New records of ahermatypic scleractinian corals from the Kuril Islands

Four species of caryophyllid scleractinians, Caryophylla ambrosia, C. scobinosa, C. alaskensis, and Polymyces montereyensis, were recorded for the first time in the Sea of Okhotsk off the Kuril Islands. These findings extend the range for the species, of which three had previously been considered to be restricted to the tropical and warm Indopacific waters. These data will supplement regional reports on the bottom fauna of the most fertile and extensively commercially exploited continental shelf region of the North Pacific.Original Russian Text Copyright © 2004 by Biologiya Morya, Latypov.     

The use of native cation-exchange chromatography to study aggregation and phase separation of monoclonal antibodies

This study introduces a novel analytical approach for studying aggregation and phase separation of monoclonal antibodies (mAbs). The approach is based on using analytical scale cation‐exchange chromatography (CEX) for measuring the loss of soluble monomer in the case of individual and mixed protein solutions. Native CEX outperforms traditional size‐exclusion chromatography in separating complex protein mixtures, offering an easy way to assess mAb aggregation propensity. Different IgG1 and IgG2 molecules were tested individually and in mixtures consisting of up to four protein molecules. Antibody aggregation was induced by four different stress factors: high temperature, low pH, addition of fatty acids, and rigorous agitation. The extent of aggregation was determined from the amount of monomeric protein remaining in solution after stress. Consequently, it was possible to address the role of specific mAb regions in antibody aggregation by co‐incubating Fab and Fc fragments with their respective full‐length molecules. Our results revealed that the relative contribution of Fab and Fc regions in mAb aggregation is strongly dependent on pH and the stress factor applied. In addition, the CEX‐based approach was used to study reversible protein precipitation due to phase separation, which demonstrated its use for a broader range of protein–protein association phenomena. In all cases, the role of Fab and Fc was clearly dissected, providing important information for engineering more stable mAb‐based therapeutics.     

The role of the Rdh54 protein in regulation of DNA repair in yeast <Emphasis Type=Italic>Saccharomyces cerevisiae</Emphasis>

This work provides evidence that the product of the RDH54 gene participates in the coordination of some repair pathways of DNA lesions. The unique point mutation rdh54–29 described in our previous works confers the phenotype markedly differing from that of the strain with a full deletion of gene RDH54. The epistatic type of interaction between mutations rdh 54–29 and apn 1Δ allowed the product of gene RDH54 to be attributed to the base excision repair pathway. However, a pleiotropic effect of mutation rdh54–29 manifested as sensitivity to a wide spectrum of DNA-damagi ng agents suggests that Rdh54 is involved in the regulation of several DNA repair pathways. To verify this hypothesis, the direct influence of mutation rdh54–29 on recombination and mutagenesis was evaluated. The results obtained led to the assumption that, in addition to the involvement in base excision repair, Rdh54p may play a certain role in the coordination of DNA lesion repair by various systems, including recombinational and mutagenic repair pathways or nucleotide excision repair. This function supposedly is mediated through modification of chromatin structure at the location of DNA lesion, in particular, by alleviation of DNA-hi stone bonds, thus rendering DNA more susceptible to the action of various repair proteins.     

Favia camranensis sp. n. (Scleractinia: Faviidae), a new coral species from Southern Vietnam

A new species of coral, Favia camranensis sp. n., from the Hon Nai reef, Cam Ranh Bay, in southern Vietnam is described. This coral differs from all known faviids in that its corallites project one above another by more than 2 mm. The septa and septa-costae are heavily ornamented with complexly serrated trabecular spines. This coral can form monospecific aggregations of 5–20 colonies.     

Comparative analysis of hair melanins by chemical and electron spin resonance methods.

Eighteen hair samples from Karakul newborn lambs with various colors were estimated for eumelanin and pheomelanin contents (Ce and Cp, respectively) by electron spin resonance (ESR) spectrometry and by high-performance liquid chromatography (HPLC). Correlation coefficients between the values estimated by the ESR and HPLC methods were 0.96, 0.93, and 0.99 for Ce, Cp, and Ce/Cp, respectively. The high correlation coefficients show that both methods fit well for estimation of relative values of these parameters. The absolute values of Ce and Ce/Cp coincide rather well when Ce is high, but considerable discrepancies appear when Ce is low. The reasons for these discrepancies are discussed. The HPLC method appears to be more sensitive for detection of low concentrations of pheomelanin, while the ESR method fits well for mass selection purposes.     

Structural and thermodynamic effects of ANS binding to human interleukin-1 receptor antagonist

Although 8-anilinonaphthalene-1-sulfonic acid (ANS) is frequently used in protein folding studies, the structural and thermodynamic effects of its binding to proteins are not well understood. Using high-resolution two-dimensional NMR and human interleukin-1 receptor antagonist (IL-1ra) as a model protein, we obtained detailed information on ANS-protein interactions in the absence and presence of urea. The effects of ambient to elevated temperatures on the affinity and specificity of ANS binding were assessed from experiments performed at 25 degrees C and 37 degrees C. Overall, the affinity of ANS was lower at 37 degrees C compared to 25 degrees C, but no significant change in the site specificity of binding was observed from the chemical shift perturbation data. The same site-specific binding was evident in the presence of 5.2 M urea, well within the unfolding transition region, and resulted in selective stabilization of the folded state. Based on the two-state denaturation mechanism, ANS-dependent changes in the protein stability were estimated from relative intensities of two amide resonances specific to the folded and unfolded states of IL-1ra. No evidence was found for any ANS-induced partially denatured or aggregated forms of IL-1ra throughout the experimental conditions, consistent with a cooperative and reversible denaturation process. The NMR results support earlier observations on the tendency of ANS to interact with solvent-exposed positively charged sites on proteins. Under denaturing conditions, ANS binding appears to be selective to structured states rather than unfolded conformations. Interestingly, the binding occurs within a previously identified aggregation-critical region in IL-1ra, thus providing an insight into ligand-dependent protein aggregation.     

Changes in the composition and structure of coral communities of Mju and Moon islands, Nha Trang Bay, South China Sea

In October 2003 and January 2005, comparative observations were made on the reefs of Mju and Moon islands near the city and port of Nha Trang, which we first investigated in 1981. Appreciable changes due to anthropogenic impact have occurred on the reefs that are the nearest to the city. There was a reduction in substrate cover by reef-building corals, a substitution of dominant scleractinian species, and a decrease in the numbers and diversity of common species of corallobionts. The index of species diversity for scleractinians also decreased. The seaweeds Chnoospora and Halimeda spread into all zones of the reefs. Changes in coral communities on more distant and protected reefs were not so marked.     

Structural characterization of an equilibrium unfolding intermediate in cytochrome c

Although the denaturant-induced unfolding transition of cytochrome c was initially thought to be a cooperative process, recent spectroscopic studies have shown deviations from two-state behavior consistent with accumulation of an equilibrium intermediate. However, little is known about the structural and thermodynamic properties of this state, and whether it is stabilized by the presence of non-native heme ligands. We monitored the reversible denaturant-induced unfolding equilibrium of oxidized horse cytochrome c using various spectroscopic probes, including fluorescence, near and far-UV CD, heme absorbance bands in the Soret, visible and near-IR regions of the spectrum, as well as 2D NMR. Global fitting techniques were used for a quantitative interpretation of the results in terms of a three-state model, which enabled us to determine the intrinsic spectroscopic properties of the intermediate. A well-populated intermediate was observed in equilibrium experiments at pH 5 using either guanidine-HCl or urea as a denaturant, both for wild-type cytochrome c as well as an H33N mutant chosen to prevent formation of non-native His-heme ligation. For a more detailed structural characterization of the intermediate, we used 2D 1H-15N correlation spectroscopy to follow the changes in peak intensity for individual backbone amide groups. The equilibrium state observed in our optical and NMR studies contains many native-like structural features, including a well-structured alpha-helical sub-domain, a short Trp59-heme distance and solvent-shielded heme environment, but lacks the native Met80 sulfur-iron linkage and shows major perturbations in side-chain packing and other tertiary interactions. These structural properties are reminiscent of the A-state of cytochrome c, a compact denatured form found under acidic high-salt conditions, as well as a kinetic intermediate populated at a late stage of folding. The denaturant-induced intermediate also resembles alkaline forms of cytochrome c with altered heme ligation, suggesting that disruption of the native methionine ligand favors accumulation of structurally analogous states both in the presence and absence of non-native ligands.