The use of DGGE analyses to explore eastern Mediterranean and Red Sea marine picophytoplankton assemblages

In vast areas of the oceans, most marine photosynthetic production is performed by cells smaller than 2-3 microm (picoplankton). Here, we report on denaturing gradient gel electrophoresis (DGGE) analyses of naturally occurring marine oxygenic picophytoplankton using the conserved photosynthetic psbA gene. The psbA gene proved to be a good indicator for picophytoplankton presence and was shown to work with DGGE. The DGGE results show the distribution of photosynthetic marine groups belonging to cyanobacteria and the eukaryotic prasinophytes (green algae) in the Red and eastern Mediterranean Seas in the seasons examined. The present study demonstrates the value of DGGE as a tool for rapid analyses of natural marine communities of picophytoplankton.     

Enantioselective recognition of 2,3-benzodiazepin-4-one derivatives with anticonvulsant activity on several polysaccharide chiral stationary phases

The dimeric pyrrolobenzodiazepine SJG-136 (NSC 694501) has potent in vitro cytotoxicity and in vivo antitumor activity. SJG-136 binds in the minor groove of DNA and produces G-G interstrand cross-links via reactive N(10)-C(11)/N(10')-C(ll') imine/carbinolamine moieties. We have developed a sensitive, specific liquid chromatography tandem mass spectrometry (LC/MS/MS) method for the quantitative determination of SJG-136 in plasma. SJG-136 was isolated by solid phase extraction through a C8 column, reverse-phase HPLC separation was accomplished on a C18 column with isocratic elution and MS/MS detection, monitoring the m/z 557-m/z 476 transition after electrospray ionization. The linear range and lower limit of quantitation from plasma standard curves were 2.8-1800 nM, and 5 nM, respectively. SJG-136 plasma protein binding was species-dependent. Values of the unbound fraction in human, rat and mouse were 25%, 16.2% and <1%, respectively. Protein binding was saturable in dog plasma where the unbound fraction increased from 10.8% to 22.3% over a 22-720 nM concentration range. SJG-136 pharmacokinetics after a single intravenous dose were best fit to a two-compartment open model with elimination half-life and plasma clearance values of 97 min and 6.1 mL/min/kg, respectively. SJG-136 did not accumulate in plasma following intravenous administration of 1.0 microg/kg doses for five consecutive days.     

Sequence of plant responses to droughts of different timescales: lessons from holm oak (Quercus ilex) forests

The functional traits of plants in regions of the world with a Mediterranean climate have been shaped to tolerate periods of water deficit. These species are adapted to summer droughts but may not be able to cope with future increases in drought intensity, duration, and/or frequency. Here, we review the mechanisms and traits of drought resistance and recovery of the well-studied holm oak (Quercus ilex), which we propose as a model species for Mediterranean-type ecosystems. Our aim was to understand the differences and links between the responses of Q. ilex to summer droughts, extreme droughts, and long-term drought experiments. A main goal was to provide an integral picture of drought responses across organisational and temporal scales for identifying the most relevant processes that are likely to contribute to determining the future of Mediterranean vegetation. Evidence from long-term drought experiments showed that acclimation processes from the molecular (e.g. epigenetic changes) to the ecosystem level (e.g. reductions in stand density) mitigate the effects of drought. Changes in leaf morphology and hydraulics, leaf-to-shoot allometry, and root functioning are among the key mechanisms for overcoming increasing drought. The duration of drought determines its severity in terms of canopy loss and stem mortality. Although Q. ilex can vigorously resprout after such episodes, its resilience may be subsequently reduced. In the future, higher frequency of return of extreme droughts will challenge thus the capacity of these forests to recover. The insights provided by this review of the complex interplay of processes that determine the response of trees to droughts of different duration, intensity, and frequency will also help us to understand the likely responses of other resprouting angiosperms in seasonally dry ecosystems that share similar functional traits with Q. ilex.     

Increase in ascorbate-glutathione metabolism as local and precocious systemic responses induced by cadmium in durum wheat plants

Durum wheat plants (Triticum durum cv Creso) were grown in thepresence of cadmium (0–40 µM) and analysed after3 and 7 d for their growth, oxidative stress markers, phytochelatins,and enzymes and metabolites of the ascorbate (ASC)–glutathione(GSH) cycle. Cd exposure produced a dose-dependent inhibitionof growth in both roots and leaves. Lipid peroxidation, proteinoxidation and the decrease in the ascorbate redox state indicatethe presence of oxidative stress in the roots, where H₂O₂ overproductionand phytochelatin synthesis also occurred. The activity of theASC–GSH cycle enzymes significantly increased in roots.Consistently, a dose-dependent accumulation of Cd was evidentin these organs. On the other hand, no oxidative stress symptomsor phytochelatin synthesis occurred in the leaves; where, atleast during the time of our analysis, the levels of Cd remainedirrelevant. In spite of this, enzymes of the ASC–GSH cyclesignificantly increased their activity in the leaves. When ASCbiosynthesis was enhanced, by feeding plants with its last precursor,L-galactono--lactone (GL), Cd uptake was not affected. On theother hand, the oxidative stress induced in the roots by theheavy metal was alleviated. GL treatment also inhibited theCd-dependent phytochelatin biosynthesis. These results suggestthat different strategies can successfully cope with heavy metaltoxicity. The changes that occurred in the ASC–GSH cycleenzymes of the leaves also suggest that the whole plant improvedits antioxidant defense, even in those parts which had not yetbeen reached by Cd. This precocious increase in the enzymesof the ASC–GSH cycle further highlight the tight regulationand the relevance of this cycle in the defense against heavymetals.     

Aluminum effects on embryo suspensor polytene chromosomes of Phaseolus coccineus L

Aluminum (Al) represents a widespread environmental pollutant, with severe toxic impacts on plants. In this study, we documented for the first time the structural and functional responses induced by two concentrations of AlCl₃ (10^?2 M and 10^?1 M) in the polytene chromosomes that characterize the chromatin organization in the embryo suspensor cells of Phaseolus coccineus. Polytene chromosomes showed signs of dose-dependent genotoxicity following AlCl₃ treatments with a significant increase in both chromatin stickiness and chromatin fragmentation. Polytene chromosomes specifically reacted to AlCl₃ also in terms of DNA and RNA puffing activity: with respect to the control, the treatments promoted ex-novo and/or inhibited puff formation along chromosome arms, suggesting a fine modulation of the differential genome activity in response to the treatments. The nuclei of suspensors from control and treated seeds showed nucleoli mainly arranged by more than one NOR-bearing chromosome. In addition, AlCl₃ treatments affected the frequency of nucleoli organized by singular organizer chromosomes, with an increase in the frequencies of nucleoli organized by chromosome II and a reduction in the frequencies of those organized by chromosomes I or V. These results confirm that, also in our system, nucleolus may react as stress response organelle.     

Promoter hypermethylation using 24-gene array in early head and neck cancer: Better outcome in oral than in oropharyngeal cancer

Silencing of tumor suppressor genes (TSGs) by DNA promoter hypermethylation is an early event in carcinogenesis and a potential target for personalized cancer treatment. In head and neck cancer, little is known about the role of promoter hypermethylation in survival. Using methylation specific multiplex ligation-dependent probe amplification (MS-MLPA) we investigated the role of promoter hypermethylation of 24 well-described genes (some of which are classic TSGs), which are frequently methylated in different cancer types, in 166 HPV-negative early oral squamous cell carcinomas (OSCC), and 51 HPV-negative early oropharyngeal squamous cell carcinomas (OPSCC) in relation to clinicopathological features and survival. Early OSCC showed frequent promoter hypermethylation in RARB (31% of cases), CHFR (20%), CDH13 (13%), DAPK1 (12%), and APC (10%). More hypermethylation (≥ 2 genes) independently correlated with improved disease specific survival (hazard ratio 0.17, P = 0.014) in early OSCC and could therefore be used as prognostic biomarker. Early OPSCCs showed more hypermethylation of CDH13 (58%), TP73 (14%), and total hypermethylated genes. Hypermethylation of two or more genes has a significantly different effect on survival in OPSCC compared with OSCC, with a trend toward worse instead of better survival. This could have a biological explanation, which deserves further investigation and could possibly lead to more stratified treatment in the future.     

Fast dissociation of nitric oxide from ferrous Pseudomonas aeruginosa cd1 nitrite reductase. A novel outlook on the catalytic mechanism

The heme-containing periplasmic nitrite reductase (cd(1) NIR) is responsible for the production of nitric oxide (NO) in denitrifying bacterial species, among which are several animal and plant pathogens. Heme NIRs are homodimers, each subunit containing one covalently bound c-heme and one d(1)-heme. The reduction of nitrite to NO involves binding of nitrite to the reduced protein at the level of d(1)-heme, followed by dehydration of nitrite to yield NO and release of the latter. The crucial rate-limiting step in the catalytic mechanism is thought to be the release of NO from the d(1)-heme, which has been proposed, but never demonstrated experimentally, to occur when the iron is in the ferric form, given that the reduced NO-bound derivative was presumed to be very stable, as in other hemeproteins. We have measured for the first time the kinetics of NO binding and release from fully reduced cd(1) NIR, using the enzyme from Pseudomonas aeruginosa and its site-directed mutant H369A. Quite unexpectedly, we found that NO dissociation from the reduced d(1)-heme is very rapid, several orders of magnitude faster than that measured for b-type heme containing reduced hemeproteins. Because the rate of NO dissociation from reduced cd(1) NIR, measured in the present report, is faster than or comparable with the turnover number, contrary to expectations this event may well be on the catalytic cycle and not necessarily rate-limiting. This finding also provides a rationale for the presence in cd(1) NIR of the peculiar d(1)-heme cofactor, which has probably evolved to ensure fast product dissociation.     

The ultrastructure of amberjack (Seriola dumerilii) sperm

Scanning and transmission electron microscopy were used to investigate the fine structure of sperm of the Mediterranean amberjack Seriola dumerilii. Each spermatozoon has an ovoid head which lacks an acrosome, a short, irregularly-shaped midpiece and a long flagellar tail. The midpiece houses eight spherical mitochondria, which are separated from the axoneme by the cytoplasmic canal. The centrioles are arranged approximately at right angles to each other. The proximal centriole lies inside, and the distal centriole outside, the nuclear fossa. The flagellum is inserted eccentrically into the head and is tangential to the nucleus, so that the spermatozoon is asymmetrical. It contains the conventional 9 + 2 axoneme, shows intratubular differentiations in the A microtubules of doublets 1, 2, 5 and 6, and possesses one pair of lateral fins. On the basis of its ultrastructural organization, the amberjack sperm resembles type II sperm as defined previously, except for the presence of the proximal centriole inside the nuclear fossa. This could result from a partial rotation of the nucleus during spermiogenesis.     

Diversification and spectral tuning in marine proteorhodopsins

Proteorhodopsins, ubiquitous retinylidene photoactive proton pumps, were recently discovered in the cosmopolitan uncultured SAR86 bacterial group in oceanic surface waters. Two related proteorhodopsin families were found that absorb light with different absorption maxima, 525 nm (green) and 490 nm (blue), and their distribution was shown to be stratified with depth. Using structural modeling comparisons and mutagenesis, we report here on a single amino acid residue at position 105 that functions as a spectral tuning switch and accounts for most of the spectral difference between the two pigment families. Furthermore, looking at natural environments, we found novel proteorhodopsin gene clusters spanning the range of 540-505 nm and containing changes in the same identified key switch residue leading to changes in their absorption maxima. The results suggest a simultaneous diversification of green proteorhodopsin and the new key switch variant pigments. Our observations demonstrate that this single-residue switch mechanism is the major determinant of proteorhodopsin wavelength regulation in natural marine environments.