Effect of molecular confinement on internal enzyme dynamics: frequency domain fluorometry and molecular dynamics simulation studies

The tryptophanyl emission decay of the mesophilic beta-galactosidase from Aspergillus oryzae free in buffer and entrapped in agarose gel is investigated as a function of temperature and compared to that of the hyperthermophilic enzyme from Sulfolobus solfataricus. Both enzymes are tetrameric proteins with a large number of tryptophanyl residues, so the fluorescence emission can provide information on the conformational dynamics of the overall protein structure rather than that of the local environment. The tryptophanyl emission decays are best fitted by bimodal Lorentzian distributions. The long-lived component is ascribed to close, deeply buried tryptophanyl residues with reduced mobility; the short-lived one arises from tryptophanyl residues located in more flexible external regions of each subunit, some of which are involved in forming the catalytic site. The center of both lifetime distribution components at each temperature increases when going from the free in solution mesophilic enzyme to the gel-entrapped and hyperthermophilic enzyme, thus indicating that confinement of the mesophilic enzyme in the agarose gel limits the freedom of the polypeptide chain. A more complex dependence is observed for the distribution widths. Computer modeling techniques are used to recognize that the catalytic sites are similar for the mesophilic and hyperthermophilic beta-galactosidases. The effect due to gel entrapment is considered in dynamic simulations by imposing harmonic restraints to solvent-exposed atoms of the protein with the exclusion of those around the active site. The temperature dependence of the tryptophanyl fluorescence emission decay and the dynamic simulation confirm that more rigid structures, as in the case of the immobilized and/or hyperthermophilic enzyme, require higher temperatures to achieve the requisite conformational dynamics for an effective catalytic action and strongly suggest a link between conformational rigidity and enhanced thermal stability.     

Photosynthetic responses to photosynthetically active radiation and temperature including chilling‐light stress on the heteromorphic life history stages of a brown alga,Cladosiphon okamuranus (Chordariaceae) from Ryukyu Islands,Japan

Photosynthetic responses to temperature and photosynthetically active radiation (PAR) were investigated on the heteromorphic life history stages (macroscopic and microscopic stages) of an edible Japanese brown alga, Cladosiphon okamuranus from the Ryukyu Islands. Measurements were carried out by using optical dissolved oxygen sensors and a pulse‐amplitude modulated fluorometer. Maximum net photosynthetic rates and other parameters of the Photosynthesis – PAR curves at 28°C were somewhat similar in both life history stages, without characteristic photoinhibition at 1000 μmol photons m^?2 s^?1. Results of oxygenic gross photosynthesis and dark respiration experiments over a temperature range of 8–40°C revealed similar temperature optima for both stages (29.7°C, macroscopic stage; 30.3°C, microscopic stage), which support their observed occurrences in the habitat during summer. Maximum quantum yields of photosystem II (PSII ) (F _v /F _m ) were relatively stable at low temperatures with the highest at 15.1°C for the macroscopic stage and at 16.5°C for the microscopic stage; but dropped at higher temperatures especially above 28°C. Continuous exposures (6 h) to 200 and 1000 μmol photons m^?2 s^?1 at 8, 16, and 28°C revealed greater depressions in effective quantum yields of PSII (Φ _PSII ) of the microscopic stage at 8°C, as well as its F _v /F _m that barely increased after 6 h of dark acclimation. Whereas post‐dark acclimation F _v /F _m of both stages exposed to low PAR fairly recovered at 28°C, suggesting their photosynthetic tolerance to such high temperature. Under natural conditions, both heteromorphic stages of C. okamuranus may persist throughout the year in this region. Beyond its northern limit of distribution, the microscopic stage of this species may suffer from photodamage, as enhanced by low winter temperatures; hence, its restricted occurrence.     

A batch assay using Calcofluor fluorescence to characterize cell wall regeneration in plant protoplasts

A batch assay to study and measure the regeneration of cell walls during the early days of culture of primary protoplasts is presented. The assay involves the measurement of Calcofluor White fluorescence on a scanning fluorometer when the Calcofluor is adsorbed to the cellulosic component of the newly synthesized cell walls. The Calcofluor fluorescence, when standardized with microcrystalline cellulose, provided a measure of cell wall cellulose. The assay was used to study cell wall regeneration in Hyoscyamus muticus L. protoplasts during 8 days of culture.     

Dynamic fluorescence studies of beta-glycosidase mutants from Sulfolobus solfataricus: effects of single mutations on protein thermostability

Multiple sequence alignment on 73 proteins belonging to glycosyl hydrolase family 1 reveals the occurrence of a segment (83-124) in the enzyme sequences from hyperthermophilic archaea bacteria, which is absent in all the mesophilic members of the family. The alignment of the known three-dimensional structures of hyperthermophilic glycosidases with the known ones from mesophilic organisms shows a similar spatial organizations of beta-glycosidases except for this sequence segment whose structure is located on the external surface of each of four identical subunits, where it overlaps two alpha-helices. Site-directed mutagenesis substituting N97 or S101 with a cysteine residue in the sequence of beta-glycosidase from hyperthermophilic archaeon Sulfolobus solfataricus caused some changes in the structural and dynamic properties as observed by circular dichroism in far- and near-UV light, as well as by frequency domain fluorometry, with a simultaneous loss of thermostability. The results led us to hypothesize an important role of the sequence segment present only in hyperthermophilic beta-glycosidases, in the thermal adaptation of archaea beta-glycosidases. The thermostabilization mechanism could occur as a consequence of numerous favorable ionic interactions of the 83-124 sequence with the other part of protein matrix that becomes more rigid and less accessible to the insult of thermal-activated solvent molecules.     

A METHODOLOGICAL COMPARISON OF PHOTOSYNTHETIC OXYGEN EVOLUTION AND ESTIMATED ELECTRON TRANSPORT RATE IN TROPICAL ULVA (CHLOROPHYCEAE) SPECIES UNDER DIFFERENT LIGHT AND INORGANIC CARBON CONDITIONS1

Gross oxygen evolution was compared with the electron transport rate (ETR), estimated from chl a fluorescence parameters on the common tropical green macro alga Ulva fasciata Delile with confirmatory carbon saturation curves from U. reticulata Forskål. Theoretically, the relationship between estimated ETR and gross oxygen evolution should be 4:1, that is, four electrons are transported through PSII for each molecule of oxygen evolved. However, deviations of the 4:1 relationship have previously been reported. Measurements were conducted with two commercially available and portable pulse amplitude modulated (PAM) chl fluorometers. We sought experimental approaches that minimize discrepancies between the two different measuring techniques of photosynthetic rates, both for in situ and laboratory conditions. Using fresh algal tissue for each of the different irradiances gave the best fit of gross oxygen evolution and ETR even at irradiances above light saturation, where large discrepancies between oxygen evolution and ETR are common. With increasing dissolved inorganic carbon (DIC) concentrations, there was a curvilinear response of gross oxygen evolution in relation to ETR. We therefore suggest to establish DIC saturation curves in the laboratory, oxygen evolution is probably the most relevant choice. Photorespiration could not readily explain a curvilinear response of O₂ evolution and proportionally higher ETR at high irradiances. ETRs measured with the rapid light curve function of the PAM were compared with steady‐state rates of gross and net oxygen evolution, and the ETR was found to decrease at higher irradiances whereas oxygen evolution was constant.     

THE ROLE OF PHYTOPLANKTON SIZE ON PHOTOCHEMICAL RECOVERY DURING THE SOUTHERN OCEAN IRON EXPERIMENT1

Phytoplankton primary productivity in the Southern Ocean is controlled by complex interactions among iron, light, and grazing. This project interfaced with the Southern Ocean iron experiment (SOFeX) that created two iron‐enriched patches north and south of the Polar Front each with distinct silicic acid concentrations. We used pulse amplitude modulated fluorometry and measured the recovery of the maximum quantum yield of photochemistry (F_v/F_m) for three size fractions (whole, <5, <20 μm) and light adapted quantum yield (ΔF/F′_m) for single phytoplankton cells. The rates of recovery from iron stress were found to be unrelated to average cell size for both size‐fractioned and single‐celled measurements. The smallest cells appeared to exhibit more severe iron stress at the onset of the experiment than the larger taxa. The largest response detected in regression parameters was that of the pennate diatoms, which took only ～3.4 days to reach the maximum quantum yield, whereas the centric diatom Asteromphalus sp. reached maximum ΔF/F′_m after ～10.4 days. The north patch measurements showed a different response; the smallest cells never reached maximum ΔF/F′_m, whereas the size fraction containing the largest cells did. Single‐celled measurements made nearly 30 days after the initial iron enrichment suggested that diatoms were experiencing either silicic acid or iron limitation, whereas measurements of Phaeocystis sp. did not. These data represent the first study of in situ recovery rates of PSII for groups of diatoms, and may help elucidate the mechanisms of species change in response to environmental perturbation.     

Methadone increases intracellular calcium in SH-SY5Y and SH-EP1-halpha7 cells by activating neuronal nicotinic acetylcholine receptors

(-)-Methadone acts as an agonist at opioid receptors. Both (+)- and (-)-enantiomers of methadone have been suggested to be potent non-competitive antagonists of alpha3beta4 neuronal nicotinic acetylcholine receptors (nAChRs). In the present study, we have examined interactions of methadone with nAChRs by using receptor binding assays, patch-clamp recording and calcium fluorometry imaging with SH-SY5Y cells naturally expressing alpha7 and alpha3* nAChR subtypes and SH-EP1-halpha7 cells heterologously expressing human alpha7 nAChRs. Methadone potently inhibited binding of [3H]methyllycaconitine to alpha7 nAChRs and that of [3H]epibatidine to alpha3* nAChRs. Methadone pretreatment induced up-regulation of epibatidine binding sites in SH-SY5Y cells. Using whole-cell patch-clamp recording, both isomers of methadone activated cation currents via mecamylamine-sensitive nAChRs in SH-SY5Y cells. Nicotine and both (+)- and (-)-methadone evoked increases in [Ca2+]i in both fluo-3AM loaded cell lines, and these effects were blocked by mecamylamine and by the alpha7 selective antagonist methyllycaconitine, suggesting effects of methadone as alpha7-nAChR agonist. Sensitivity of sustained nicotine and methadone effects to blockade by CdCl2, ryanodine and xestospongin-c implicates voltage-operated Ca2+ channels and intracellular Ca2+ stores as downstream modulators of elevated [Ca2+]i. Collectively, our results suggest that methadone engages in complex and potentially pharmacologically significant interactions with nAChRs.     

Iron deficiency interrupts energy transfer from a disconnected part of the antenna to the rest of Photosystem II

Iron deficiency changed markedly the shape of the leaf chlorophyll fluorescence induction kinetics during a dark-light transition, the so-called Kautsky effect. Changes in chlorophyll fluorescence lifetime and yield were observed, increasing largely the minimal and the intermediate chlorophyll fluorescence levels, with a marked dip between the intermediate and the maximum levels and loss of the secondary peak after the maximum. During the slow changes, the lifetime-yield relationship was found to be linear and curvilinear (towards positive lifetime values) in control and Fe-deficient leaves, respectively. These results suggested that part of the Photosystem II antenna in Fe-deficient leaves emits fluorescence with a long lifetime. In dark-adapted Fe-deficient leaves, measurements in the picosecond-nanosecond time domain confirmed the presence of a 3.3-ns component, contributing to 15% of the total fluorescence. Computer simulations revealed that upon illumination such contribution is also present and remains constant, indicating that energy transfer is partially interrupted in Fe-deficient leaves. Photosystem II-enriched membrane fractions containing different pigment-protein complexes were isolated from control and Fe-deficient leaves and characterized spectrophotometrically. The photosynthetic pigment composition of the fractions was also determined. Data revealed the presence of a novel pigment-protein complex induced by Fe deficiency and an enrichment of internal relative to peripheral antenna complexes. The data suggest a partial disconnection between internal Photosystem II antenna complexes and the reaction center, which could lead to an underestimation of the Photosystem II efficiency in dark-adapted, low chlorophyll Fe-deficient leaves, using chlorophyll fluorescence. This revised version was published online in August 2006 with corrections to the Cover Date.     

Succession and physiological health of freshwater microalgal fouling in a Tasmanian hydropower canal

Freshwater microalgal biofouling in hydropower canals in Tarraleah, Tasmania, is dominated by a single diatom species, Gomphonema tarraleahae. The microfouling community is under investigation with the aim of reducing its impact on electricity generation. Species succession was investigated using removable glass slides. Fouled slides were examined microscopically and for chlorophyll a biomass. Chl a biomass increased steeply after 8 weeks (0.09–0.87 mg m^?2), but increased much earlier on slides surrounded by a biofouled inoculum. Succession began with low profile diatoms such as Tabellaria flocculosa, progressing to stalked diatoms such as Gomphonema spp. and Cymbella aspera. Few chlorophytes and no filamentous algae were present. Pulse amplitude modulated fluorometry was used to measure the physiological health of fouling on the canal wall. Maximum quantum yield (F _v/F _m) measurements were consistently <0.18, indicating that the fouling mat consisted of dead or dying algae. The succession and physiological health of cells in the fouling community has broad implications for mitigation techniques used.