On two models for the frequency distribution of lethals in Drosophila observed in F3s derived from a single F1 gonadal mosaic female,and the transmissibility

In order to estimate for Drosophila the frequency distribution of lethals observed in F₃s derived from a single F₁ gonadal mosiac female, two contrasting models are proposed based on knowledge of the gametogenesis process. In the models, it is thought that the two nuclei produced after the first cleavage division are a lethal carrying one and a lethal free one. This line of thought leads to the conclusion that the mean value of the frequency distribution of lethals in the F₃s must be $\text{1}\text{2}$. In the gametogenesis process, separation of a sample occurs two times to establish the potential germ line (Sonnenblick, 1950). In the first model, it is assumed that these samples are formed when the two kinds of nuclei are distributed at random in the mosaic embryo. In the second model, it is premised that the first separation occurs when the two kinds of nuclei are intersected by a randomly directed plane; and that some of the adjacent nuclei are separated to form the germ line. The experimental data of Carlson & Southin (1963) suggest that the frequency distribution of lethals in the F₃s may be rather flat, differing from a binomial curve. In this paper, it is shown that their results can be reproduced by the second model. However, upon closer study it is found that an intermediate state of the two models may be more appropriate.     

Mechanistic and kinetic studies of inhibition of enzymes

A graphical method for analyzing enzyme data to obtain kinetic parameters, and to identify the types of inhibition and the enzyme mechanisms, is described. The method consists of plotting experimental data as nu/(V0 - nu) vs 1/(I) at different substrate concentrations. I is the inhibitor concentration; V0 and nu are the rates of enzyme reaction attained by the system in the presence of a fixed amount of substrate, and in the absence and presence of inhibitor, respectively. Complete inhibition gives straight lines that go through the origin; partial inhibition gives straight lines that converge on the 1-I axis, at a point away from the origin. For competitive inhibition, the slopes of the lines increase with increasing-substrate concentration; with noncompetitive inhibition, the slopes are independent of substrate concentration; with uncompetitive inhibition, the slopes of the lines decrease with increasing substrate concentrations. The kinetic parameters, Km, Ki, Ki', and beta (degree of partiality) can best be determined from respective secondary plots of slope and intercept vs substrate concentration, for competitive and noncompetitive inhibition mechanism or slope and intercept vs reciprocal substrate concentration for uncompetitive inhibition mechanism. Functional consequencs of these analyses are represented in terms of specific enzyme-inhibitor systems.     

Variance of actual inbreeding

The variances of actual inbreeding and coancestry in terms of their corresponding identities by descent were studied for finite populations. For inbreeding at a single locus, the total variance σ² = F(1 ? F) (F is the inbreeding coefficient) is comprised of a component σ_w² within populations and a component σ_b² between replicate populations. These variances increase in time to a maximum at about 1.1N_e generations for σ_w², about 2.3N_e generations for σ_b², and about 1.4N_e generations for σ², and decrease thereafter (N_e is effective population size). The ratio $\text{σ}{}_{\mathrm{<mtext>b</mtext>}}{}^2\text{σ}{}^2$ is ever increasing to an asymptote in the range 0.4-0.5 depending on N_e and the mating system. For finite populations with variation in pedigree F's, there are contributions σ_wF² within and σ_bF² between populations. The component σ_bF² is insignificant except for very small populations, and σ_wF² is largest in the early generations and then decreases roughly as $\text{(1 ? F)}{}^2\text{KN}{}_{\mathrm{<mtext>e</mtext>}}\text{where}\text{K}$ is formulated in terms of the mating strategy and the degree of avoidance of mating relatives. An additional degree of avoidance increases K by a factor of 4. In a large population at equilibrium with respect to mixed self and random mating, σ_wF² accounts for onehalf to two-thirds of σ_w². Bringing in more loci leads to the decomposition of the total variance into four components whose values are affected by linkages among the loci. The relationships between these components and σ_w², σ_b², σ_wF², and σ_bF², are elaborated in terms of tight and loose linkage. The exact computations of σ_wF² and σ_bF² require the use of two locus descent measures without linkage. The variances of various averages of actual identities by descent, such as the proportions for individuals or populations, are formulated for a sample of individuals.     

Inhibitors of histone methylation

Two classes of inhibitors of histone methyltransferase I from calf thymus are reported. High concentrations ($\text{≧ 10}\text{m}\text{M}$) of various alkyl or aralkyl amines and polyamines were inhibitory to the enzyme. Spermine and spermidine were among the most potent compounds in this group. The best monoamine inhibitor was 2-phenylethylamine, which gave 47% inhibition at 10 mM.The substituted phenanthridinium compound ethidium bromide was also an inhibitor of the enzyme. A number of analogs of ethidium bromide were tested, and the most potent compound (17) gave 50% inhibition at 0.125 mM. $\text{S-}\text{Adenosyl}\text{-}\text{l}\text{-}\text{ethionine}$ (SAM) showed competitive inhibition of the enzyme as determined from a Lineweaver-Burke plot, while ethidium bromide was noncompetitive.     

Estimation of kinetic parameters for substrate and inhibitor in a reaction with an enzyme sample containing different types of inhibitor

The method of kinetic analysis is developed to obtain the maximum velocity (V_m), the Michaelis constant (K_m) and the parameters characterizing the inhibitors in an impure enzyme reaction, contaminated with one of four types of inhibitor (competitive, noncompetitive, uncompetitive and mixed-type). Although the reaction rate decreases with the increasing concentration of the enzyme sample containing an inhibitor, the double-reciprocal plot of the rate against the sample concentration becomes linear. The slopes of these linear plots at several different concentrations of substrate provide K_m and the specific enzyme activity, which is proportional to V_m, in the sample. These linear straight lines intersect in a point, of which the coordinates give the unique parameters for the inhibitor. To prove the validity of this kinetic method, the model experiments were carried out with acetylcholinesterase and its inhibitors, phenyltrimethylammonium and trimethylammonium. The present method was applied to the measurement of the specific activity of galactosylceramide galactosidase in the mouse cerebral homogenate. In addition, a kinetic method is indicated for the inhibition of an enzymatic reaction by a contaminant which binds the substrate to reduce the fraction available to the enzyme.     

Additive genetic variance and covariance between relatives in synthetic wheat crosses with variable parental ploidy levels

Cultivated bread wheat (Triticum aestivum L.) is an allohexaploid species resulting from the natural hybridization and chromosome doubling of allotetraploid durum wheat (T. turgidum) and a diploid goatgrass Aegilops tauschii Coss (Ae. tauschii). Synthetic hexaploid wheat (SHW) was developed through the interspecific hybridization of Ae. tauschii and T. turgidum, and then crossed to T. aestivum to produce synthetic hexaploid wheat derivatives (SHWDs). Owing to this founding variability, one may infer that the genetic variances of native wild populations vs improved wheat may vary due to their differential origin and evolutionary history. In this study, we partitioned the additive variance of SHW and SHWD with respect to their breed origin by fitting a hierarchical Bayesian model with heterogeneous covariance structure for breeding values to estimate variance components for each breed category, and segregation variance. Two data sets were used to test the proposed hierarchical Bayesian model, one from a multi-year multi-location field trial of SHWD and the other comprising the two species of SHW. For the SHWD, the Bayesian estimates of additive variances of grain yield from each breed category were similar for T. turgidum and Ae. tauschii, but smaller for T. aestivum. Segregation variances between Ae. tauschii—T. aestivum and T. turgidum—T. aestivum populations explained a sizable proportion of the phenotypic variance. Bayesian additive variance components and the Best Linear Unbiased Predictors (BLUPs) estimated by two well-known software programs were similar for multi-breed origin and for the sum of the breeding values by origin for both data sets. Our results support the suitability of models with heterogeneous additive genetic variances to predict breeding values in wheat crosses with variable ploidy levels.     

Estimating Population-Level Coancestry Coefficients by an Admixture F Model

In this article, we develop an admixture F model (AFM) for the estimation of population-level coancestry coefficients from neutral molecular markers. In contrast to the previously published F model, the AFM enables disentangling small population size and lack of migration as causes of genetic differentiation behind a given level of F_ST. We develop a Bayesian estimation scheme for fitting the AFM to multiallelic data acquired from a number of local populations. We demonstrate the performance of the AFM, using simulated data sets and real data on ninespine sticklebacks (Pungitius pungitius) and common shrews (Sorex araneus). The results show that the parameterization of the AFM conveys more information about the evolutionary history than a simple summary parameter such as F_ST. The methods are implemented in the R package RAFM.     

Additive main effects and multiplicative interaction (AMMI) analysis of genotype-location interaction in variety trials repeated over years

Genotype-location (GL) interaction effects are of special interest for breeding programmes to identify adaptation targets, adaptive traits and test sites. These effects, generally having relatively low repeatability between years, should be studied on a multiyear basis in annual crops. Their assessment by additive main effects and multiplicative interaction (AMMI) analysis is currently defined for this situation. Two procedures based on cross validations are proposed for testing the GL-interaction principal component axes, exploiting the utilities of the computer programme MATMODEL. The use of Gollob’s F test, F _GH2 test, F _R test and the heuristic criterion based on the signal-to-noise ratio is also envisaged. The consistency of results provided by the testing procedures was verified on four data sets of different cereal crops. Gollob’s test tended to be the most liberal, while the F _GH2 test appeared somewhat more liberal than the F _R test. The signal-to-noise ratio gave results consistent with the F _R test considered at a P?0.01 level of significance. These criteria disagreed in two data sets with the conclusions provided by the two cross-validation procedures which, in turn, also disagreed in one data set. Preference could be given to different testing procedures depending on the number of test years, locations and genotypes.     

A simple linear relationship and definition of a unit for proteinase activity

A mathematical transformation involving the $\text{3}\text{2}$ power of the number of milligrams of soluble nitrogen released from the substrate makes possible the expression of proteolytic activity in terms of the quantity of enzyme required to cause a given change in the substrate. The relationship is linear for several different enzymes including papain, patent flour, malted barley, malted wheat flour, and several fungal preparations acting on either Bacto-hemoglobin or gluten substrate.One unit of proteinase activity is defined as that activity contained by a quantity of enzyme-active material which gives an increase in soluble nitrogen in a 10-ml. aliquot from the filtrate corresponding to the intersection of the straight line with the transformed value representing 1 ml. of 0.0714 N alkali.This method of expressing proteolytic activity greatly simplifies the expression of proteolytic activity and has been found convenient for analytical purposes as well as for comparing activities of different enzymes acting on the same substrate.     

A new approach to DNA polymerase kinetics

Little is known of the detailed mechanisms of the polymerization reactions carried out by RNA and DNA polymerases. Besides technical reasons, there are mathematical difficulties not encountered in traditional enzymology. The product of the reaction after one polymerization step is also the substrate of the next step. A number of polymerases, isolated from various sources, have an exonuclease activity. The chain which is being synthesized may be either elongated or trimmed, and its growth has the character of a random walk. In this case, although the overall reaction scheme is more complex, the experiments are more informative, as every dNTP may be transformed into two distinct products: incorporated, or free dNMP.Having solved some of the mathematical difficulties of the random walk problem, we are able to propose a strategy for the study of the polymerization/excision kinetics. We measure the amount y(t) of nucleotide that is polymerized at time tand the amount x(t) of nucleoside monophosphate that has accumulated. When $\text{d}\text{y}\text{d}\text{x}$ is plotted against the concentration of dNTP, a curve is obtained with a characteristic shape, a straight line in a large number of cases. From there, kinetic constants can be estimated.The analysis is made in terms of four possible kinetic schemes. In the most elementary model there are only two rate constants, one for incorporation and one for excision. This model is a limiting case of all other models. The frayed-unfrayed model of Brutlag & Kornberg (1972), Hopfield's kinetic proofreading scheme (Hopfield, 1974), and the delayed-escape scheme (Ninio, 1975) are examined in detail, and we show how the kinetic experiments may in principle distinguish between the schemes. Our approach is illustrated with three experiments in which Escherichia coli DNA polymerase I acts on poly(dC), and poly(dT) · oligo(dA)₁₀.     

Paradoxical activation of Leptomonas NAD-linked alpha-glycerophosphate dehydrogenase by ethidium and antrycide.

Antrycide and ethidium bromide — 2 cationic trypanocides — inhibited NAD-linked α-glycerophosphate dehydrogenase from $\text{Leptomonas}$ sp. The kinetics of enzyme inhibition was determined by Lineweaver-Burk, Dixon, or direct linear plots. Inhibition by Antrycide was noncompetitive for dihydroxyacetone phosphate in the presence of saturating Mg²⁺ or spermidine. With dihydroxyacetone phosphate at saturation, Antrycide inhibition was also noncompetitive with respect to Mg²⁺ (K_i = 115 μM) and spermidine (K_i = 85 μM). Inhibition by ethidium in the presence of saturating dihydroxyacetone phosphate, was noncompetitive for Mg²⁺ (K_i = 400 μM) but mixed for spermidine (K_i = 495 μM); inhibition was noncompetitive for dihydroxyacetone phosphate in the presence of saturating Mg²⁺ or spermidine. Rabbit-muscle α-glycerophosphate dehydrogenase was inhibited at all concentrations of Antrycide and ethidium tested, but the $\text{Leptomonas}$ enzyme was stimulated up to 3.5-fold by low concentrations of inhibitors in the absence of polyamine. New chemotherapeutic possibilities may thus be opened and an evolutionary distinction between trypanosomatid and mammalian enzyme.     

Heterozygote frequencies in small subpopulations.

The mean fixation index within subpopulations (F_IS) has been defined as $\text{F}\text{̄}{}_{\mathrm{IS}}\text{= ∑w}{}_{\mathrm{i}}\text{F}{}_{\mathrm{ISi}}\text{or as}\text{F}\text{̂}{}_{\mathrm{IS}}\text{=}\text{∑w}{}_{\mathrm{i}}\text{p}{}_{\mathrm{i}}\text{q}{}_{\mathrm{i}}\text{F}{}_{\mathrm{ISi}}\text{∑w}{}_{\mathrm{i}}\text{p}{}_{\mathrm{i}}\text{q}{}_{\mathrm{i}}$. The latter definition is preferred because it can be obtained from the two other fixation indices, F_ST and F_IT and because it is unaffected by the mean gene frequency. The expected frequency of heterozygotes in small subpopulations of dioecious organisms will exceed Hardy-Weinberg expectations and this can be measured by $\text{F}\text{̂}{}_{\mathrm{IS}}$. In an isolated subpopulation of constant variance effective size $\text{N,}\text{F}\text{̂}{}_{\mathrm{IS}}$ rapidly tends to $\text{1 − 4N}{}^2\text{(N − 1 + [N}{}^2\text{+ 1]}{}^{\mathrm{<mtext>1</mtext><mtext>2</mtext>}}\text{)}{}^2$. In the Island model of population structure, $\text{F}\text{̂}{}_{\mathrm{IS}}$ is approximately $\text{−(1 − m)}\text{N}\text{where}\text{m}$ is the immigration rate.When a sample is drawn from a natural population, the observed F_IS will depend upon the genetic structure of the population. The values of F_IS expected in three different types of population structure are discussed.     

Quenching of chlorophyll fluorescence and primary photochemistry in chloroplasts by dibromothymoquinone

The quenching action of dibromothymoquinone on fluorescence and on primary photochemistry was examined in chloroplasts at ?196 °C. Both the initial (F₀) and final (F_M) levels of fluorescence as well as the fluorescence of variable yield (F_v = F_M ? F₀) were quenched at ?196 °C to a degree which depended on the concentration of dibromothymoquinone added prior to freezing. The initial rate of photoreduction of C-550 at — 196 °C, which was assumed to be proportional to maximum yield for primary photochemistry, ?_Po, was also decreased in the presence of dibromothymoquinone. Simple theory predicts that the ratio $\text{F}{}_{\mathrm{<mtext>V</mtext>}}\text{F}{}_{\mathrm{<mtext>M</mtext>}}$ should equal ?_Po. Excellent agreement was found in a comparison of relative values of ?_Po with relative values of $\text{F}{}_{\mathrm{<mtext>V</mtext>}}\text{F}{}_{\mathrm{<mtext>M</mtext>}}$ at various degrees of quenching by dibromothymoquinone. These results are taken to indicate that F₀ and F_V are the same type of fluorescence, both emanating from the bulk chlorophyll of Photosystem II.Dibromothymoquinone appears to create quenching centers in the bulk chlorophyll of Photosystem II which compete with the reaction centers for excitation energy. The rate constant for the quenching of excitation energy by dibromothymoquinone is directly proportional to the concentration of the quencher. Rate constants for the de-excitation of excited chlorophyll molecules by fluorescence, k_F, by nonradiative decay processes, k_D, by photochemistry, k_P, and by the specific quenching of dibromothymoquinone, k_Q, were calculated assuming the absolute yield of fluorescence at F₀ to be either 0.02 or 0.05.     

Karyotypic normalcy and quasi-normalcy of developmentally totipotent mouse teratocarcinoma cells

Malignant mouse teratocarcinoma cells are, in some cases, able to undergo normal, complete differentiation after injection into blastocysts. Thus far, only three lines—of unrelated origin—have been found (all in this laboratory) to be developmentally totipotent in blastocyst tests. The karyotypes of these lines, and their somatic- and germ-cell derivatives, were investigated by G-banding methods, as a possible clue to their developmental superiority. The first, OTT 6050 (129 strain), is an embryo-derived induced tumor maintained as an ascites transplant line. Its stem cells (from embryoid body “cores”) have 40 chromosomes in the modal class, which comprises two subclasses: one all normal and one with a metacentric chromosome (isochromosome-8). However, mosaic animals from injected blastocysts have only the normal subclass in their teratocarcinomaderived cells; all are of $\text{X}\text{Y}$ male sex chromosome type. Presence of the Y chromosome was verified after transmission through the germ line of two fertile mosaic males, in their F₁ male progeny. The second teratocarcinoma line, 72484-395 (LT strain), is a spontaneous ovarian solid tumor maintained by subcutaneous transplantation. Karyotypes of cells from the tumor, and also of teratocarcinoma-derived cells in mosaic animals, were normal and of $\text{X}\text{X}$ female sex chromosome type. Karyotypes of the F₁ progeny, from tumor-strain germ cells of a fertile mosaic female, were also normal. The third line, NG 2 (129 strain), is a mutant clonal in vitro line deficient in hypoxanthine phosphoribosyltransferase. It originated from an embryo-derived experimental tumor (OTT 5568) that was established in culture (PSA1 line); the culture was then mutagenized and selected for 6-thioguanine resistance. The NG 2 line proved to be quasi-normal, with only two karyotypic anomalies: trisomy of chromosome 6 and $\text{X}\text{O}$ female sex chromosome constitution. Thus, developmental totipotency in all three lines, including one maintained in vitro, is accompanied by karyotypic normalcy or near-normalcy. Other culture lines reported to be aneuploid have not yet given evidence of totipotency. Karyotypic normalcy may therefore have predictive value useful in choosing teratocarcinoma lines with relatively high developmental prospects. This is of importance in identifying those mutant lines that would be promising candidates for introduction, via blastocyst injection, of specific mutant genes into mice.     

Characterization of chlorophyll fluorescence quenching in chloroplasts by fluorescence spectroscopy at 77 K II. ATP-dependent quenching

In intact, uncoupled type B chloroplasts from spinach, added ATP causes a slow light-induced decline ($\text{t}{}_{\mathrm{<mtext>1</mtext><mtext>2</mtext>}}\text{≈ 3}\text{min}$) of chlorophyll a fluorescence at room temperature. Fluorescence spectra were recorded after fast cooling to 77 K and normalized with fluorescein as an internal standard. Related to the fluorescence quenching at room temperature, an increase in Photosystem (PS) I fluorescence (F₇₃₅) and a decrease in PS II fluorescence (F₆₉₅) were observed in the low-temperature spectra. The change in the $\text{F}{}_{735}\text{F}{}_{695}$ ratio was abolished by the presence of methyl viologen. Fluorescence induction at 77 K of chloroplasts frozen in the quenched state showed lowered variable (F_v) and initial (F₀) fluorescence at 690 nm and an increase in F₀ at 735 nm. The results are interpreted as indicating an ATP-dependent change of the initial distribution of excitation energy in favor of PS I, which is controlled by the redox state of the electron-transport chain and, according to current theories, is caused by phosphorylation of the light-harvesting complex.     

New aspects on inhibition of plant acetolactate synthase by chlorsulfuron and imazaquin

The sulfonylurea herbicide chlorsulfuron and the imidazolinone herbicide imazaquin were shown to be noncompetitive and uncompetitive inhibitors, respectively, of purified acetolactate synthase from barley (Hordeum vulgare L.) with respect to pyruvate. From double-reciprocal plots of the time-dependent biphasic inhibition by chlorsulfuron, an initial apparent inhibition constant of 68 nanomolar was calculated (a 0 to 4 minute assay was used for the initial inhibition), and a final steady-state dissociation constant of 3 nanomolar was estimated. The corresponding constants for imazaquin were 10 and 0.55 micromolar. Specific binding of [¹⁴C]chlorsulfuron and [¹⁴C]imazaquin to purified acetolactate synthase from barley and partially purified enzyme from corn (Zea mays L.) could be demonstrated by gel filtration and equilibrium dialysis. Evidence is presented that the binding of the inhibitors to the enzyme follows the previously described mechanism of slow reversibility once excess inhibitor has been removed. However, after formation of the slowly reversible complex and subsequent dissociation, both chlorsulfuron and imazaquin seem to permanently inactivate acetolactate synthase. These results add a new feature to the mode of action of these herbicides with respect to their high herbicidal potency.     

Phosphate transport in Neurospora: Kinetic characterization of a constitutive,low-affinity transport system

Log-phase cells of Neurospora crassa, grown in standard minimal medium, possess an energy-dependent transport system for inorganic phosphate, with a $\text{K}{}_{\mathrm{<mtext>1</mtext><mtext>2</mtext>}}$ (at pH 5.8) of 0.123 mM and a J_max of 1.64 mmoles/l cell water per min. Like the PO₄^3? transport system in yeast, the Neurospora system is stimulated by high intracellular K⁺. In addition, it is inhibited by high extracellular salt concentrations, an effect which may be related to the known depolarization of the Neurospora plasma membrane at high salt concentrations.The most striking property of the system is its strong dependence upon the extracellular pH. From pH 4.0 to pH 7.3, the J_max remains essentially constant but the $\text{K}{}_{\mathrm{<mtext>1</mtext><mtext>2</mtext>}}$ increases nearly 400-fold, from 0.01 to 3.62 mM. The increase cannot be accounted for by a single system with a preference for H₂PO₄^? (which would show only a 3-fold increase in apparent $\text{K}{}_{\mathrm{<mtext>1</mtext><mtext>2</mtext>}}$ over this pH range) nor by two systems with different affinities and pH optima (which would display nonlinear double-reciprocal plots at intermediate pH values). It can be explained, however, by a model in which OH^? or H⁺ is assumed to act as a modifier of the transport system, altering its affinity for substrate.     

The reconstitution of a Photosystem II protein complex, P-700-chlorophyll a-protein complex and light-harvesting chlorophyll ab-protein

A Photosystem II reaction centre protein complex was extracted from spinach chloroplasts using digitonin. This complex showed (i) high rates of dichloroindophenol and ferricyanide reduction in the presence of suitable donors, (ii) low-temperature fluorescence at 685 nm with a variable shoulder at 695 nm which increased as the complex aggregated due to depletion of digitonin and (iii) four major polypeptides of 47, 39, 31 and 6 kDa on dissociating polyacrylamide gels. The Photosystem II protein complex, together woth the P-700-chlorophylla protein complex and light-harvesting chlorophyll $\text{a}\text{b-}\text{protein}$ complex (LHCP) also isolated using digitonin, were reconstituted with lipids from spinach chloroplasts to form proteoliposomes. The low-temperature (77 K) fluorescence properties of the various proteoliposomes were analysed. The $\text{F}{}_{685}\text{F}{}_{695}$ ratios of the Photosystem II reaction centre protein complex-liposomes decreased as the lipid to protein ratios were increased. The $\text{F}{}_{681}\text{F}{}_{697}$ ratios of LHCP-liposomes were found to behave similarly. Light excitation of chlorophyll b at 475 nm stimulated emission from both the Photosystem II protein complex (F₆₈₅ and F₆₉₅) and the P-700-chlorophyll a-protein complex (F₇₃₅) when LHCP was reconstituted with either of these complexes, demonstrating energy transfer between LHCP and PS I or II complexes in liposomes. No evidence was found for energy transfer from the PS II complex to the P-700-chlorophyll a-protein complex reconstituted in the same proteoliposome preparation. Proteoliposome preparations containing all three chlorophyll-protein complexes showed fluorescence emission at 685, 700 and 735 nm.