A rapid and simple procedure to determine stigma receptivity

 We describe a new method to determine stigma receptivity by using a Peroxtesmo esterase indicator paper liquid (one paper+1 ml water). This technique enables the researcher to check instantly the receptivity of various types of stigmas and to locate the receptive area. Received: 13 November 1997 / Revision accepted: 16 March 1998     

A rapid procedure to detect in situ DNA/RNA hybrids

We developed a new method for detecting DNA/RNA hybrids formed $\text{in}\text{situ}$ using $\text{anti-}\text{DNA}\text{RNA}$ antibodies and the Peroxidase-antiperoxidase immunohistochemical procedure. Using RNA synthesised $\text{in}\text{vitro}$ from cloned $\text{Drosophila}$ histone genes (pDm 500H), we localized by this procedure, the histone genes to the 39 D-E region of the left arm of the second chromosome. This method has several advantages compared to conventional procedures.     

A new method for detecting sites of 2'-O-methylation in RNA molecules.

2'-O-methylation of eukaryotic ribosomal RNAs occurs in the cell nucleoli. At least 100 modification sites that are highly conserved among vertebrate rRNAs have been mapped. However, in part because of the insensitivity of current approaches, there are 2'-O-methylated sites that remain unidentified. We have developed an extremely sensitive method for detecting 2'-O-methylated residues that are predicted within a long RNA molecule. Utilizing RNase H cleavage directed by a 2'-O-methyl RNA-DNA chimeric oligonucleotide, this method has allowed identification of two methylated nucleotides, G1448 in Xenopus 18S rRNA and A394 in Xenopus 28S rRNA. The latter (A394 in 28S) had not been detected before. We have confirmed that the methylation at G1448 in 18S is dependent upon Xenopus U25 snoRNA and have demonstrated that the methylation at A394 in 28S requires U26 snoRNA. One advantage of this technique is that it can examine specific rRNA and precursor molecules. We show that about 30% of the 40S pre-rRNA has been methylated at these two sites and their methylation is complete at the stage of 20S (immediate precursor to 18S) and 32S (immediate precursor to 28S). We also show that methylation at these two sites is not essential for rRNA transport from the nucleus to the cytoplasm.     

A rapid method to determine the mammalian cell cycle

A method was developed for determining the duration of the mammalian cell cycle and each of its major phases, mitosis, G1, DNA synthetic period, and G2. Mitotic time was determined by assessment of the mitotic index at intervals after cells collected in mitosis and stored at 4 °C were reincubated at 37 °C. The duration of the three remaining phases was derived from a graphic representation of the uptake of ³H-thymidine by a synchronous population of cells grown directly in scintillation vials. The scintillation counting method for determination of these parameters is advantageous over methods using autoradiography in that the investigator's bias in scoring cells is eliminated. Complex mathematical interpretations are unnecessary, and the data obtained from the scintillation counter are readily processed. Results from scintillation counting and autoradiographic methods are shown to be comparable.     

A rapid electrophoretic procedure for the detection of SDS-released oncorna-viral RNA using polyacrylamide-agarose gels

A rapid method for analyzing SDS-released viral RNA on acrylamideagarose gels is described. Studies carried out on Rauscher leukemia virus and Mason-Pfizer monkey virus utilizing this method show that the distribution and recovery of the RNA components are similar for phenol-extracted or SDS-released viral RNA. The method is approximately 20 times more sensitive than sucrose gradient analysis and can be utilized in cases where virus concentration (EM particle count or radioactivity) is low.Data presented illustrate the versatility of this method.     

A simplified procedure to determine tryptophan residues in proteins.

A procedure is described to determine tryptophan residues in proteins using a tryptophan reagent, 2-hydroxy-5-nitrobenzyl bromide. The method involves the treatment of the unfolded protein with the reagent in 9 m urea at acid pH; incubation of the mixture at room temperature for 2 hr and the removal of the excess reagent by centrifugation and gel filtration. The amount of tryptophan in a protein is determined from the optical density of the labeled protein at 280 and 410 nm, and from the known optical density of 1 mg/ml of the protein at 280 nm and of the reagent at 280 and 410 nm. The efficacy of the method was tested with eight proteins whose tryptophan content is known.     

Purified box C/D snoRNPs are able to reproduce site-specific 2'-O-methylation of target RNA in vitro

Small nucleolar RNAs (snoRNAs) are associated in ribonucleoprotein particles localized to the nucleolus (snoRNPs). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. Although the selection of the target nucleotide requires the antisense element and the conserved box D or D' of the snoRNA, the methyltransferase activity is supposed to reside in one of the protein components. Through protein tagging of a snoRNP-specific factor, we purified to homogeneity box C/D snoRNPs from the yeast Saccharomyces cerevisiae. Mass spectrometric analysis demonstrated the presence of Nop1p, Nop58p, Nop56p, and Snu13p as integral components of the particle. We show that purified snoRNPs are able to reproduce the site-specific methylation pattern on target RNA and that the predicted S-adenosyl-L-methionine-binding region of Nop1p is responsible for the catalytic activity.     

二斑叶螨对阿维菌素敏感性的快速检测方法筛选

为了寻找一种快速检测二斑叶螨Tetranychus urticae Koch对阿维菌素敏感性的试验方法,本试验分别采用酶标板法、玻璃管法、离心管法、玻片浸渍法和培养皿封膜法,测定了阿维菌素处理后1、2、3和4 h时二斑叶螨的死亡率。结果发现,酶标板法和玻璃管法操作不方便;离心管法无法准确判断死亡与否;玻片浸渍法作用速度慢;培养皿封膜法方便快捷。据此得出,采用培养皿封膜法于处理后3 h观察结果,可以省时省力的测定二斑叶螨对阿维菌素的敏感性。     

Mechanism of RNA 2'-O-methylation: evidence that the catalytic lysine acts to steer rather than deprotonate the target nucleophile

The weight of current evidence suggests that RNA 2'-O-MTases employ an S(N)2 mechanism with an in-line attack of the target nucleophile upon the methyl group of the AdoMet cofactor. It has been suggested that, like the phosphohydrolytic enzymes, ribozymes, and nucleic acid polymerases, the RNA 2'-O-MTases initially activate the substrate's attacking hydroxyl oxygen by deprotonation. Here, evidence is presented that the vaccinia virus mRNA cap specific 2'-O-MTase VP39 does not promote RNA 2'-oxyanion formation but that instead it acts by steering a hydroxyl oxygen orbital toward the cofactor methyl center.     

A simplified procedure to determine the optimal rate of freezing biological systems

The effect of several cell-level parameters on the predicted optimal cooling rate B(opt) of an arbitrary biological system has been studied using a well-defined water transport model. An extensive investigation of the water transport model revealed three key cell level parameters: reference permeability of the membrane to water L(pg), apparent activation energy E(Lp), and the ratio of the available surface area for water transport to the initial volume of intracellular water (SA/WV). We defined B(opt) as the "highest" cooling rate at which a predefined percent of the initial water volume is trapped inside the cell (values ranging from 5% to 80%) at a predefined end temperature (values ranging from -5 degrees C to -40 degrees C). Irrespective of the choice of the percent of initial water volume trapped and the end temperature, an exact and linear relationship exists between L(pg), SA/WV, and B(opt0. However, a nonlinear and inverse relationship is found between E(Lp) and B(opt). Remarkably, for a variety of biological systems a comparison of the published experimentally determined values of B(opt) agreed quite closely with numerically predicted B(opt) values when the model assumed 5% of initial water is trapped inside the cell at a temperature of -15 degrees C. This close agreement between the experimental and model predicted optimal cooling rates is used to develop a generic optimal cooling rate chart and a generic optimal cooling rate equation that greatly simplifies the prediction of the optimal rate of freezing of biological systems.     

A rapid procedure to detect the autolysin phenotype in Streptococcus pneumoniae

Abstract A simple and rapid procedure to detect autolysin-defective mutants of Streptococcus pneumoniae has been developed. The autolysin gene ( lyt ) can be introduced into the appropriate receptor strain by genetic transformation and the transformants are readily detected on the surface of semisynthetic medium (C medium) plates by using a membrane filter. A pneumococcal autolysin mutation ( lyt -4) behaved as a low-efficiency marker in genetic transformation.     

A procedure to determine equilibrium postural configurations for arbitrary locations of the feet

This research was directed toward predicting postural equilibrium configurations in normal humans for asymmetric locations of the feet. The objective of the study was to identify trends in the variation of the location of ground center of pressure (COP) with increasing levels of asymmetry in the foot placement. The procedure developed here minimized the muscular effort (active torques) in the lower extremities while maximizing postural stability margins for given foot locations. Minimizing muscular effort led to fully extended knees, and maximal stability margin led to the COP moving toward the rear foot in asymmetric stance. A combined analytical-numerical optimization scheme was used to avoid singularities that can arise due to the fact that at equilibrium postural configurations, the torso lies at or near the workspace boundary of the lower extremities. Experiments were conducted and the results obtained were in keeping with the model predictions. This basic understanding of asymmetric stance is important for studying asymmetric postural mechanics in the presence of external disturbances, and for extending the results from normal subjects to humans at both ends of the life span.     

A sensitive and rapid method to determine the viability of freeze-dried bacterial cells

AIMS: To determine the potential use of flow cytometry for viability asssessment of freeze-dried bacterial cells. METHODS AND RESULTS: Escherichia coli CIP 54.8T and Vibrio metschnikovii CIP 104262 were analysed. The viability of freeze-dried cells resuspended in a nutrient broth was evaluated by culture whereas activity was determined by flow cytometry analysis of both esterase activity and cell death. Activity assessment by flow cytometry was found to be a rapid and good indicator of cell viability and was very efficient for quality control. For V. metschnikovii the fraction of active cells varies greatly depending on the freeze-drying procedure and within a given procedure. CONCLUSIONS, SIGNIFICANCE AND IMPACT OF THE STUDY: Bacterial activity assessment by flow cytometry is very efficient for the control of freeze-dried cells.     

A simple and rapid method to determine the zygosity of uPA-transgenic SCID mice

Successful transplantation of xenogeneic hepatocytes into uPA-transgenic SCID mice depends on the zygosity of the recipient mice. Normally, the difference between homozygous and heterozygous animals is determined via a quantitative Southern blot. We sequenced a part of the mouse genome that is eliminated upon integration of the transgene in the genome. Based on that sequence we developed a multiplex PCR that allows the unambiguous discrimination of negative, heterozygous, and homozygous uPA-transgenic SCID mice in a single day procedure. The speed of the procedure is an essential quality because transplantation of xenogeneic hepatocytes into uPA-SCID mice should be done as soon as possible after birth.     

Biochemical and structural insights into the mechanisms of SARS coronavirus RNA ribose 2'-O-methylation by nsp16/nsp10 protein complex

The 5'-cap structure is a distinct feature of eukaryotic mRNAs, and eukaryotic viruses generally modify the 5'-end of viral RNAs to mimic cellular mRNA structure, which is important for RNA stability, protein translation and viral immune escape. SARS coronavirus (SARS-CoV) encodes two S-adenosyl-L-methionine (SAM)-dependent methyltransferases (MTase) which sequentially methylate the RNA cap at guanosine-N7 and ribose 2'-O positions, catalyzed by nsp14 N7-MTase and nsp16 2'-O-MTase, respectively. A unique feature for SARS-CoV is that nsp16 requires non-structural protein nsp10 as a stimulatory factor to execute its MTase activity. Here we report the biochemical characterization of SARS-CoV 2'-O-MTase and the crystal structure of nsp16/nsp10 complex bound with methyl donor SAM. We found that SARS-CoV nsp16 MTase methylated m7GpppA-RNA but not m7GpppG-RNA, which is in contrast with nsp14 MTase that functions in a sequence-independent manner. We demonstrated that nsp10 is required for nsp16 to bind both m7GpppA-RNA substrate and SAM cofactor. Structural analysis revealed that nsp16 possesses the canonical scaffold of MTase and associates with nsp10 at 1∶1 ratio. The structure of the nsp16/nsp10 interaction interface shows that nsp10 may stabilize the SAM-binding pocket and extend the substrate RNA-binding groove of nsp16, consistent with the findings in biochemical assays. These results suggest that nsp16/nsp10 interface may represent a better drug target than the viral MTase active site for developing highly specific anti-coronavirus drugs.     

A reliable and rapid procedure to estimate drug partitioning in biomembranes

A direct method using derivative spectrophotometry was developed for determining membrane-water molar partition coefficients (Kp) of the anticancer drugs tamoxifen (TAM) and 4-hydroxytamoxifen (OHTAM). This method explores a shift in the absorption spectra of the drugs when removed from the aqueous phase to a hydrophobic environment. Partition of TAM and OHTAM depends on membrane composition and on drug concentration, temperature and presence of cholesterol. Unlike OHTAM, partition of TAM in DMPC bilayers, liposomes of sarcoplasmic reticulum (SR) lipids and native membranes of SR and mitochondria decreases linearly with drug concentration. Additionally, the partition of these drugs is higher in SR native membranes than in liposomes of SR lipids. The partition also depends on membrane type, being higher in mitochondria than in SR membranes. Maximal partitionings in DMPC are observed at temperatures in the range of the main phase transition. Cholesterol strongly affects the incorporation of drugs and maximal inhibition was observed in DMPC bilayers.