Development of a Highly Sensitive Immuno-PCR Assay for the Measurement of α-Galactosidase A Protein Levels in Serum and Plasma

Fabry disease is an X-linked genetic disorder caused by defects in the α-galactosidase A (GLA) gene, and heterogeneous mutations lead to quantitative and/or qualitative defects in GLA protein in male patients with Fabry disease. Random X-chromosomal inactivation modifies the clinical and biochemical features of female patients with Fabry disease. Functional polymorphisms have been frequently reported in recent times, and these increase the difficulty of understanding the pathogenetic basis of the disease. To date, GLA protein level has been measured using an enzyme-linked immunosorbent assay (ELISA). However, ELISA is not highly sensitive due to the high background noise. In this paper, we introduce a novel application of the immuno-polymerase chain reaction (PCR) method (termed Multiple Simultaneous Tag [MUSTag]) for measurement of the GLA protein level in blood samples. We compared the sensitivities of the MUSTag method with plates or magnetic beads with those of ELISA for recombinant human GLA and found that the apparent maximal sensitivity was higher for the former than for the latter. We then measured the GLA concentrations in serum and plasma from male patients with classic Fabry disease (Male Fabry), females with Fabry disease (Female Fabry), male subjects harboring the functional polymorphism p.E66Q (E66Q), and control (Control) subjects. Our results revealed that compared to the MUSTag plate and ELISA, the MUSTag beads assay afforded a clearer estimation of the GLA protein levels in the serum and plasma with minimal or no background noise, although all the methods could differentiate between the Male Fabry, E66Q, and Control groups. The Female Fabry group showed characteristic heterogeneity, which was consistent with the X-linked inheritance. This novel method is expected to be useful for the sensitive determination of GLA level in blood and elucidation of the pathogenetic basis of Fabry disease.     

Expression of the DEAD-box/RNA helicase rck/p54 in mouse tissues: implications for heterogeneous protein expression.

rck/p54, a DEAD-box RNA helicase, is closely associated with the basic modification of RNA molecules in the process of mRNA transport, RNA decay, and translation initiation. In the current study, Western blot analysis revealed that rck/p54 protein was ubiquitously expressed in mouse tissues. Interestingly, three different-sized rck/p54 proteins were detected by antibodies against mouse rck/p54, and these products were differentially expressed in the tissues. An immunohistochemical study revealed that rck/p54 was strongly expressed in basal cells of the crypt in the gastrointestinal tract and in neuronal bodies of the cerebral cortex, and was localized in epithelial cells of the convoluted tubules of the kidneys, suggesting that the heterogeneous rck/p54 may play pivotal roles in cells committed to become specialized in these tissues.     

Hydrolysis of low-density lipoprotein phospholipids in arterial smooth muscle cells

The hydrolysis of phosphatidylcholine (PC) associated with low-density lipoprotein (LDL) by homogenates of smooth muscle cells from rabbit aorta was studied. 1-Palmitoyl-2-[14C]oleoylPC associated with LDL (LDL-P[14C]OPC) or 1-linoleoyl-2-[14C]linoleoylPC associated with LDL (LDL-L[14C]LPC) was used as the substrate. The optimum pH for the formation of [14C]oleoyllysoPC from LDL-P[14C]OPC and for the formation of [14C]linoleoyllysoPC from LDL-L[14C]LPC was pH 4.5, and pH 4.5 and 7.0, respectively. These activities were designated as phospholipase A1 activities. The optimum pH values for the formation of [14C]oleate from LDL-L[14C]OPC and for the formation of [14C]linoleate from LDL-L[14C]LPC were pH 4.5 and 6.5, and pH 4.5, 6.5 and 8.5, respectively. These activities were designated as phospholipase A2 activities. Ca2+ did not affect acid phospholipase A1 activity, but decreased acid phospholipase A2 activity for the hydrolysis of LDL-L[14C]LPC. When smooth muscle cells were incubated with LDL, both phospholipase A1 and phospholipase A2 activities at pH 4.5 for the hydrolysis of LDL-L[14C]LPC increased significantly. These results indicate that phospholipases A1 and A2, which hydrolyze PC associated with LDL, exist in arterial smooth muscle cells and are involved in the metabolism of LDL incorporated into these cells.     

Growth inhibitory effect of bestatin on choriocarcinoma cell finesin vitro

Bestatin, one of the biological response modifiers (BRMs), is an inhibitor of aminopeptidase B (AP-B), leucine aminopeptidase (LAP) and aminopeptidase M (AP-M). In this report, we investigated the direct effect of bestatin on the growth of cancer cells in vitro using established four choriocarcinoma cell lines. In vitro chemosensitivity was evaluated by the succinate dehydrogenase inhibition (SDI) test. Bestatin showed the growth-inhibitory effect on all the choriocarcinoma cell lines dose-dependently, especially on NaUCC-4 cells. Both an isomer of bestatin with no inhibitory activity against aminopeptidases, (2R, 3S)-AHPA-(R)-Leu, and another isomer with stronger inhibitory activity against AP-B than bestatin, (2S, 3S)-AHPA-(R)-Leu, did not show growth inhibition on NaUCC-4 cells. So it is suggested that one of the possible mechanisms responsible for the direct action of bestatin on the choriocarcinoma cells may be related to the inhibition of activity of LAP or AP-M rather than that of AP-B. Furthermore, cytotoxicity of actinomycin D on the choriocarcinoma cells was significantly enhanced by combination with bestatin. These results suggest that bestatin has not only an indirect host-mediated anti-tumor activity, but also a direct growth-inhibitory effect on some kinds of cancer cell lines.     

Investigation of Dermal Contact with Soil in Controlled Trials

A series of laboratory, greenhouse, and field experiments have been conducted at the University of Washington to improve the empirical grounding of dermal/soil pathway risk calculations. This article presents results from controlled trials, conducted in a greenhouse, in which volunteers engaged in activities in soil amended with a fluorescent marker. Activities included transplanting of bedding plants and laying of pipe by adults and children's play. Soil contact on hands, forearms, lower legs, and faces was examined using both fluoro-metric and gravimetric measurements. Results provide information on pre- and postactivity loadings, the extent of contact associated with the selected activities, and the effects of clothing, activity duration, and soil moisture. Preactivity loadings were consistent with previously reported observations. Following activity, skin coverage was found to be substantially incomplete except on hands. Local soil loadings may therefore deviate markedly from mean values obtained by washing skin surfaces. A protective effect of clothing was observed but may reflect the relatively short duration of the experiments and the use of freshly laundered clothing. No significant trend in soil loading with exposure duration was found, although some evidence of increasing surface area involvement with time was observed. Finally, wet soil activities produced consistently higher loadings on volunteers' hands than dry soil activities.     

Crystal structure of a protein with an artificial exon-shuffling, module M4-substituted chimera hemoglobin beta alpha, at 2.5 A resolution

The crystal structure of the homotetramer of a chimera beta alpha-subunit of human hemoglobin was refined at 2.5 A resolution. The chimera subunit was constructed by replacing an exon-encoded module M4 of the beta-subunit with that of the alpha-subunit, simulating an exon-shuffling event. The implanted module M4 retained the native alpha-subunit structure, while module M3 was disturbed around the site where a new type of intron was recently found. Some of the residues were found in alternative conformations that avoid steric hindrance at the subunit interface. The modules are modestly rigid in their backbone structures by using side-chains to compensate for interface incompatibility.     

Linkage of interleukin 6 locus to human osteopenia by sibling pair analysis

Osteopenia and osteoporosis are common human conditions considered to result from the interplay of multiple genetic and environmental factors. Twin and family studies have yielded strong correlations between levels of bone mass and a number of genetic factors. The genes involved could regulate metabolism, formation and resorption of bone, all processes that determine bone mass. We tested 192 sibling pairs of adult Japanese women from 136 families for genetic linkage between osteopenia and allelic variants of four candidate genes (interleukin-6, interleukin-6 receptor, calcium-sensing receptor, and matrix gla protein) using qualitative and quantitative methods, and using as genetic markers dinucleotide-repeat polymorphisms present in or near each of those loci. The interleukin-6 locus showed evidence of linkage to osteopenia analyzed as a qualitative trait, with mean allele sharing of 0.40 (P=0.0001) in discordant pairs and 0.55 (P=0.04) in concordant affected pairs. Variation at this locus was also linked to decreased bone mineral density measured as a quantitative trait (P=0.02). Analyses limited only to the post-menopausal women showed similar or even stronger results. No other locus among those tested showed any evidence of linkage by either method. The results provided strong evidence that genetic variation at the interleukin-6 locus affects regulation of bone mineral metabolism and confers risk for osteopenia and osteoporosis in adult women.     

Computational design, construction, and characterization of a set of specificity determining residues in protein-protein interactions

Proteins interact with different partners to perform different functions and it is important to elucidate the determinants of partner specificity in protein complex formation. Although methods for detecting specificity determining positions have been developed previously, direct experimental evidence for these amino acid residues is scarce, and the lack of information has prevented further computational studies. In this article, we constructed a dataset that is likely to exhibit specificity in protein complex formation, based on available crystal structures and several intuitive ideas about interaction profiles and functional subclasses. We then defined a “structure‐based specificity determining position (sbSDP)” as a set of equivalent residues in a protein family showing a large variation in their interaction energy with different partners. We investigated sequence and structural features of sbSDPs and demonstrated that their amino acid propensities significantly differed from those of other interacting residues and that the importance of many of these residues for determining specificity had been verified experimentally. Proteins 2012;. © 2012 Wiley Periodicals, Inc.     

Attempt to simplify the amino-acid sequence of photoactive yellow protein with a set of simple rules

To understand the information encoded in an amino-acid sequence, the authors have attempted to simplify the amino-acid sequence of photoactive yellow protein (PYP) with a set of simple rules. The rules are designed to reduce overlapping structural information. The simplified PYP protein, which was composed of only nine species of amino acids (Ser, Val, Asp, Lys, Phe, Met, Gly, Pro, and Cys), took a completely different structure than the native conformation. Even after the evolutionarily conserved residues were restored in the simplified protein, the PYP variant did not properly fold, indicating that the information encoded in the conserved residues is insufficient for the structure formation. Additional restorations of the substituted hydrophilic or hydrophobic residues did not lead to a variant that formed the native structure. The structural properties of these variants and the wild-type protein in aqueous solution differed. Partial simplification was successfully performed by creating chimeric proteins composed of combinations of wild-type PYP and sPYPIII. The structural characterization of each chimeric protein indicates that the important information on the structure formation is encoded in the beta-scaffold region.