The importance of juveniles in modelling growth: butterflyfish at Lizard Island

Synopsis I established and fitted von Bertalanffy growth functions to size-at-age data for four species of chaetodontids at Lizard Island. Special emphasis on juveniles provided detailed information of the early growth period. All four species demonstrated rapid initial growth achieving an average of 92% of maximum theoretical size in the first 2years. I used various constraints of the theoretical age at length zero (t₀) in an analysis of both complete data sets and data sets using only adult fish. An unconstrained value of t₀ resulted in the best-fit (maximum r²) curve when juveniles were included. When excluding juveniles, it was necessary to constrain t₀ to an approximate settling size to most closely represent the growth of the species.     

Prediction of site-specific amino acid distributions and limits of divergent evolutionary changes in protein sequences

We derive an analytic expression for site-specific stationary distributions of amino acids from the structurally constrained neutral (SCN) model of protein evolution with conservation of folding stability. The stationary distributions that we obtain have a Boltzmann-like shape, and their effective temperature parameter, measuring the limit of divergent evolutionary changes at a given site, can be predicted from a site-specific topological property, the principal eigenvector of the contact matrix of the native conformation of the protein. These analytic results, obtained without free parameters, are compared with simulations of the SCN model and with the site-specific amino acid distributions obtained from the Protein Data Bank. These results also provide new insights into how the topology of a protein fold influences its designability, i.e., the number of sequences compatible with that fold. The dependence of the effective temperature on the principal eigenvector decreases for longer proteins, as a possible consequence of the fact that selection for thermodynamic stability becomes weaker in this case.     

Thermal Stability and Activity Regain of Horseradish Peroxidase in Aqueous Mixtures of Imidazolium-Based Ionic Liquids

Thermal deactivation kinetics of horseradish peroxidase (HRP) were studied from 45 to 90 °C in phosphate buffer and 5–25% (v,w/v) 1-butyl-3-methylimidazolium tetrafluoroborate [BMIM][BF₄] and 1-butyl-3-methylimidazolium chloride [BMIM][Cl]. HRP activity at 25 °C was not affected by the presence of ionic liquids up to 20% (v,w/v). Increasing the ionic liquids concentration up to 25% (v,w/v) changed the biphasic character of deactivation kinetics to an apparent single first-order step. The presence of 5–10% (v/v) [BMIM][BF₄] significantly improved HRP thermal stability with lower activation energies for the deactivation second phase (83–87 kJ mol⁻¹). After deactivation, enhanced activity regain of the enzyme, up to 70–80% of the initial activity, was found in 25% (v/v) [BMIM][BF₄] and 10% (w/v) [BMIM][Cl] and correlated to prevalence of the deactivation first phase.     

2004 SIVB Congress Symposium Proceedings “Thinking Outside the Cell”: Plant Protoplast Technology: Status and Applications

Summary Plant protoplasts provide an enabling technology to underpin aspects of development, physiology, and genetics. Reliable procedures are available to isolate and culture protoplasts from monocotyledons and dicotyledons. Several parameters influence the topipotency of protoplasts and their derived cells, particularly the source tissue, culture medium, and environmental factors. Novel approaches to maximize the efficiency of protoplast-to-plant systems include techniques already established for animal and microbial cells, such as electrostimulation and exposure of protoplasts to surfactants and artificial respiratory gas carriers, especially perfluorochemicals and hemoglobin. Somatic hybridization by protoplast fusion is undergoing a resurgence of interest, since it enables nuclear and cytoplasmic genomes to be combined at the interspecific and intergeneric levels without prior knowledge of gene location, or involvement of recombinant DNA technology. DNA uptake into protoplasts has applications in transient and stable transformation, including the generation of transplastomic plants of commercial importance in molecular pharming. Other applications of isolated protoplasts are in studies of membrane function, cell structure, and longer-term toxicological assessments. Despite the century that has elased since protoplasts were first isolated, they still make a significant contribution to many aspects of modern plant biotechnology.     

In vivo DNA gene electro-transfer: a systematic analysis of different electrical parameters

BACKGROUND: Intramuscular plasmid injection followed by electroporation is an efficient method for gene therapy or vaccination. Several protocols have been described that give good transduction levels with several reporter genes. METHODS: In this work we have explored the efficiency of gene delivery upon variation of the different electrical parameters such as pulse length frequency and voltage monitoring both on short- and long-term protein production. RESULTS: Having defined the best performing parameters, we have designed a short electric treatment that gives good levels of plasmid-encoded protein in different species such as mice, rabbits and monkeys.     

Alleviation of salt stress by low dose γ-irradiation in rice

The effects of salt stress on the growth, photosynthesis, and antioxidative ability of the rice (Oryza sativa L.) plants raising from -irradiated seeds were investigated using two cultivars, Ilpumbyeo and Sanghaehyanghyella. The 50 and 100 mM NaCl solutions caused a remarkable decrease of the early germination rate and seedling growth. However, the salt stress-induced inhibition of the growth was significantly alleviated in the -irradiated plants. The chlorophyll contents and the effective quantum yield of photosystem 2 ( _{PS 2}) were lower in the NaCl-treated plants than in the control ones, while the non-photochemical quenching was higher in the former ones. Activities of the antioxidant enzymes such as superoxide dismutase (SOD) and ascorbate peroxidase (APX) increased with increasing NaCl concentrations, and the irradiated groups had even higher SOD and APX activities than the non-irradiated ones. These alleviation effects were observed similarly in both the cultivars tested.     

Diatom ecological preferences in a shallow temperate estuary (Ria de Aveiro,Western Portugal)

The study of the diatom ecological preferences was conducted from January 2002 to June 2003 in Canal de Mira, Ria de Aveiro, Western Portugal. Three sampling stations along a salinity gradient were sampled monthly, in new moon, at high and low tide. Salinity, temperature, pH, dissolved oxygen and nutrient contents were measured for each sampling station; chlorophyll a and diatom diversity and abundance were also evaluated. Canonical correspondence analysis was used to identify the environmental variables governing the composition and structure of diatom assemblage. The variation in the species data among the different reaches was strongly determined by the salinity spatial gradient and by the temperature temporal gradient. The lower reaches were dominated by marine species (e.g. Auliscus sculptus, Chaetoceros densus, Fallacia forcipata,Licmophora flabellata, L. grandis, Surirella comis), while in the most upstream station typical freshwater species dominated (e.g. Caloneis permagna, Cymatopleura solea, Cymbella tumida, Gomphonema longiceps, Pinnularia stommatophora, Stauroneis smithii). Weighted averaging was used to estimate optima and tolerances of some diatom taxa for the most influential variables. It was possible to establish groups oftaxa with defined and distinctive salinity and temperature preferences.     

Restrained molecular dynamics studies on complex of adriamycin with DNA hexamer sequence d-CGATCG

Adriamycin is an anthracycline anticancer drug used widely for solid tumors in spite of its adverse side effects. The solution structure of 2:1 adriamycin-d-(CGATCG)(2) complex has been studied by restrained molecular dynamics simulations. The restraint data set consists of several intramolecular and intermolecular nuclear Overhauser enhancement cross-peaks obtained from two-dimensional nuclear magnetic resonance spectroscopy data. The drug is found to intercalate between CG and GC base pairs at two d-CpG sites. The drug-DNA complex is stabilized via specific hydrogen bonding and van der Waal's interactions involving 4OCH(3), O5, 6OH, and NH(3)(+) moiety of daunosamine sugar, and rings A protons. The O-glycosidic bond C7-O7-C1'-C2' lies in the range 138 degrees -160 degrees during the course of simulations. The O6-H6...O5 hydrogen bond is stable while O11-H11...O12 hydrogen bond is not favored. The intercalating base pairs are buckled and minor groove is wider in the complex. The phosphate on one strand at intercalation site C1pG2 is in B(I) conformation and the phosphates directly lying on opposite strand is in B(II) conformation. The phosphorus on adjacent site G2pA3 is in B(II) conformation and hence a distinct pattern of B(I) and B(II) conformations is induced and stabilized. The role of various functional groups by which the molecular action is mediated has been discussed and correlated to the available biochemical evidence.     

Parasitization of fifth instar tasar silkworm, Antheraea mylitta, by the uzi fly, Blepharipa zebina; a host-parasitoid interaction and its effect on host's nutritional parameters and parasitoid development

The uzi fly, Blepharipa zebina, is a well-known larval endoparasitoid of the tropical tasar silkworm, Antheraea mylitta. The present study dealt with the effect of the number of maggots developing per host on host nutritional parameters, parasitoid development and reproduction. Nutritional indices for ingestion, digestion, approximate digestibility, relative consumption rate, relative growth rate, and gain in body weight declined significantly with the increase in parasitoid burden, but the efficiency of conversion of digested food recorded a significant increase. The efficiency of conversion of ingested food remained little affected. The developmental period was significantly extended in larvae parasitized with 5 and 10 maggots per larva (mpl). Cocoon shell weight decreased by 27-63.5% in parasitized groups (1, 2, and 5 mpl) while larvae parasitized with 10 mpl could not spin cocoons. The maggot development period, recovery percentage, and fecundity of the uzi fly declined significantly with the increase in number of maggots developing per host.     

Small-sample inference for the comparison of means of log-normal distributions

We propose a likelihood-based test for comparing the means of two or more log-normal distributions, with possibly unequal variances. A modification to the likelihood ratio test is needed when sample sizes are small. The performance of the proposed procedures is compared with the F-ratio test using Monte Carlo simulations.