Evaluation of a PCR test for the diagnosis of Tritrichomonas foetus infection in bulls: effects of sample collection method, storage and transport medium on the test

The objectives of this study were to determine the detection limit of a PCR test for Tritrichomonas foetus, to investigate the effect of sampling method, guanidinium thiocyanate (GuSCN), and sample storage, and to confirm the accuracy of the test on field samples. Serial 10-fold dilutions of culture material were used to determine the detection limit. For the sample handling trial, five positive bulls were sampled by sheath washing and scraping on six occasions over a period of 18 days (n=29 samples) and eight control bulls were sampled three, four or six times (n=28 samples). Samples were cultured, while portions with and without GuSCN were subjected to DNA extraction within 6h, after 30 h and after 5 days at 4 degrees C. PCR and agarose gel electrophoresis was performed. A two-tailed chi-square test was used to test for differences between treatments. The PCR assay showed a specificity of 98%. Its sensitivity declined with storage time, from 90% at 6h to 31% at 5 days. Sampling method and GuSCN had no effect on test sensitivity. The detection limit of the assay was 100 organisms. Parallel testing of 193 field samples gave complete agreement between culture and PCR results.     

Monoclonal antibodies to rabbit sperm autoantigens. II. Inhibition of human sperm penetration of zona-free hamster eggs

Monoclonal antibodies (mAbs) to the rabbit sperm autoantigens RSA-1, 2 and 3 were found to cross-react with human ejaculated spermatozoa. The mAbs show by indirect immunofluorescent staining that the antigen is concentrated in the middle-piece region of the tail, with lesser amounts on the head region. Binding of mAbs to human sperm extract was 75% of the maximum binding to rabbit spermatozoa. Immunoadsorbent chromatography and subsequent sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) identified three sperm antigens of 87,000, 15,000 and 13,000 daltons (kd). The mAbs significantly inhibited human spermatozoa from penetrating zona-free hamster oocytes. It is concluded that human sperm, like rabbit sperm, may have a low molecular weight family of membrane glycoproteins with a higher molecular weight extrinsic protein bound together in a complex on their surfaces.     

The Severe Perinatal Form of Autosomal Recessive Polycystic Kidney Disease Maps to Chromosome 6p21.1-p12: Implications for Genetic Counseling

Autosomal recessive polycystic kidney disease (ARPKD) is a one of the most common hereditary renal cystic diseases in children. Its clinical spectrum is widely variable with most cases presenting in infancy. Most affected neonates die within the first few hours of life. At present, prenatal diagnosis relies on fetal sonography, which is often imprecise in detecting even the severe form of the disease. Recently, in a cohort of families with mostly milder ARPKD phenotypes, an ARPKD locus was mapped to a 13-cM region of chromosome 6p21-cen. To determine whether severe perinatal ARPKD also maps to chromosome 6p, we have analyzed the segregation of seven microsatellite markers from the ARPKD interval in 22 families with the severe phenotype. In the majority of the affected infants, ARPKD was documented by histopathology. Our data confirm linkage and refine the ARPKD region to a 3.8-cM interval, delimited by the markers D6S465/D6S427/D6S436/D6S272 and D6S466. Taken together, these results suggest that, despite the wide variability in clinical phenotypes, there is a single ARPKD gene. These linkage data and the absence of genetic heterogeneity in all families tested to date have important implications for DNA-based prenatal diagnoses as well as for the isolation of the ARPKD gene.     

Dimeric dermorphin analogues as mu-receptor probes on rat brain membranes. Correlation between central mu-receptor potency and suppression of gastric acid secretion

The opioid receptor preference for dermorphin and several dimerized structural analogues was investigated using rat brain synaptosomes and correlated with the potencies of intracerebroventricularly administered dimeric dermorphin peptides to inhibit gastric acid secretion. The carboxyl terminus of dermorphin or amino-terminal dermorphin analogues was bridged by dihydrazide or (poly)ethylenediamine structures. Synaptosomal membranes were prepared for radioligand binding assay in the presence of soybean trypsin inhibitor and preincubated to remove endogenously bound opioid peptides before storage at -70 degrees C. Specific radiolabeled agonists used in the radioligand binding assays were [D-Ala2,N-methyl-Phe4,Gly-ol5] [3H] enkephalin for mu-receptors and [D-Ala2,D-Leu5] [3H]enkephalin for delta-receptors. delta-Receptor binding assays were conducted in the presence of 2.6 microM [N-Me-Phe3,D-Pro4]morphiceptin to suppress peptide binding to mu-receptors. [D-Ala2,N-methyl-Phe4,Gly-ol5]enkephalin and dermorphin had affinities of 1.39 and 1.22 nM for mu-receptors and 355.8 and 178.6 nM for delta-receptors, respectively. Affinities of dimeric-dermorphin0 for mu- and delta-receptors, and the mu-selectivity ratio, exceeded values characteristic of dermorphin. The dimerized amino-terminal dermorphin analogues are peptides whose receptor binding differed from the parent molecule; e.g. the affinity of dimeric tetrapeptides toward mu-receptors was reduced but was increased for delta-receptors relative to monomeric dermorphin-(1-4)-amide. Dimeric tetradermorphin linked by a bridge containing 12 methylene units (di-tetra-dermorphin12), exhibited a dramatic loss in the mu-selectivity ratio as a result of diminished mu-affinity. On the other hand, substitution of Gly4 by Sar in di-tetra-dermorphin2 enhanced binding to mu-receptors: substitution of D-Arg2 for D-Ala resulted in an increased binding to mu-receptors while decreasing binding to delta-receptors, yielding a peptide with the highest mu-selectivity ratio. These substitutions of D-Arg2 and Sar4 in dimeric amino-terminal dermorphin pentapeptides enhanced binding to both mu- and delta-receptors relative to dermorphin-(1-5)-amide, but led to a decrease in its mu-selectivity ratio. Several dimeric dermorphin analogues exhibited an enhanced mu-selectivity ratio relative to their monomeric analogues. Dimeric peptides, which had a relatively high affinity for mu-receptors, were effective in the suppression of gastric acid secretion.     

Widespread hybridization between the Greater Spotted Eagle Aquila clanga and the Lesser Spotted Eagle Aquila pomarina (Aves: Accipitriformes) in Europe

Hybridization is a significant threat for endangered species and could potentially even lead to their extinction. This concern applies to the globally vulnerable Greater Spotted Eagle Aquila clanga, a species that co‐occurs, and potentially interbreeds, with the more common Lesser Spotted Eagle Aquila pomarina in a vast area of Eastern Europe. We applied single nucleotide polymorphism (SNP) and microsatellite markers in order to study hybridization and introgression in 14 European spotted eagle populations. We detected hybridization and/or introgression in all studied sympatric populations. In most regions, hybridization took place prevalently between A. pomarina males and A. clanga females, with introgression to the more common A. pomarina. However, such a pattern was not as obvious in regions where A. clanga is still numerous. In the course of 16 years of genetic monitoring of a mixed population in Estonia, we observed the abandonment of A. clanga breeding territories and the replacement of A. clanga pairs by A. pomarina, whereby on several occasions hybridization was an intermediate step before the disappearance of A. clanga. Although the total number of Estonian A. clanga × A. pomarina pairs was twice as high as that of A. clanga pairs, the number of pairs recorded yearly were approximately equal, which suggests a higher turnover rate in interbreeding pairs. This study shows that interspecific introgressive hybridization occurs rather frequently in a hybrid zone at least 1700‐km wide: it poses an additional threat for the vulnerable A. clanga, and may contribute to the extinction of its populations. © 2010 The Linnean Society of London, Biological Journal of the Linnean Society, 2010, 100 , 725–736.     

The effect of permafrost on stream biogeochemistry: A case study of two streams in the Alaskan (U.S.A.) taiga

Understanding interactions between permanently frozen soils and stream chemistry is important in predicting the effects of management, natural disturbance and changing permafrost distribution on stream ecosystems and nutrient budgets in subarctic watersheds. Chemical measurements of groundwater, soil water and stream water were made in two watersheds in the taiga of interior Alaska. One watershed (HiP) had extensive permafrost and the other (LoP) had limited permafrost. Soil water collected within the rooting zone (0.3--0.5 m) in both watersheds was high in dissolved organic carbon (DOC), dissolved organic nitrogen (DON) and dissolved inorganic nitrogen (DIN) but low in dissolved minerals (dominantly Ca, Mg and Na) and conductivity. The reverse was true for groundwater from springs and wells. Permafrost in the HiP basin prevented deep percolation of water and generated stormflows rich in DOC. The presence of permafrost in HiP resulted in higher fluxes of DOC, DON and DIN into stream water from upland soils.     

Genotyping of pantophysin I (Pan I) of Atlantic cod (Gadus morhua L.) by allele‐specific PCR

The two main allelic variants of the Atlantic cod (Gadus morhua L.) pantophysin I (Pan I) locus have different frequencies within different cod stocks. The Dra I polymorphism which distinguishes the two alleles can thus be used for discrimination of coastal and offshore cod populations. We present a new method for Pan I genotyping using fluorescent allele‐specific duplex polymerase chain reaction (PCR). This method is more rapid, reliable and cost‐effective than the previously published method and it is not affected by DNA source and quality. This improvement is important for studies demanding high throughput and accuracy of Pan I genotyping     

Retention and mobility of the mammalian lamin B receptor in the plant nuclear envelope.

BACKGROUND INFORMATION: In a previous study, we showed that GFP (green fluorescent protein) fused to the N-terminal 238 amino acids of the mammalian LBR (lamin B receptor) localized to the NE (nuclear envelope) when expressed in the plant Nicotiana tabacum. The protein was located in the NE during interphase and migrated with nuclear membranes during cell division. Targeting and retention of inner NE proteins requires several mechanisms: signals that direct movement through the nuclear pore complex, presence of a transmembrane domain or domains and retention by interaction with nuclear or nuclear-membrane constituents. RESULTS: Binding mutants of LBR-GFP were produced to investigate the mechanisms for the retention of LBR in the NE. FRAP (fluorescence recovery after photobleaching) analysis of mutant and wild-type constructs was employed to examine the retention of LBR-GFP in the plant NE. wtLBR-GFP (wild-type LBR-GFP) was shown to have significantly lower mobility in the NE than the lamin-binding domain deletion mutant, which showed increased mobility in the NE and was also localized to the endoplasmic reticulum and punctate structures in some cells. Modification of the chromatin-binding domain resulted in the localization of the protein in nuclear inclusions, in which it was immobile. CONCLUSIONS: As expression of truncated LBR-GFP in plant cells results in altered targeting and retention compared with wtLBR-GFP, we conclude that plant cells can recognize the INE (inner NE)-targeting motif of LBR. The altered mobility of the truncated protein suggests that not only do plant cells recognize this signal, but also have nuclear proteins that interact weakly with LBR.     

Microtubule assembly and disassembly at alkaline pH

Although it is now apparent that the intracellular pH may rise considerably above neutrality under physiological conditions, information on the effect of alkaline pH on microtubule assembly and disassembly is still quite fragmentay. We have studied the assembly/disassembly of bovine brain microtubule protein at alkaline pH in vitro. When microtubules are assembled to a new steady state at pH less than 7 and pH is then made more alkaline, they undergo a rapid disassembly to a new steady state. This disassembly is reversed by acidification. The degree of disassembly is determined largely by the pH- dependence of the critical concentration, which increases five to eight times, from pH 7 to 8. A fraction of assembly-incompetent tubulin is identified that increases with pH, but its incompetency is largely reversed with acidification. Measurements of microtubule lengths are used to indicate that disassembly occurs by uniform shortening of microtubules. A comparison of shortening by alkalinization with dilution suggests that the intrinsic rate of disassembly is accelerated by increasing pH. The capacity for initiating assembly is progressively lost with incubation at alkaline pH (although some protection is afforded by sulfhydryl-reducing agents). However, direct assembly from depolymerized mixtures is possible at least up to pH 8.3, and the steady state achieved at these alkaline pH values is stable. Such preparations are readily disassembled by cold and podophyllotoxin (PLN). Disassembly induced by PLN is also markedly enhanced at alkaline pH, suggesting a corresponding enhancement of “treadmilling.” The implications of physiological events leading to alkaline shifts of pH for microtubule assembly/disassembly are discussed, particularly in the light of recent hypotheses regarding treadmilling and its role in controlling the distribution of microtubules in vivo.     

Toward rational design of ribonuclease inhibitors: high-resolution crystal structure of a ribonuclease A complex with a potent 3',5'-pyrophosphate-linked dinucleotide inhibitor.

The crystal structure of ribonuclease A (RNase A) in complex with pdUppA-3'-p [5'-phospho-2'-deoxyuridine-3'-pyrophosphate (P'-->5') adenosine 3'-phosphate] has been determined at 1.7 A resolution. This dinucleotide is the most potent low molecular weight inhibitor of RNase A reported to date (K(i) = 27 nM) and is also effective against two major nonpancreatic RNases: eosinophil-derived neurotoxin and RNase-4; in all cases, tight binding in large part derives from the unusual 3',5'-pyrophosphate internucleotide linkage [Russo, N., and Shapiro, R. (1999) J. Biol. Chem. 274, 14902-14908]. The design of pdUppA-3'-p was based on the crystal structure of RNase A complexed with 5'-diphosphoadenosine 3'-phosphate (ppA-3'-p) [Leonidas, D. D., Shapiro, R., Irons, L. I., Russo, N., and Acharya, K. R. (1997) Biochemistry 36, 5578-5588]. The adenosine of pdUppA-3'-p adopts an atypical syn conformation not observed for standard adenosine nucleotides bound to RNase A. This conformation, which allows extensive interactions with Asn 67, Gln 69, Asn 71, and His 119, is associated with the placement of the 5'-beta-phosphate of the adenylate, rather than alpha-phosphate, at the site where substrate phosphodiester bond cleavage occurs. The contacts of the deoxyuridine 5'-phosphate portion of pdUppA-3'-p appear to be responsible for the 9-fold increased affinity of this compound as compared to ppA-3'-p: the uracil base binds to Thr 45 in the same manner as previous pyrimidine inhibitors, and the terminal 5'-phosphate is positioned to form medium-range Coulombic interactions with Lys 66. The full potential benefit of these added interactions is not realized because of compensatory losses of hydrogen bonds of Lys 7 and Gln 11 with the terminal 3'-phosphate and the adenylate 5'-alpha-phosphate, which were not predicted by modeling. The results reported here have important implications for the design of improved inhibitors of RNase A and for the development of therapeutic agents to control the activities of RNase homologues such as eosinophil-derived neurotoxin and angiogenin that have roles in human pathologies.