and cell water changes were introduced and allowed for using the Debye-Hückel-Onsager relation and Walden's rule of viscosity. Cell volume and cell water change of HRBCs were measured in suspending isotonic solutions with conductivities from 0.50 S m-1 up to hypertonic solutions of conductivity of 2.02 S m-1 at selected temperatures of 25°C (standard benchmark temperature) and 37°C (physiological temperature). In isotonic solutions, cytoplasmic conductivity of human erythrocyte decreases with rise in the external media ionic concentration and vice versa for hypertonic solutions. The HRBC is capable of rapidly regulating its volume (and shape) over quite a wide range of osmolality. Specific Absorption Rate (SAR, 900 MHz) values (W kg-1) of electromagnetic radiation are below safe limits at non-physiological 25°C but above legal limits at 37°C [National Council on Radiation Protection and Measurements, NCRP]. However, at 37°C under both hypertonic [Na+] and isotonic but low [Na+], SAR increases further beyond legal limits.

Photosynthetic electron transport in pitcher plants (Nepenthes mirabilis)

Pitcher plants (Nepenthes sp.) are insectivorous angiosperm plants with modified leaves known as pitchers best known as acting as traps for insects. Pitcher plants are typically found under boggy conditions under both forest cover and open areas with very poor nutrient status, particularly N-status. The pitchers have low photosynthetic activity. The Chl a content of the pitcher tissue of both Nepenthes mirabilis (green and red) varieties was very low. Chl b/a ratios of the green variety phyllodes (lamina) and pitchers were ≈ 0.24 to 0.29. In the red variety, the mature phyllodes had a Chl b/a ratio ≈ 0.28 but both the pitchers and the young phyllodes had Chl b/a ratios of nearly 0.5. Photosynthetic electron transport (ETR) was measured using PAM technology. Phyllodes of both varieties showed photoinhibition at supra-optimal irradiances [Nepenthes mirabilis (green variety), E_opt ≈ 200-250 µmol photon m^-2 s^-1; red variety, E_opt ≈ 100-150 µmol photon m^-2 s^-1]. Pitchers had low optimum irradiances (E_opt ≈ 40-90 µmol photon m^-2 s^-1). Maximum ETR (ETR_max) of phyllodes of both varieties was low (ETR_max ≈ 50 µmol e^- g^-1 Chl a s^-1); ETR_max was higher for pitchers on a Chl a basis (ETR_max ≈ 80-100 µmol e^- g^-1 Chl a s^-1); a consequence of their low Chl a content on a surface area basis. ETR_max of cut disks of phyllodes did not respond strongly to incubation in NH₄⁺, glutamate or aspartate as N-sources but did respond positively to added urea.

Griess-doped polyvinyl alcohol thin film for on-site simultaneous sample preparation and nitrite determination of processed meat products

To facilitate on-site nitrite determination for processed meat products, Griess-doped polyvinyl alcohol film was synthesized in the bottom of a plastic tube for in-tube determination. The tube's aperture was used to control the sample dimensions. Each sample, cut into eight sectors, was subjected to nitrite extraction by water. Use of tap water or commercial drinking water vs. ultrapure water was associated with < 2% differences in nitrite levels. The use of film and digital image colorimetry showed a low limit of detection (12.6 ± 0.5 µg L^-1), good precision (1.0%RSD, n = 5 days), and good accuracy (93.2 ± 3.5 to 108.5 ± 1.8%recovery). Using these methods, sodium nitrite concentrations in 700 processed meat products for sale in Phuket, Thailand, were found to range from 6.8 ± 0.2 to 113.6 ± 1.3 mg kg^-1. These results showed no significant differences with the HPLC standard method (p > 0.05, n = 45).

Photosynthetic electron transport rate (ETR) in the littoral herb Launaea sarmentosa known as mole crab in Thailand

Launaea sarmentosa (Willd.) Sch. Bip ex Kunze (Asteracaeae) is a littoral sand dune herb found in the Indian Ocean region, used as a folk medicine and as a savory vegetable in Thailand. It is in the transition stage from a kitchen & cottage industry to a commercial proposition. Rapid light curves to measure the photosynthetic electron transport rate (ETR) were conducted on the plants over the course of daylight from 6:00 to 18:00 using a PAM fluorometer on plants grown under 50% (nominal) green horticultural and 20% black (nominal) shade cloth and in the open. Plants grown in the open were sun plants. E_opt (µmol photon m^-2 s^-1) decreased slightly under shade cloth (open air: 890 > green shade cloth, 778 > green shade cloth, 713). Launaea shows limited shade adaptation. ETR decreased under shade cloth on both a surface area and Chl a basis (µmol e^- g Chl a^-1 s^-1) [open air: 388 > (green shade cloth, 209 = black shade cloth, 263)]. Maximum non-photochemical quenching (NPQ_max) was significantly decreased under black shade cloth [(open air: 1.02 = green shade cloth, 0.969) > black shade cloth, 0.694]. ETR showed midday inhibition (9:00-15:00) when irradiance exceeded the E_opt of Launaea. Daily total photosynthetic electron transport was (mmol e^- m^-2 d^-1): open air, 1890 ± 157; green shade cloth, 1620 ± 203, black shade cloth, 1217 ± 143. Green shade cloth has no effect on total daily photosynthetic electron transport of Launaea but offers some protection from desiccation and excessive evapotranspiration. Waterlogging decreases ETR by about 40%. Launaea can be grown watered with brackish (½ seawater) water unlike many other vegetables. Launeae is a physiologically undemanding cottage industry/market garden crop suitable for sandy coastline fishing communities.

Spectrofluorometric Insights into the Application of PAM Fluorometry in Photosynthetic Research

Although pulse amplitude modulation (PAM) fluorometry has revolutionized photosynthetic studies, Photosynthetic Electron Transport Rate (ETR) cannot be measured using PAM technology in some organisms. We compare in vivo absorbance information on a selection of photosynthetic organisms using an integrating sphere spectrophotometry on a variety of oxygenic and nonoxygenic photo-organisms and provide fluorescence data to help in understanding why PAM technology is unsuccessful on some organisms, particularly cyanobacteria. The study includes anoxygenic photosynthetic bacteria: Afifella marina, Rhodopseudomonas palustris and Thermochromatium which are all RC-2 type photosynthetic bacteria (Bacteriochlorophyll a or BChl a) which are known to have measureable delayed fluorescence, Yield and hence measureable ETR. The common unicellular green alga, Chlorella sp (Chl a + b) uses the same primary photosynthetic pigments as vascular plants. Comparisons are made to some other representative oxygenic unicellular organisms: Trebouxia (Chlorophyta, Chl a + b), Chaetoceros (a diatom, Chl a + c₁ c₂ ) and the unusual cyanobacterium Acaryochloris marina which has Chl d + a but uses Chl d as its primary photosynthetic pigment. Synechococcus R-2 (Cyanobacteria) has only Chl a. Its fluorescence is outside the range normally used for measuring photosynthesis using PAM technology: delayed fluorescence is not readily detectable.

A tribute to Robert John Porra (august 7, 1931-may 16, 2019)

Robert John Porra (7.8.1931-16.5.2019) is probably best known for his substantial practical contributions to plant physiology and photosynthesis by addressing the problems of both the accurate spectroscopic estimation and the extractability of chlorophylls in many organisms. Physiological data and global productivity estimates, in particular of marine primary productivity, are often quoted on a chlorophyll basis. He also made his impact by work on all stages of tetrapyrrole biosynthesis: he proved the C₅ pathway to chlorophylls, detected an alternative route to protoporphyrin in anaerobes and the different origin of the oxygen atoms in anaerobes and aerobes. A brief review of his work is supplemented by personal memories of the authors.

Photosynthesis in a Vanda sp orchid with Photosynthetic Roots

PAM fluorometry showed that the orchid Vanda sp (Gaud ex Pfitzers, Vandeae) had photosynthetic electron transport yields in leaves reaching ≈ 0.617 ± 0.262 at midday. Yield decayed exponentially as irradiance increased (Y_½ = 128 ± 12.4 μmol photon m^-2 s^-1). Optimum irradiance (E_opt) for ETR (Photosynthetic Electron Transport Rate) was ≈ 369 ± 23.3 μmol photon m^-2 s^-1; the maximum photosynthetic ETR (ETR_max) (on a Chl a basis) ≈ 97.6 ± 3.76 μmol e^-g^-1 Chl a s^-1. Rapid light curves exhibited classic photoinhibition at high irradiances: Vanda sp is a shade plant. Photosynthetic kinetics was strongly diurnal with minimal E_opt and ETR_max in the early morning, reaching a maximum at midday and decreasing in the afternoon. The aerial roots were normally photosynthetically dormant but rapidly activated when wet (homiochlorophyllous) then becoming dormant again after drying. Wet roots deliberately incubated under moist conditions had photosynthetic light curves comparable to leaves (Y_max ≈0.332, Y½ = ≈ 78.3 ± 27.8 μmol photons m^-2 s^-1, E_opt ≈ 278 μmol photons m^-2 s^-1 and ETR_max ≈ 317 ± 86.9 μmol e^-g^-1 Chl a s^-1): wetting for only 15 min activated photosynthesis. Leaves showed a small degree of diurnal cycling of titratable acid but acid was accumulated in the early morning, not at night, this is a type of CAM-cycling. Titratable acid was low at sunrise (≈ 54.1 μmol H⁺g^-1 FW), but increased until about 9 a.m. (≈ 137 μmol H⁺g^-1 FW) and then gradually decreased over the course of the day.

Masking Phosphate with Rare-Earth Elements Enables Selective Detection of Arsenate by Dipycolylamine-ZnII Chemosensor

Functional reassessment of the phosphate-specific chemosensors revealed their potential as arsenate detectors. A series of dipicolylamine (Dpa)-ZnII chemosensors were screened, among which acridine Dpa-ZnII chemosensor showed the highest capability in sensing arsenate. The presence of excess ZnII improved sensitivity and strengthened the binding between acridine Dpa-ZnII complex to arsenate as well as phosphate. However, due to their response to phosphate, these sensors are not suited for arsenate detection when phosphate is also present. This study demonstrated for the first time that rare-earth elements could effectively mask phosphate, allowing the specific fluorescence detection of arsenate in phosphate-arsenate coexisting systems. In addition, detection of arsenate contamination in the real river water samples and soil samples was performed to prove its practical use. This sensor was further employed for the visualization of arsenate and phosphate uptake in vegetables and flowering plants for the first time, as well as in the evaluation of a potent inhibitor of arsenate/phosphate uptake.

Bioaccumulation and physiological responses of the Coontail, Ceratophyllum demersum exposed to copper, zinc and in combination

Ceratophyllum demersum is a submerged aquatic angiosperm which is fast growing in contaminated water. This plant has no roots and so takes up nutrients from the water column without the complicating factor of differential shoot/root uptake of nutrients. This study aimed to compare the bioaccumulative capacities of Cu, Zn and their combination by C. demersum and physiological responses (growth, chlorophyll content, and photosynthetic rate) of C. demersum to Cu and Zn. Additionally, pulse amplitude modulation (PAM) technology and integrating sphere spectrometer were applied to detect copper and zinc toxicity effects on the light reactions of photosynthesis C. demersum is an aquatic plant that could be a good accumulator of Cu and Zn in actual solution in the water column. Additionally, RGR (relative growth rate) and chlorophyll content of C. demersum show that toxic effects of Cu or Zn increased over time. Cu and Zn effects manifested themselves more slowly than expected: at least 5 to 10 d were needed for noticeable effects both macroscopically (physical appearance), biochemical (chlorophyll content) and from measurements of photosynthesis using Pulse Amplitude Modulation (PAM) fluorometry. Moreover, the combination of Cu and Zn caused more toxic effect than either Cu or Zn separately. Whole plant scans using an integrating sphere spectrophotometer showed that Cu, Zn and Zn + Cu toxicity effects could be identified from spectral scans but were not specific enough for Cu, Zn and Zn + Cu toxicity to be distinguished from one another.

Arsenic toxicity in the water weed Wolffia arrhiza measured using Pulse Amplitude Modulation Fluorometry (PAM) measurements of photosynthesis

Accumulation of arsenic in plants is a serious South-east Asian environmental problem. Photosynthesis in the small aquatic angiosperm Wolffia arrhiza is very sensitive to arsenic toxicity, particularly in water below pH 7 where arsenite (As (OH)3) (AsIII) is the dominant form; at pH >7 AsO4(2-) (As(V) predominates). A blue-diode PAM (Pulse Amplitude Fluorometer) machine was used to monitor photosynthesis in Wolffia. Maximum gross photosynthesis (Pgmax) and not maximum yield (Ymax) is the most reliable indicator of arsenic toxicity. The toxicity of arsenite As(III) and arsenate (H2AsO4(2-)) As(V) vary with pH. As(V) was less toxic than As(III) at both pH 5 and pH 8 but both forms of arsenic were toxic (>90% inhibition) at below 0.1molm(-3) when incubated in arsenic for 24h. Arsenite toxicity was apparent after 1h based on Pgmax and gradually increased over 7h but there was no apparent effect on Ymax or photosynthetic efficiency (α0).

Anaerobic digestion of food waste using yeast

Fermentative breakdown of food waste seems a plausible alternative to feeding food waste to pigs, incineration or garbage disposal in tourist areas. We determined the optimal conditions for the fermentative breakdown of food waste using yeast (Saccharomyces cerevisiae) in incubations up to 30days. Yeast efficiently broke down food waste with food waste loadings as high as 700g FW/l. The optimum inoculation was ≈46×10(6)cells/l of culture with a 40°C optimum (25-40°C). COD and BOD were reduced by ≈30-50%. Yeast used practically all the available sugars and reduced proteins and lipids by ≈50%. Yeast was able to metabolize lipids much better than expected. Starch was mobilized after very long term incubations (>20days). Yeast was effective in breaking down the organic components of food waste but CO2 gas and ethanol production (≈1.5%) were only significant during the first 7days of incubations.

Growth inhibition and altered gene transcript levels in earthworms (Eisenia fetida) exposed to 2,2',4,4'-tetrabromodiphenyl ether

The toxic effects of the ubiquitous pollutant 2,2',4,4'-tetrabromodiphenyl ether (BDE-47) on the earthworm Eisenia fetida were assessed by determining growth-inhibition and gene transcript levels of superoxide dismutase (SOD), catalase (CAT), glutathione transferase (GST), and transcriptional changes of the stress-response gene (heat-shock protein 70 [Hsp70]). Somatic growth and growth-inhibition rates in all BDE-47-treated groups were significantly different from those of the controls. The SOD gene transcripts were upregulated at all exposure doses and reached the maximum at the concentration of 400 mg/kg dry weight (dw) (3.84-fold, P < 0.01), which protected earthworms from oxidative stresses. However, downregulation of CAT and Hsp70 was present in all exposure doses and reached to the minimum at concentrations of 400 mg/kg dw (0.07-fold, P < 0.01 and 0.06-fold, P < 0.01, respectively). Upregulation of GST gene transcript level presented significant changes at concentrations of 10 (2.69-fold, P < 0.05) and 100 mg/kg dw (2.55-fold, P < 0.05). SOD maintained a dynamic balance to upregulate SOD expression to eliminate superoxide radicals in all dosage treatments, but downregulation of CAT decreased the ability to eliminate hydrogen peroxide. These changes could result in biochemical and physiological disturbances in earthworms.

Breakdown of food waste by anaerobic fermentation and non-oxygen producing photosynthesis using a photosynthetic bacterium

Large volumes of food waste are produced by restaurants, hotels, etc generating problems in its collection, processing and disposal. Disposal as garbage increases the organic matter in landfills and leachates. The photosynthetic bacterium Rhodopseudomonas palustris (CGA 009) easily broke down food waste. R. palustris produces H2 under anaerobic conditions and digests a very wide range of organic compounds. R. palustris reduced BOD by ≈70% and COD by ≈33%, starch, ammonia, nitrate, was removed but had little effect on reducing sugar or the total phosphorus, lipid, protein, total solid in a 7-day incubation. R. palustris produced a maximum of 80ml H2/g COD/day. A two-stage anaerobic digestion using yeast as the first stage, followed by a R. palustris digestion was tested but production of H2 was low.

Characterization of exopolymeric substances from selected Rhodopseudomonas palustris strains and their ability to adsorb sodium ions

Removal of Na(+) by binding with exopolymeric substances (EPS) from Rhodopseudomonas palustris TN114 and PP803 was investigated. The moderate negative correlation pairs (rp) between remaining Alcian blue and amount of Na(+) adsorbed on EPS from strains TN114 and PP803 were -0.652 and -0.609. Both strains showed positive relationships between the amounts of EPS produced and bacterial growth. EPS from strain PP803 had a higher efficiency in removing Na(+) than the EPS from strain TN114 based on their EC50 values (1.79 and 1.49 mg/mL for TN114 and PP803, respectively). The principal component from EPS of strain PP803 which was responsible for salt removal was purified and it was identified as a polysaccharide (≈18 kDa) mainly composed of galacturonic acid. Overall results suggested that EPS is a key factor that our strains used to bind Na(+) allowing their survival in high NaCl concentrations.

Probabilistic risk assessment of diuron and prometryn in the Gwydir River catchment, Australia, with the input of a novel bioassay based on algal growth

A probabilistic risk assessment of the selected herbicides (diuron and prometryn) in the Gwydir River catchment was conducted, with the input of the EC₅₀ values derived from both literature and a novel bioassay. Laboratory test based on growth of algae exposed to herbicides assayed with a microplate reader was used to examine the toxicity of diuron and prometryn on the growth of Chlorella vulgaris. Both herbicides showed concentration dependent toxicity in inhibiting the growth of Chlorella during the exposure period of 18-72 h. Diuron caused more toxicity as judged by growth rates than prometryn. Thalaba Creek at Merrywinebone was identified as the 'hotspot' for diuron and prometryn risk in the Gwydir catchment. The use of microplate assays coupled with probabilistic risk assessment is recommended for rapid assessment of ecotoxicity of indigenous species, allowing identification of locations in river catchments requiring environmental management.

Biobased plastics in a bioeconomy

Bioeconomy plans include a biobased industries sector in which some oil-derived plastics and chemicals are replaced by new or equivalent products derived, at least partially, from biomass. Some of these biobased products are here today, but to fulfil their societal potential, greater attention is required to promote awareness, and to improve their market share while making valuable contributions to climate change mitigation.

The ammonia transport, retention and futile cycling problem in cyanobacteria

Ammonia is the preferred nitrogen source for many algae including the cyanobacterium Synechococcus elongatis (Synechococcus R-2; PCC 7942). Modelling ammonia uptake by cells is not straightforward because it exists in solution as NH(3) and NH (4) (+) . NH(3) is readily diffusible not only via the lipid bilayer but also through aquaporins and other more specific porins. On the other hand, NH (4) (+) requires cationic transporters to cross a membrane. Significant intracellular ammonia pools (≈1-10 mol m(-3)) are essential for the synthesis of amino acids from ammonia. The most common model envisaged for how cells take up ammonia and use it as a nitrogen source is the "pump-leak model" where uptake occurs through a simple diffusion of NH(3) or through an energy-driven NH (4) (+) pump balancing a leak of NH(3) out of the cell. The flaw in such models is that cells maintain intracellular pools of ammonia much higher than predicted by such models. With caution, [(14)C]-methylamine can be used as an analogue tracer for ammonia and has been used to test various models of ammonia transport and metabolism. In this study, simple "proton trapping" accumulation by the diffusion of uncharged CH(3)NH(2) has been compared to systems where CH(3)NH (3) (+) is taken up through channels, driven by the membrane potential (ΔU (i,o)) or the electrochemical potential for Na(+) (ΔμNa (i,o) (+) ). No model can be reconciled with experimental data unless the permeability of CH(3)NH(2) across the cell membrane is asymmetric: permeability into the cell is very high through gated porins, whereas permeability out of the cell is very low (≈40 nm s(-1)) and independent of the extracellular pH. The best model is a Na (in) (+) /CH(3)NH (3) (+) (in) co-porter driven by ΔμNa (i,o) (+) balancing synthesis of methylglutamine and a slow leak governed by Ficks law, and so there is significant futile cycling of methylamine across the cell membrane to maintain intracellular methylamine pools high enough for fixation by glutamine synthetase. The modified pump-leak model with asymmetric permeability of the uncharged form is a viable model for understanding ammonia uptake and retention in plants, free-living microbes and organisms in symbiotic relationships.

Chromatic photoacclimation extends utilisable photosynthetically active radiation in the chlorophyll d-containing cyanobacterium, Acaryochloris marina

Chromatic photoacclimation and photosynthesis were examined in two strains of Acaryochloris marina (MBIC11017 and CCMEE5410) and in Synechococcus PCC7942. Acaryochloris contains Chl d, which has an absorption peak at ca 710 nm in vivo. Cultures were grown in one of the three wavelengths (525 nm, 625 nm and 720 nm) of light from narrow-band photodiodes to determine the effects on pigment composition, growth rate and photosynthesis: no growth occurred in 525 nm light. Synechococcus did not grow in 720 nm light because Chl a does not absorb effectively at this long wavelength. Acaryochloris did grow in 720 nm light, although strain MBIC11017 showed a decrease in phycobilins over time. Both Synechococcus and Acaryochloris MBIC11017 showed a dramatic increase in phycobilin content when grown in 625 nm light. Acaryochloris CCMEE5410, which lacks phycobilins, would not grow satisfactorily under 625 nm light. The cells adjusted their pigment composition in response to the light spectral conditions under which they were grown. Photoacclimation and the Q (y) peak of Chl d could be understood in terms of the ecological niche of Acaryochloris, i.e. habitats enriched in near infrared radiation.

Comparative virulence of Infectious salmon anaemia virus isolates in Atlantic salmon, Salmo salar L

Infectious salmon anaemia virus (ISAV) surveillance in the Bay of Fundy has identified the existence of a large number of genetically distinct ISAV isolates which appear to be of variable virulence. Genetically distinct isolates are currently being designated based on sequencing of the hyper polymorphic region (HPR) of genomic segment 6, which encodes the haemagglutinin-esterase protein, but it has been difficult to elucidate a clear association between these molecular variations and variations in virulence. This has hampered the establishment of proactive management decisions regarding infected fish, and ISAV infections, regardless of type, must be treated as one. Field data of ISAV infections is difficult to collect and to compare between infections because of a wide range of confounding factors including time of year, fish stock, cage site location, mitigating factors and stressors. An important tool in determining the relationship between molecular differences and virulence comes from analysis of quarantine studies. The goal of this study was to compare the virulence, by co-habitation and intraperitoneal injection, of four regionally common and recent ISAV isolates in a controlled environment. We found significant differences in mortality between ISAV molecular isolates, and present data showing that survival of ISAV infection confers significant resistance to re-infection with a different ISAV isolate. These findings, if borne out in field studies, will significantly alter the way ISAV infections are managed in the Bay of Fundy and elsewhere.

Fitting light saturation curves measured using modulated fluorometry

A blue diode PAM (Pulse Amplitude Modulation) fluorometer was used to measure rapid Photosynthesis (P) versus Irradiance (E) curves (P vs. E curves) in Synechococcus (classical cyanobacteria), Prochlorothrix (prochlorophyta), Chlorella (chlorophyta), Rhodomonas (cryptophyta), Phaeodactylum (bacillariophyta) Acaryochloris (Chl d/a cyanobacteria) and Subterranean Clover (Trifolium subterraneum, Papilionaceae, Angiospermae). Effective quantum yield (Phi(PSII)) versus irradiance curves could be described by a simple exponential decay function (Phi(PSII) = Phi(PSII, maxe(-kE)) although Log/Log transformation was sometimes found to be necessary to obtain the best fits. Photosynthesis was measured as relative Electron Transport Rate (rETR) standardised on a chlorophyll basis. P versus E curves were fitted to the waiting-in-line function (an equation of the form P = P(max) x k x E x e(-kE)) allowing half-saturating and optimal irradiances (E(optimum)) to be estimated. The second differential of the equation shows that at twice optimal light intensities, there is a point of inflection in the P versus E curve. Photosynthesis is inhibited 26.4% at this point of inflection. The waiting-in-line model was found to be a very good descriptor of photosynthetic light saturation curves and superior to hyperbolic functions with an asymptotic saturation point (Michaelis-Menten, exponential saturation and hyperbolic tangent). The exponential constants (k) of the Phi(PSII) versus E and P versus E curves should be equal because rETR is directly proportional to Phi(PSII) x E. The conventionally calculated Non-Photochemical Quenching (NPQ) in Synechococcus was not significantly different to zero but NPQ versus E curves for the other algae could be fitted to an exponential saturation model. The kinetics of NPQ does not appear to be related to the kinetics of Phi(PSII) or rETR.

Chromatic photoacclimation, photosynthetic electron transport and oxygen evolution in the Chlorophyll d-containing oxyphotobacterium Acaryochloris marina

Changes in photosynthetic pigment ratios showed that the Chlorophyll d-dominated oxyphotobacterium Acaryochloris marina was able to photoacclimate to different light regimes. Chl d per cell were higher in cultures grown under low irradiance and red or green light compared to those found when grown under high white light, but phycocyanin/Chl d and carotenoid/Chl d indices under the corresponding conditions were lower. Chl a, considered an accessory pigment in this organism, decreased respective to Chl d in low irradiance and low intensity non-white light sources. Blue diode PAM (Pulse Amplitude Modulation) fluorometry was able to be used to measure photosynthesis in Acaryochloris. Light response curves for Acaryochloris were created using both PAM and O(2) electrode. A linear relationship was found between electron transport rate (ETR), measured using a PAM fluorometer, and oxygen evolution (net and gross photosynthesis). Gross photosynthesis and ETR were directly proportional to one another. The optimum light for white light (quartz halogen) was about 206+/-51 micromol m(-2) s(-1) (PAR) (Photosynthetically Active Radiation), whereas for red light (red diodes) the optimum light was lower (109+/-27 micromol m(-2) s(-1) (PAR)). The maximum mean gross photosynthetic rate of Acaryochloris was 73+/-7 micromol mg Chl d(-1) h(-1). The gross photosynthesis/respiration ratio (P(g)/R) of Acaryochloris under optimum conditions was about 4.02+/-1.69. The implications of our findings will be discussed in relation to how photosynthesis is regulated in Acaryochloris.

Consistent sets of spectrophotometric chlorophyll equations for acetone, methanol and ethanol solvents

A set of equations for determining chlorophyll a (Chl a) and accessory chlorophylls b, c2, c1 + c2 and the special case of Acaryochloris marina, which uses Chl d as its primary photosynthetic pigment and also has Chl a, have been developed for 90% acetone, methanol and ethanol solvents. These equations for different solvents give chlorophyll assays that are consistent with each other. No algorithms for Chl c compounds (c2, c1 + c2) in the presence of Chl a have previously been published for methanol or ethanol. The limits of detection (and inherent error, +/- 95% confidence limit), for chlorophylls in all organisms tested, was generally less than 0.1 microg/ml. The Chl a and b algorithms for green algae and land plants have very small inherent errors (< 0.01 microg/ml). Chl a and d algorithms for Acaryochloris marina are consistent with each other, giving estimates of Chl d/a ratios which are consistent with previously published estimates using HPLC and a rarely used algorithm originally published for diethyl ether in 1955. The statistical error structure of chlorophyll algorithms is discussed. The relative error of measurements of chlorophylls increases hyperbolically in diluted chlorophyll extracts because the inherent errors of the chlorophyll algorithms are constants independent of the magnitude of absorbance readings. For safety reasons, efficient extraction of chlorophylls and the convenience of being able to use polystyrene cuvettes, the algorithms for ethanol are recommended for routine assays of chlorophylls. The methanol algorithms would be convenient for assays associated with HPLC work.

Estimation of cytoplasmic nitrate and its electrochemical potential in barley roots using 13NO3 and compartmental analysis

13NO3 was used to determine the intracellular compartmentation of NO3 in barley roots (Hordeum vulgare cv. Klondike), followed by a thermodynamic analysis of nitrate transport. Plants were grown in one-tenth Johnson's medium with 1 mol m3 NO3 (NO3-grown plants) or 1 mol m3 NH4NO3 (NH4NO3-grown plants). The cytoplasmic concentrations of NO3 in roots were only approx. 3-6 mol m3 (half-time for exchange approx. 21 s) in both NO3 and NH4NO3 plants. These pool sizes are consistent with published nitrate microelectrode data, but not with previous compartmental analyses. The electrochemical potential gradient for nitrate across the plasmalemma was +26 +/-1 kJ mol1 in both NO3- and NH4NO3-grown plants, indicating active uptake of nitrate. At an external pH of 6, the plasmalemma electrochemical potential for protons would be approx. -29 +/- 4 kJ mol1. If the cytoplasmic pH was 7.3 +/- 0.2, then 2H+/1NO3 cotransport, or a primary ATP-driven pump (2NO3/1ATP), are both thermodynamically possible. NO3 is also actively transported across the tonoplast (approx. +6 to 7 kJ mol1).

Hexose uptake by developing cotyledons of Vicia faba: physiological evidence for transporters of differing affinities and specificities

Cotyledons of broad bean (Vicia faba L.) develop in an apoplasmic environment that shifts in composition from one dominated by hexoses to one dominated by sucrose. During the latter phase of development, sucrose / H⁺ symporter activity and expression is restricted to cotyledon epidermal transfer cell complexes that support sucrose fluxes that are 8.5-fold higher than those exhibited by the storage parenchyma. In contrast, the flux difference between these cotyledon tissues is only 1.7-fold for hexoses. Glucose and fructose uptake was shown to be sensitive to PCMBS and phloridzin, both of which slow H⁺-sugar transport. A low K_m (or high affinity transporter, HAT) mechanism transports glucose and glucose-analogues exclusively. No HAT system for fructose could be found. A high K_m (low affinity transporter, LAT) mechanism transports a broader range of hexoses, including glucose and fructose. Consistent with glucose and fructose transport being H⁺-coupled, their uptake was inhibited by dissipating the proton motive force (pmf) by treating cotyledons with carbonyl cyanide m-chlorophenol hydrazone, propionic acid or tetraphenylphosphonium ion. Erythrosin B inhibited hexose uptake, indicating a role for the P-type H⁺-ATPase in establishing the pmf. It is concluded that H⁺-coupled glucose and fructose transport mechanisms occur at plasma membranes of dermal transfer cell complexes and storage parenchyma cells. These transport mechanisms are active during pre- and storage phases of cotyledon development. However, hexose symport only makes a quantitative contribution to cotyledon biomass gain during the pre-storage stage of development.

Sugar retrieval by coats of developing seeds of Phaseolus vulgaris L. and Vicia faba L

Influxes of glucose, fructose and sucrose were characterised for coat cells of developing seeds of Phaseolus vulgaris L. and Vicia faba L. by monitoring uptake of [(14)C]sugars into excised seed-coat halves and two different protoplast populations derived from seed coats. Sugar influxes by the two populations of protoplasts were similar for each sugar species [sucrose > (fructose approximately glucose)] and hexoses competed with sucrose. Concentration-dependent influxes of all three sugars by excised seed coats could be described by a simple directly proportional relationship between concentration ([S]) and uptake rate (v) in the physiological range of sugar concentrations (v approximately A.[S]). Alternatively, with the exception of fructose influx by Vicia, all could be fitted to a Michaelis-Menten relationship, as could sucrose uptake by Vicia protoplasts. Apparent K(m) values were high ( approximately 100-500 mM) compared with those reported for other systems. Sucrose transport was distinct from glucose and fructose transport in both species. Sugar influx was decreased by p-chloromercuribenzenesulfonic acid, carbonylcyanide m-chlorophenylhydrazone and erythrosin B. These responses are consistent with sugar/H(+) symport acting to retrieve photoassimilates leaked to the apoplasm during post-sieve element transport within seed coats.

Identification and characterization of segments 3 and 4 of the ISAV genome

Infectious Salmon Anaemia is a serious disease of farmed Atlantic Salmon on three continents. The disease causes severe anaemia and haemorrphagic liver necrosis, and carries major economic consequences for affected areas. Nevertheless, the causative agent, a novel orthomyxo-like Virus (Infectious Salmon Anaemia Virus - ISAV), is only partially characterized at the molecular level. We report the isolation and characterization of two novel ISAV segments at the genomic and proteomic levels. These segments are the third and fourth largest of the (ISAV) genome and may code for a nucleocapsid protein (NP) and a polymerase (PA). Western blot analysis using an ISAV polyclonal antibody identified one of these novel proteins as being the major tissue antigen. We discuss the implications of our findings for vaccine development and surveillance of Infectious Salmon Anaemia.

Identification of infectious salmon anaemia virus in Atlantic salmon from Nova Scotia (Canada): evidence for functional strain differences

Infectious salmon anaemia (ISA) is a serious disease responsible for high morbidity in farmed Atlantic salmon Salmo salar in Norway, Scotland and New Brunswick, Canada. Recent attempts to identify different strains of ISA virus (ISAV) based on nucleotide sequence variation have shown that the Norwegian and Scottish samples are similar to one another but markedly different from New Brunswick samples. These data may suggest the presence of different strains on each side of the Atlantic but no functional difference has been found with either strain. We describe the first identification and characterisation of ISAV in Atlantic salmon from Nova Scotia, Canada. Further, salmon infected with the Nova Scotia ISAV do not show typical ISAV pathology or mortality. Sequencing of this new strain showed it to possess greater similarity to ISAV from Norway and Scotland than to ISAV from New Brunswick. These findings are discussed in terms of a possible origin of the Nova Scotia ISAV strain and the existence of an avirulent ISAV strain. The impact of current strain variation studies on our knowledge of ISAV is also discussed.

A large polymorphic repeat in the pericentromeric region of human chromosome 15q contains three partial gene duplications

We report the identification of a partial duplication of GABRA5 , a gene within the imprinted 15q11-q13 region. The duplicated locus maps to the pericentromeric region of 15q, proximal to the large deletions associated with Angelman and Prader-Willi syndromes. We also observed variation in the number of copies of this locus in different individuals, indicating that the duplication is part of a variable repeat. Investigation of the duplication in individuals with a normal karyotype revealed between one and four copies of the repeat on each chromosome 15, whereas from eight to 20 copies were found in individuals possessing a cytogenetically detectable elongation of the 15q region. The variable region is roughly 1 Mb in size and contains two other non-processed duplications, the immunoglobulin heavy chain (IgH) D segment gene and the neurofibromatosis type 1 (NF1) gene. One unit of the pericentromeric repeat is thus composed of duplications of genes from different chromosomal regions. Moreover, we have found replication asynchrony across the GABRA5 duplication, suggesting for the first time that the imprinted part of chromosome 15q extends proximal of the region commonly deleted in Angelman and Prader-Willi syndromes.

Bioenergetics of membrane transport in Synechococcus R-2 (Anacystis nidulans, S.leopoliensis) PCC7942

Specialized chemical probe techniques need to be used to measure the membrane potential (delta psii,o) or the intracellular pH (pHi) of the cyanobacterium Synechococcus R-2 (PCC7942). The pHi of Synechococcus is essentially a set point (7.3) over a wide range of extracellular pH (pHo) from 7 to 11. Maintenance of the pHo is strongly Na+-dependent and the cells cannot tolerate acid pHo. The 86Rb+-valinomycin method of measuring the delta psii,o has inherent limitations, the most obvious being that the valinomycin treatment itself might alter the membrane potential. 201Tl+ has been found in Synechococcus to distribute across the plasmalemma passively, and so the accumulation ratio of the ion ([Tl+]i/[Tl+]o or Tl+i,o) can be used to calculate the apparent delta psii,o. The two types of probe give comparable results in Synechococcus. Polarizations of the delta psii,o of cells, because of electrogenic transport of ions, can be detected from its effects upon the uptake rate of permeant cations using both the 86Rb+-valinomycin and 201Tl+ methods. HCO3- hyperpolarized delta psii,o, whereas NH4+, CH3NH3+, and K+ led to depolarization. Most active transport systems, including the HCO3- pump, in cyanophytes appear to be ATP binding cassette (ABC) type ATP pumps. Few cotransport (H+ or Na+) driven mechanisms have been identified. A substantial proportion of the power available from photosynthesis and respiration is used to maintain ionic gradients and the membrane potential and in the light a large part (10%) is used to import inorganic carbon.Key words: cyanobacteria, membrane potential, intracellular pH, electrochemical gradient, bioenergetics.

Clonal heterogeneity at allelic methylation sites diagnostic for Prader-Willi and Angelman syndromes

Prader-Willi syndrome (PWS) and Angelman syndrome (AS) are developmental disorders resulting from the absence of the paternal or maternal contribution to the 15q11-13 region, respectively. Allele-specific methylation at D15S63 (PW71) has routinely been used as a diagnostic indicator of PWS and AS in DNA samples derived from peripheral blood. Extensive variation in allele-specific methylation patterns, however, has been observed at this site in different tissues, but the frequency or mechanism of this variation has remained uncharacterized. Herein, we have investigated the cellular basis of variation in methylation patterns at four sites of allelic methylation near SNRPN by using DNA samples derived from a panel of primary T lymphocyte clones. Interclonal variability was observed at three of these sites, including the diagnostic PW71 site. Changes in allele-specific methylation patterns occurred at a frequency of about one change in 50% of the cells every 22-25 doublings. In contrast, stable allele-specific methylation was observed in these clonal populations at exon 1 of SNRPN and the androgen receptor locus on the inactive X chromosome, suggesting that methylation at some CpG sites is more faithfully maintained than others. Clonal heterogeneity at PW71 was not an artifact of cell culture because the absence of allelic methylation was also observed in about 20% of the alleles in unstimulated peripheral blood. These results demonstrate that variation in allele-specific methylation at PW71 and other sites in the PWS/AS region appear to depend on the clonal complexity of the particular tissue and on the lack of strict maintenance of methylation within clones.

Population genetics of the FRAXE and FRAXF GCC repeats, and a novel CGG repeat, in Xq28

Most of the rare folate sensitive fragile sites cloned to date arise from expansion of a CGG:CCG trinucleotide repeat array. Analysis of the CAG repeat at the Huntington Disease (HD) locus showed a positively skewed repeat distribution leading to the proposal that microsatellites are subject to a mutational bias toward expansion. Such a mutational bias predicts an increase in mean repeat size at all microsatellite loci. We present an analysis of repeats at two fragile site loci, FRAXE and FRAXF, and a novel CGG repeat in Xq28, in five different human populations, which suggests that these loci may also be subject to the same mutation process. The novel repeat array may represent the first evidence for the existence of a fourth fragile site in Xq27.3-28.

A study of FRAXE in mentally retarded individuals referred for fragile X syndrome (FRAXA) testing in the United Kingdom

The folate-sensitive fragile site FRAXE is located in proximal Xq28 of the human X chromosome and lies approximately 600 kb distal to the fragile X syndrome (FRAXA) fragile site at Xq27.3. The cytogenetic expression of FRAXE is thought to be associated with mental handicap, but this is usually mild compared to that of the more common fragile X syndrome that is associated with the expression of the FRAXA fragile site. The exact incidence of FRAXE mental retardation is uncertain. We describe here the results of a U.K. survey designed to assess the frequency of FRAXE in a population of individuals referred for fragile X syndrome testing and found to be negative for expansion events at the FRAXA locus. No FRAXE expansion events were found in 362 cytogenetically negative males studied, and one expansion event was identified in a sample of 534 males for whom cytogenetic analyses were either unrecorded or not performed. Further FRAXE expansion events were detected in two related females known to be cytogenetically positive for a fragile site in Xq27.3-28. To gain insight into the FRAXE phenotype, the clinical details of the identified FRAXE male plus three other FRAXE individuals identified through previous referrals for fragile X syndrome testing are presented. For the population studied, we conclude that FRAXE mental retardation is a relatively rare but significant form of mental retardation for which genetic diagnosis would be appropriate.

The cloning of FRAXF: trinucleotide repeat expansion and methylation at a third fragile site in distal Xqter

Three fragile sites, FRAXA, FRAXE and FRAXF lie in the Xq27-28 region of the human X chromosome. The expression of FRAXA is associated with the fragile X syndrome, the most prevalent form of inherited mental retardation whilst the expression of FRAXE is associated with a rarer and comparatively milder form of mental handicap. Both the FRAXA and FRAXE sites have been cloned and the fragile site expression found to be due to the expansion of analogous CGG/GCC trinucleotide repeat arrays. We describe here the cloning of the third fragile site, FRAXF, and demonstrate that it involves the expansion of a (GCCGTC)n(GCC)n compound array. PCR analyses across the repeat of normal individuals show that the number of triplets in the array ranges from 12-26 and the most common allele consists of 14 triplet units. Sequencing analyses show that 95% of normal individuals have three copies of the GCCGTC motif and in these individuals, the size variation observed by PCR is due to copy number alterations in the GCC array. In a cytogenetically positive male with developmental delay, the array is expanded by > 900 triplets and the adjacent CpG-rich region is methylated. The array is also expanded in cytogenetically positive carrier females from the family originally used to define the FRAXF site. We conclude that the expanded array corresponds to the FRAXF fragile site.

Insulin gene region-encoded susceptibility to type 1 diabetes is not restricted to HLA-DR4-positive individuals

Type 1 or insulin-dependent diabetes mellitus (IDDM) is an autoimmune disease of the insulin-producing pancreatic beta-cells which is determined by both genetic and environmental factors. The major histocompatibility complex and the insulin gene region (INS) on human chromosomes 6p and 11p, respectively, contain susceptibility genes. Using a mostly French data set, evidence for linkage of INS to IDDM was recently obtained but only in male meioses (suggesting involvement of maternal imprinting) and only in HLA-DR4-positive diabetics. In contrast, we find evidence for linkage in both male and female meioses and that the effect of the susceptibility gene(s) in the INS region is not dependent on the presence of HLA-DR4.

Permeability of ammonia and amines in Rhodobacter sphaeroides and Bacillus firmus

Permeabilities of uncharged ammonia (NH3), methylamine (CH3NH2), and ethylamine (CH3CH2NH2) in the gram-negative phototrophic bacterium Rhodobacter sphaeroides were measured directly in cells grown heterotrophically under aerobic conditions. The permeability of NH3 was 2.55 +/- 0.73 microns s-1 (n = 20), but the permeabilities of CH3NH2 (MA) and CH3CH2NH2 (EA) were higher, PMA = 17.8 +/- 2.8 microns s-1 (n = 50), PEA = 24.7 +/- 3.9 microns s-1 (n = 44). The relative permeabilities of amines were also determined from their effect on the pH gradient across the cell membrane at alkaline external pH. In aerobically grown R. sphaeroides, both techniques indicated that the permeability of CH3CH2NH2 was about 30% greater than that of CH3NH2 but that the permeability of NH3 was only about 1/5 that of CH3NH2. The relative permeabilities of NH3 (A) and CH3NH2 were different in R. sphaeroides cells grown under three different physiological conditions: (a) cells grown aerobically with ammonium sulfate (PA/PMA about 0.20), (b) cells grown anaerobically with ammonium sulfate as their nitrogen source (PA/PMA about 0.29), and (c) diazotrophic cells (PA/PMA about 0.38). NH3 was also found to be only about 1/3 as permeable as CH3NH2 in the alkalophilic gram-positive bacterium Bacillus firmus. The findings that permeability properties of NH3 and CH3NH2 are very different in different bacteria and vary according to the conditions under which the organism is grown need to be taken into account in the interpretation of experiments where [14C]methylamine is used as an ammonia analog.