A stochastic model to analyze clonal data on multi-type cell populations

This article presents a stochastic model designed to analyze experimental data on the development of cell clones composed of two (or more) distinct types of cells. The proposed model is an extension of the traditional multi-type Bellman-Harris branching stochastic process allowing for nonidentical time-to-transformation distributions defined for different cell types. A simulated pseudo likelihood method has been developed for the parametric statistical inference from experimental data on cell clones under the proposed model. The method uses simulation-based approximations of the means and the variance-covariance matrices of cell counts. The proposed estimator for the vector of unknown parameters is strongly consistent and asymptotically normal under mild regularity conditions, while its variance-covariance matrix is estimated by the parametric bootstrap. A Monte Carlo Wald test is proposed for the test of hypotheses. Finite sample properties of the estimator have been studied by computer simulations. The model and associated methods of parametric inference have been applied to the analysis of proliferation and differentiation of cultured O-2A progenitor cells that play a key role in the development of the central nervous system. It follows from this analysis that the time to division of the progenitor cell and the time to its differentiation (into an oligodendrocyte) are not identically distributed. This biological finding suggests that a molecular event determining the type of cell transformation is more likely to occur at the start rather than at the end of the mitotic cycle.     

Surface labelling of oligodendrocytes with anti-myelin serum in cell cultures from the rat brain

Summary Antiserum produced in rabbits against purified myelin contains antibodies that bind to the surface of cells having multiple branched processes in live cultures of cerebral hemispheres of newborn rats. The identity of these cells was determined by double immunolabelling experiments with other specific antigenic markers (W1 Wolfgram protein, myelin basic proteins, glial fibrillary acidic protein). It was demonstrated that the cells are a subclass of oligodendrocytes which have reached a certain degree of maturation; nearly all of them contain basic proteins. Indeed, a number of oligodendrocytes, that contain the W 1 protein, and may or may not have processes, are not surface-labelled in similar conditions. The usefulness of such an anti-myelin serum in the isolation of pure oligodendrocytes is discussed.J.L.N. is Chargé de Recherche au CNRSDirector: Professor Guy Vincendon     

An alternative stochastic model of generation of oligodendrocytes in cell culture

According to our previous model, oligodendrocyte – type 2 (O-2A) astrocyte progenitor cells become competent for differentiation in vitro after they complete a certain number of critical mitotic cycles. After attaining the competency to differentiate, progenitor cells divide with fixed probability p in subsequent cycles. The number of critical cycles is random; analysis of data suggests that it varies from zero to two. The present paper presents an alternative model in which there are no critical cycles, and the probability that a progenitor cell will divide again decreases gradually to a plateau value as the number of completed mitotic cycles increases. In particular all progenitor cells have the ability to differentiate from the time of plating. The Kiefer-Wolfowitz procedure is used to fit the new model to experimental data on the clonal growth of purified O-2A progenitor cells obtained from the optic nerves of 7 day old rats. The new model is shown to fit the experimental data well, indicating that it is not possible to determine whether critical cycles exist on the basis of these experimental data. In contrast to the fit of the previous model, which suggested that the addition of thyroid hormone increased the limiting probability of differentiation as the number of mitotic cycles increases, the fit of the new model suggests that the addition of thyroid hormone has almost no effect on the limiting probability of differentiation. Received: 6 March 2000 / Revised version: 18 September 2000 / Published online: 30 April 2001     

Estimating the mode of growth of individual microbial cells from cell volume distributions

Two new methods are derived for inferring the mode of growth of individual microbial cells from measurements made of the volume distributions of populations. One is based on statistics of the observed distribution and has the particular advantage that it is very easy to use. The second, which requires gradient centrifugation, yields the mode of growth directly, rather than by comparison with theoretically derived distributions. Both methods have been found to be more sensitive than those previously suggested.     

The cellular parameters of leaf development in tobacco: a clonal analysis

The cellular parameters of leaf development in tobacco (Nicotiana tabacum L.) have been characterized using clonal analysis, an approach that provides unequivocal evidence of cell lineage. Our results indicate that the tobacco leaf arises from a group of around 100 cells in the shoot apical meristem. Each of these cells contributes to a unique longitudinal section of the axis and transverse section of the lamina. This pattern of cell lincage indicates that primordial cells contribute more or less equally to the growth of the axis, in contrast to the more traditional view of leaf development in which the leaf is pictured as arising from a group of apical initials. Clones induced prior to the initiation of the lamina demonstrate that the subepidermal layer of the lamina arises from at least six files of cells. Submarginal cells usually divide with their spindles parallel to the margin, and therefore contribute relatively little to the transverse expansion of the lamina. During the expansion of the lamina the orientation and frequency of cell division are highly regulated, as is the duration of meristematic growth. Initially, cell division is polarized so as to produce lineages that are at an oblique angle to the midrib; later cell division is in alternating perpendicular planes. The distribution of clones generated by irradiation at various stages of development indicates that cell division ceases at the tip of the leaf when the leaf is about one tenth its final size, and then ceases in progressively more basal regions of the lamina. Variation in the mutation frequency within the lamina reflects variation in the frequency of mitosis. Prior to the mergence of the leaf the frequency of mutation is maximal near the tip of the leaf and extremely low at its base; after emergence, the frequency of mutation increases at the base of the leaf. In any given region of the lamina the frequency of mutation is highest in interveinal regions, and is relatively low near the margin. Thus, both the orientation and frequency of cell division at the leaf margin indicate that this region plays a minor role in the growth of the lamina.Abbreviation MF mutation frequency     

Estimation of the mean function with panel count data using monotone polynomial splines

We study nonparametric likelihood-based estimators of the meanfunction of counting processes with panel count data using monotonepolynomial splines. The generalized Rosen algorithm, proposedby Zhang & Jamshidian (2004), is used to compute the estimators.We show that the proposed spline likelihood-based estimatorsare consistent and that their rate of convergence can be fasterthan n^1/3. Simulation studies with moderate samples show thatthe estimators have smaller variances and mean squared errorsthan their alternatives proposed by Wellner & Zhang (2000).A real example from a bladder tumour clinical trial is usedto illustrate this method.     

Channel expression correlates with differentiation stage during the development of oligodendrocytes from their precursor cells in culture

Membrane currents in cultured murine oligodendrocytes and their precursors were characterized using the patch-clamp technique. Prior to recording, cells were identified by immunofluorescence using monoclonal antibodies characteristic of two types of precursor cells and two differentiation stages of oligodendrocytes. The most immature, A2B5 antigen-positive glial precursors, expressed four types of voltage-activated K+ currents and tetrodotoxin-sensitive Na+ currents. The more differentiated cells, O4 antigen-positive glial precursors, expressed similar K+ currents, but Na+ currents were recorded in only a minority of cells. In differentiated O1 and O10 antigen-positive oligodendrocytes the channels characteristic of precursor cells were no longer observed, but an inwardly rectifying K+ current was apparent. Thus, channel expression by cells of the oligodendrocyte lineage correlates with differentiation stage and is more complex in precursor cells than in oligodendrocytes.     

Screening of larval/pupal P-element induced lethals on the second chromosome in Drosophila melanogaster : clonal analysis and morphology of imaginal discs

We have carried out screens for lethal mutations on the second chromosome of Drosophila melanogaster that are associated with abnormal imaginal disc morphologies, particularly in the wing disc. From a collection of 164 P element-induced mutations with a late larva/pupa lethal phase we have identified 56 new loci whose gene products are required for normal wing disc development and for normal morphology of other larval organs. Genetic mosaics of these 56 mutant lines show clonal mutant phenotypes for 23 cell-viable mutations. These phenotypes result from altered cell parameters. Causal relationships between disc and clonal phenotypes are discussed. Received: 19 June 1997 / Accepted: 4 August 1997     

Computer Simulation of the Film Growth Process on the Two-Dimensional Penrose Pattern

Abstract

We performed computer simulation of the film growth process on the two-dimensional (2D) Penrose pattern, which is considered a typical structural model of quasicrystal. The atomistic structure of the deposited atoms was obtained as a function of time under various conditions of atomic binding energy, temperature and deposition rate. The Monte Carlo method based upon the solid-on-solid model was utilized for the present calculation. We found a geometrical restriction on the growth front of grains in the 2D Penrose pattern, which is also expected for the growth of an actual quasicrystal.     

Effects of soil properties and clonal growth on the apparent sex ratio of the flowering stems of the dioecious clonal shrub Aucuba japonica var. borealis growing in an evergreen coniferous secondary forest

In dioecious plants, the frequencies of flowering stems in each sex produced through clonal growth provide important information on the potential for reproductive success in the populations. However, apart from the light environment in their habitat, the factors affecting the flowering of each sex have not been well documented in shrub species that can maintain their populations in shady environments. In this research, we investigated seven soil variables and the flowering of stems of Aucuba japonica var. borealis in patches of this dioecious clonal shrub with different apparent stem sex ratios in an evergreen coniferous secondary forest with a shady forest floor. Of the 53 patches examined, 52 contained stems with flowers. Flowering stem ratios exhibited a positive relationship with available soil phosphate but a marginal negative relationship with exchangeable magnesium, whereas soil water content was associated with a female-biased flowering sex ratio. Stem density tended to be negatively related to flowering stem ratios in patches containing stems with female flowers but not males. While the results demonstrate that abundant amounts of certain nutrients and moisture in soils promote the production of flowers and/or a bias toward femaleness in patches, it is suggested that antagonistic effects of cations in the soil can inhibit the flowering of both sexes. In addition, the trade-off between sexual reproduction and clonal propagation in the females may amplify the variations in flowering in the population.     

Effects of different sterols on the inhibition of cell culture growth caused by the growth retardant tetcyclacis

Cell division in cell suspension cultures can be completely blocked by the growth retardant tetcyclacis at a concentration of 10^-4 mol l^-1. In rice cells it has been demonstrated that the growth inhibition can be completely overcome by application of cholesterol independent of the duration of pretreatment with tetcyclacis. In suspension cultures of maize and soybean, too, the effect of tetcyclacis on cell division was neutralized by adding cholesterol. Other plant sterols, stigmasterol, campesterol and sitosterol were active in a decreasing order. Modifications in the cholesterol perhydro-cyclopentanophenanthrene-ring system indicate that the hydroxyl group at C-3 and the double bond between C-5 and C-6 in ring B are required for the activity. In contrast, gibberellic acid as well as ent-kaurenoic acid could not compensate retardant effects. Likewise, tetcyclasis did not change the level of gibberellins in rice cells as shown by radioimmunoassay. Thus, it is concluded that in cell suspension cultures sterols play a more important role in cell division than gibberellins.Abbreviation GA_x gibberelin A_x     

Growth of clonal modules on <i>Agropyron michnoi</i> in the Songnen Plain of Northeast China

Spatial expansion of clonal plants and growth of their modules are of concern in the field of plant ecology. After measuring a large number of samples, we analyzed the module components and the growth patterns of vegetatively propagated Agropyron michnoi clones in the Songnen Plain on Northeast China. The results showed that the plasticity of clonal growth was large; the coefficients of variation of both extensive areas and the quantitative characters of modules were more than 20%. The numbers of ramets, seedlings, and buds and the cumulative length of the rhizomes showed exponentially and linearly increasing patterns with increases of the area and the total number of modules. The biomass of each module, total number of modules and total biomass showed an allometric growth pattern, which was best described by power functions. For A. michnoi, there was a relatively stable investment to sexual reproduction; it showed a priority for allocating biomass to reproductive ramets, and also to rhizomes and buds formation.     

Effects of simulated root herbivory and fertilizer application on growth and biomass allocation in the clonal perennialSolidago canadensis

Summary Compensatory growth in response to simulated belowground herbivory was studied in the old-field clonal perennialSolidago canadensis. We grew rootpruned plants and plants with intact root systems in soil with or without fertilizer. For individual current shoots (aerial shoot with rhizome and roots) and for whole clones the following predictions were tested: a) root removal is compensated by increased root growth, b) fertilizer application leads to increased allocation to aboveground plant organs and increased leaf turnover, c) effects of fertilizer application are reduced in rootpruned plants. When most roots (90%) were removed current shoots quickly restored equilibrium between above-and belowground parts by compensatory belowground growth whereas the whole clone responded with reduced aboveground growth. This suggests that parts of a clone which are shared by actively growing shoots act as a buffer that can be used as source of material for compensatory growth in response to herbivory. Current shoots increased aboveground mass and whole clones reduced belowground mass in response to fertilizer application, both leading to increased allocation to aboverground parts. Also with fertilizer application both root-pruned and not root-pruned plants increased leaf and shoot turnover. Unfertilized plants, whether rootpruned or not, showed practically no aboveground growth and very little leaf and shoot turnover. Effects of root removal were as severe or more severe under conditions of high as under conditions of low nutrients, suggesting that negative effects of belowground herbivory are not ameliorated by abundant nutrients. Root removal may negate some effects of fertilizer application on the growth of current shoots and whole clones.     

新疆额尔齐斯河水系银鲫克隆多样性研究

银鲫（Carassius auratus gibelio Bloch）由于其独特的遗传背景和繁殖方式而成为研究进化遗传学和选择育种的一个独特的模式生物。到目前为止,我们对新疆额尔齐斯河水系银鲫群体的多样性状况一直知之甚少。为了更好地了解额尔齐斯河水系银鲫群体的克隆多样性状况,本研究中,我们采集了来自新疆额尔齐斯河水系的4个鲫鱼群体。通过流式细胞术分析血细胞样品,结果证实这些鲫鱼均为三倍体银鲫。通过血清转铁蛋白电泳表型分析,我们从这些银鲫群体中鉴定出总共8个不同的克隆。在这些鉴定的克隆中,有4个克隆(克隆A、J、M和S)同于以前鉴定的克隆,而另外的4个克隆是新发现的。克隆A和M分布最广,出现在所调查的4个群体中;克隆J出现在2个不同的群体中;其余的5个克隆中每个克隆均为单个群体所拥有。不同克隆在群体中的这种分布谱式可能反映了银鲫的各个克隆可在不同水体之间迁移以及同一克隆在不同水体中生存能力存在有差异。在取样的银鲫群体中,发现有一个群体的克隆多样性水平明显低于其他3个群体,而这后3个群体的克隆多样性水平是与已报道过的银鲫群体相似的。这一结果可能暗示着修建水利工程和过度捕捞等人类活动的不利影响。本研究所揭示的克隆多样性将有助于进化遗传学和选择育种研究。同时,也反映了保护额尔齐斯河水系银鲫克隆多样性的重要性。     

The effects of X-rays on the proliferation dynamics of cells in the imaginal wing disc ofDrosophila melanogaster

Summary We report on the size distribution of clones marked by mitotic recombination induced by several different doses of X-rays applied to 72 h oldDrosophila larvae. The results indicate that the radiation significantly reduces the number of cells which undergo normal proliferation in the imaginal wing disc. We estimate that 1000 r reduces by 40–60% the number of cells capable of making a normal contribution to the development of the adult wing. Part of this reduction is due to severe curtailment in the proliferative ability of cells which nevertheless remain capable of adult differentiation; this effect is possibly due to radiation-induced aneuploidy. Cytological evidence suggests that immediate cell death also occurs as a result of radiation doses as low as 100 r. The surviving cells are stimulated to undergo additional proliferation in response to the X-ray damage so that the result is the differentiation of a normal wing.     

Genetically different clonal isolates of Trichomonas gallinae, obtained from the same bird, can vary in their drug susceptibility, an in vitro evidence

Trichomonas gallinae is a flagellated protozoon which parasitizes in the upper digestive tract of different birds, especially columbiformes (doves and pigeons) and falconiformes. The parasite is also a common inhabitant of the crop of psittacine birds and is frequently detected in budgerigars. The lesions associated with T. gallinae infection of the upper digestive tract range from mild inflammation of the mucosa to large caseous lesions that block the lumen of the oesophagus. Nitroimidazoles are considered to be the drugs of choice for the treatment of trichomonosis. However, only a few studies report the existence of resistant strains of T. gallinae to these drugs. Thus, in the present investigation cloned cultures of T. gallinae obtained from budgerigars and pigeons were analysed for the first time for their in vitro susceptibilities against four 5′-nitroimidazole derivates, including metronidazole, dimetridazole, ronidazole and ornidazole. Significantly different minimal lethal concentrations (MLCs) were observed for them against all four drugs. The lowest MLCs revealed the Trichomonas isolates obtained from two budgerigars, ranging from 2.0 ± 0.3 to 3.0 ± 0.7 μg/ml for metronidazole and dimetridazole, and from 2.0 ± 0.6 to 6.7 ± 1.7 μg/ml for ornidazole and ronidazole. Contrary to this, the highest MLCs were recorded for one Trichomonas isolate obtained from a pigeon, ranging from 83.3 ± 6.7 (for dimetridazole and ronidazole) to 103.3 ± 3.3 μg/ml (for metronidazole and ornidazole). The data obtained for the resistance testing were further compared with already available genetic data of the small subunit rRNA gene sequences and ITS-1, 5.8S rRNA and ITS-2 sequences, indicating a certain correlation between in vitro results and strain relationships.