New method for the characterization of the microbial growth in carrageenan gel

A method for the analysis of distributed growth of E. coli in k-carrageenan gel is described. The method uses optical and electron microscopy to determine morphometric data of cell microcolonies in the gel, such as average microcolony volume, distance of microcolonies to gel surface and cell density in the microcolonies. Logarithmic equations describing the distribution of authentic values of volume occupied by cells in gels at different times of incubation were determined. With these equations it is possible to predict the quantitative distribution of cells in the gel and to define some parameters. These parameters can characterize the growth behaviour of the microbial strains in any particular culture condition and can be useful in the future search to improve the industrial applications of immobilized cells.     

Detecting spatial aggregation from distance sampling: a probability distribution model of nearest neighbor distance

Spatial point pattern is an important tool for describing the spatial distribution of species in ecology. Negative binomial distribution (NBD) is widely used to model spatial aggregation. In this paper, we derive the probability distribution model of event-to-event nearest neighbor distance (distance from a focal individual to its n-th nearest individual). Compared with the probability distribution model of point-to-event nearest neighbor distance (distance from a randomly distributed sampling point to the n-th nearest individual), the new probability distribution model is more flexible. We propose that spatial aggregation can be detected by fitting this probability distribution model to event-to-event nearest neighbor distances. The performance is evaluated using both simulated and empirical spatial point patterns.     

Distribution ofAcer palmatum seedlings under the crown of the maternal tree

To investigate the relationship between crown width of a parent plant and seedling distribution, seedling ages and sizes, and their distances from the maternal tree were surveyed under a maple (Acer palmatum) crown at Chungdam Park, Chungdam-dong, Kangnam-gu, Seoul, in 1998. Maple crown width increased 33.0 cm per year during the eight-year study. Seedlings ranged from 1 to 10 years old; their density was highest the third year, and decreased with age. Seedling-distribution ranges from the parent plant were 43 cm to 487 cm, and seedling density was highest at the border of the parent plant canopy. One-year-old seedlings were distributed broadly, but the main distribution areas became more distant from the maternal plant with seedling age. Seedling heights increased with age; differences between two consecutive ages were significant at the 0.1% level for ages less than 5 years, but not for over 6 years. For seedlings of the same age, heights were similar, but short under the tree crown, but were varied and taller outside the crown. The variation in seedling height increased with age and distance from the parent plant In particular, seedlings older than 5 years that were distributed outside the crown showed conspicuous variations among distance classes. Therefore, maple seedlings were distributed to an appropriate distance at which their growth could be supported by the understory-light environment. This study demonstrated that newA. palmatum trees are not recruited from the seedlings growing beneath the crown but from those that grow vigorously outside the crown.     

武汉市城区苔藓植物多样性和分布及与环境因子的关系

对武汉市7个中心城区和部分远郊城区共26个样点73个样地的苔藓群落进行调查,采集苔藓植物样本共431份。经鉴定调查区内共有苔藓植物20科35属91种,其中狭叶小羽藓（Haplocladium angustifolium（Hampe et C.Muell.）Broth.）和钝叶绢藓（Entodon obtusatus Broth.）等为优势种,分布于其中的24个样点。多样性指数分析结果显示,位于青龙山国家森林公园的α多样性Patrick和Shannon-Wiener指数最高,说明该样点苔藓植物群落的复杂程度高,群落所含信息量大。Patrick指数与环境因子的Pearson相关性分析结果显示,土壤含水率和与主要干道距离是显著影响地面生苔藓植物多样性的环境因子,而显著影响树附生苔藓植物多样性的环境因子仅与距主要干道距离相关。用典范对应分析法（CCA）研究26个样点中苔藓植物的盖度与主要环境因子的关系,结果发现人为干扰程度、草本盖度、与城市主要干道的距离等对地面生和树附生苔藓植物的分布都有显著影响。其中地面生苔藓植物的分布受人为干扰和草本盖度影响最为显著;而树附生苔藓植物的分布受附生树干胸径及与主要干道距离影响最为显著。研究结果表明武汉市区苔藓植物的多样性和分布受人为干扰较大,树附生苔藓对汽车尾气等因素更为敏感。     

Real-time definition of non-randomness in the distribution of genomic events

Features such as mutations or structural characteristics can be non-randomly or non-uniformly distributed within a genome. So far, computer simulations were required for statistical inferences on the distribution of sequence motifs. Here, we show that these analyses are possible using an analytical, mathematical approach. For the assessment of non-randomness, our calculations only require information including genome size, number of (sampled) sequence motifs and distance parameters. We have developed computer programs evaluating our analytical formulas for the real-time determination of expected values and p-values. This approach permits a flexible cluster definition that can be applied to most effectively identify non-random or non-uniform sequence motif distribution. As an example, we show the effectivity and reliability of our mathematical approach in clinical retroviral vector integration site distribution.     

Predicting root size and frequency from one-dimensional consolidation data — A mathematical model

Summary An implicit relationship between root size and soil reaction to root growth pressure is developed for a cohesionless soil from data of one-dimensional consolidation tests. The mathematical model employed describes a phenomenological procedure of relating root size and root frequency to soil mechanical parameters. The model is based on: (i) a simplification of the observed dependency of void ratio on compression pressure, and (ii) the assumption of an inverse relationship over the domain of root influence between the radial stress and the distance from the axis of the root. As radial expansion of a root proceeds, three successive and mathematically distinct stages of root growth are recognized in a preconsolidated soil. Relationships between root growth pressure and root size were computed for various combinations of bulk density, preconsolidation pressure, and values of the compression index in and beyond the range of preconsolidation. Root frequencies were calculated for a number of hypothetical situations assuming a hexagonal network of evenly distributed roots. Agronomy Paper No.844, Department of Agronomy, Cornell University.     

Global distribution of Polaromonas phylotypes--evidence for a highly successful dispersal capacity

Bacteria from the genus Polaromonas are dominant phylotypes in clone libraries and culture collections from polar and high-elevation environments. Although Polaromonas has been found on six continents, we do not know if the same phylotypes exist in all locations or if they exhibit genetic isolation by distance patterns. To examine their biogeographic distribution, we analyzed all available, long-read 16S rRNA gene sequences of Polaromonas phylotypes from glacial and periglacial environments across the globe. Using genetic isolation by geographic distance analyses, including Mantel tests and Mantel correlograms, we found that Polaromonas phylotypes are globally distributed showing weak isolation by distance patterns at global scales. More focused analyses using discrete, equally sampled distances classes, revealed that only two distance classes (out of 12 total) showed significant spatial structuring. Overall, our analyses show that most Polaromonas phylotypes are truly globally distributed, but that some, as yet unknown, environmental variable may be selecting for unique phylotypes at a minority of our global sites. Analyses of aerobiological and genomic data suggest that Polaromonas phylotypes are globally distributed as dormant cells through high-elevation air currents; Polaromonas phylotypes are common in air and snow samples from high altitudes, and a glacial-ice metagenome and the two sequenced Polaromonas genomes contain the gene hipA, suggesting that Polaromonas can form dormant cells.     

Non-destructive measurement of wheat roots in large undisturbed and repacked clay soil cores

Summary Non-destructive observations of root growth and distribution can be obtained from counting root intercepts with observation tubers inserted in the root zone. This paper describes the technique of inserting clear acrylic tubes horizontally into large undisturbed and repacked soil cores. Counts of roots intersecting scribed lines on the sides of the tubes were made with a fibrescope. Comparison was made between observation root tubes of different diameter (25 and 38.5 mm).The r² values for the relationships between root intercept counts and destructively determined values of root length density (RLD) ranged from 0.78 to 0.96. The larger diameter tubes had higher r² values. Theoretical calibration of the technique does not appear to be possible since analysis indicated that fewer roots intersected the scribed lines on the observation tube than would have been expected from a non-disturbed, randomly distributed root system. It is not known if this discrepancy is due to non-randomness or to an artifact associated with the insertion of the observation tube. Roots were not more prolific at the edge of the soil cores. Comparison of values of root length per unit soil surface area, rates of downward root growth and water uptake rates were within the ranges previously reported for wheat roots of field crops grown on clay soils. Observed root growth and distribution was found to be sensitive to four soil and water treatments imposed. It is concluded that the technique will allow quantitative analysis of root growth and distribution in undisturbed soil cores.     

Influence of the exclusion distance among trees on gap fraction and foliage clumping index of forest plantations

Key message

A hypergeometric model is proposed explicitly instead of two previous stochastic models (the Poisson model and Neyman-A model) to describe the topological relationship of trees and the influence of the exclusion distance on gap fraction and clumping index of forest plantation canopies.

Abstract

Gap fraction (GF) and clumping index (CI) play key roles in plant light interception, and therefore they have strong impacts on plant growth and canopy radiative transfer processes. Trees are usually assumed to be randomly distributed in natural forests in many previous studies. However, few studies have shown how trees are distributed in forest plantations and how these distribution patterns affect GF and CI in these forests. In this paper, a simple and general distance factor defined as relative allowable shortest distance between centers of two adjacent crowns divided by the mean diameter of the crowns (RASD) is proposed to describe quantitatively the degree of mutual exclusion among trees in forest plantations of various tree distribution patterns. A hypergeometric model is proposed instead of two previous stochastic tree distribution models (the Poisson model and Neyman-A model) to describe the topological relationship of trees and the influences of the exclusion distance on the GF and CI of the forest plantation canopies. The results show that: (1) the hypergeometric model is more suitable than the Poisson model and Neyman-A model for describing the topological relationship of trees in forest plantations; (2) the exclusion distance has strong impacts on GF and CI: there are significant differences between the results of the hypergeometric model and the Poisson model. Larger RASD causes lower GF and larger CI. The simulations are verified by field measurements in four forest plantation stands. Similarly, impacts of RASD on GF and CI are also found for other two crown shapes (prolate and oblate ellipsoids).

     

气候变化对中国近海8种中上层鱼类潜在生境分布的影响

随着底层和近底层渔业资源的衰退,海洋中上层鱼类在我国海洋捕捞业中逐渐占据重要的地位。预测气候变化情景下中上层经济鱼类的潜在生境分布及其变化规律,可为应对气候变化的鱼类栖息地保护和渔业生态系统管理提供重要科学依据。采用物种分布模型模拟并预测现状及2050年两种气候变化情景下8种中上层经济鱼类在中国近海的潜在分布,通过分布区的收缩-扩张情形和质心迁移距离定量分析气候变化对鱼类空间分布格局的影响。结果表明：(1)模型预测结果良好,各组模型的AUC值均高于0.85,影响目标鱼类潜在分布的主要驱动因子为海水表层温度和溶解氧;(2)8种中上层经济鱼类中,羽鳃鲐(Rastrelliger kanagurta)、鳓鱼(Ilisha elongata)等种类生境分布偏南,气候变化情景下分布北界可扩展至长江口,而鳀鱼(Engraulis japonicus)、青鳞小沙丁鱼(Sardinella zunasi)等种类主要分布在我国北方海域,气候变化情景下生境南缘边界退缩明显;(3)整体来看RCP8.5情景下的空间分布变化率大于RCP2.6情景,其中蓝圆鲹(Decapterus maruadsi)、青鳞小沙丁...     

The size distribution of human hematogenous metastases.

The development of primary cancers and their subsequent metastases occur through a complex sequence of discrete steps. A hypothesis is proposed here whereby the time available for the growth of metastases is normally distributed, presumably as a consequence of the summation of multiple independently distributed time intervals from each of the steps and of the Central Limit Theorem. For exponentially growing metastases, the corresponding size distribution would be lognormal; Gompertzian growth would imply a modified (Gompertz-normal) distribution, where larger metastases would occur less frequently as a consequence of a decreased growth rate. These two size distributions were evaluated against 18 human autopsy cases where precise size measurements had been collected from over 3900 macroscopic hematogenous organ metastases. The lognormal distribution provided an approximate agreement. Its main deficiency was a tendency to over-represent metastases greater than 10 mm diameter. The Gompertz-normal distribution provided more stringent agreement, correcting for this over-representation. These observations supported the hypothesis of normally distributed growth times, and qualified the utility of the lognormal and Gompertz-normal distributions for the size distribution of metastases.     

Phylogenetic and kinetic diversity of aerobic vinyl chloride-assimilating bacteria from contaminated sites

Aerobic bacteria that grow on vinyl chloride (VC) have been isolated previously, but their diversity and distribution are largely unknown. It is also unclear whether such bacteria contribute to the natural attenuation of VC at chlorinated-ethene-contaminated sites. We detected aerobic VC biodegradation in 23 of 37 microcosms and enrichments inoculated with samples from various sites. Twelve different bacteria (11 Mycobacterium strains and 1 Nocardioides strain) capable of growth on VC as the sole carbon source were isolated, and 5 representative strains were examined further. All the isolates grew on ethene in addition to VC and contained VC-inducible ethene monooxygenase activity. The Mycobacterium strains (JS60, JS61, JS616, and JS617) all had similar growth yields (5.4 to 6.6 g of protein/mol), maximum specific growth rates (0.17 to 0.23 day(-1)), and maximum specific substrate utilization rates (9 to 16 nmol/min/mg of protein) with VC. The Nocardioides strain (JS614) had a higher growth yield (10.3 g of protein/mol), growth rate (0.71 day(-1)), and substrate utilization rate (43 nmol/min/mg of protein) with VC but was much more sensitive to VC starvation. Half-velocity constant (K(s)) values for VC were between 0.5 and 3.2 micro M, while K(s) values for oxygen ranged from 0.03 to 0.3 mg/liter. Our results indicate that aerobic VC-degrading microorganisms (predominantly Mycobacterium strains) are widely distributed at sites contaminated with chlorinated solvents and are likely to be responsible for the natural attenuation of VC.     

Organization of Ryanodine Receptors, Transverse Tubules, and Sodium-Calcium Exchanger in Rat Myocytes

Confocal and total internal reflection fluorescence imaging was used to examine the distribution of caveolin-3, sodium-calcium exchange (NCX) and ryanodine receptors (RyRs) in rat ventricular myocytes. Transverse and longitudinal optical sectioning shows that NCX is distributed widely along the transverse and longitudinal tubular system (t-system). The NCX labeling consisted of both punctate and distributed components, which partially colocalize with RyRs (27%). Surface membrane labeling showed a similar pattern but the fraction of RyR clusters containing NCX label was decreased and no nonpunctate labeling was observed. Sixteen percent of RyRs were not colocalized with the t-system and 1.6% of RyRs were found on longitudinal elements of the t-system. The surface distribution of RyR labeling was not generally consistent with circular patches of RyRs. This suggests that previous estimates for the number of RyRs in a junction (based on circular close-packed arrays) need to be revised. The observed distribution of caveolin-3 labeling was consistent with its exclusion from RyR clusters. Distance maps for all colocalization pairs were calculated to give the distance between centroids of punctate labeling and edges for distributed components. The possible roles for punctate NCX labeling are discussed.     

DNA values in somatic tissues of Dermestes (Dermestidae: Coleoptera)

The distribution of DNA values in some somatic tissues of seven Dermestes species has been investigated. In all cases the DNA values are distributed as members of a doubling series. Distributions are found to be similar between species and sexes for the same tissue but different between tissues in the same species. Species DNA values derived from somatic tissues agree with DNA values previously determined for spermatids. These data are discussed in relation to the range of species DNA values (2.7 x) and the process of differentiation.     

二点叶蝉自然种群的时空动态

选择受密度影响较小的负二项分布K值 ,描述玉米上二点叶蝉自然种群在 3个海拔高度上的空间格局及时序动态。在玉米生育期间 ,二点叶蝉种群即可作聚集分布亦可作均匀分布。 4月中下旬 ,二点叶蝉种群呈均匀分布 (K <0 ) ;5月份 ,呈聚集分布 (K >0 ) ;6月上中旬呈均匀分布 (K <0 ) ;6月下旬至 7月上旬呈聚集分布 (K >0 ) ,表现为扩散→聚集→再扩散→再聚集的总趋势。K值亦表明 ,5月份高海拔聚集强度最高 ,6月下旬至 7月上旬则低海拔的聚集强度最高。根据Taylor的幂函数法和Iwao的M -X回归方程的系数 ,高、中海拔的聚集强度大于低海拔     

On the problem of measuring the distance between distribution functions: analysis of hospitalization versus mortality

The relationship between hospitalization, as a measure of morbidity, and mortality is examined. The difference between age at hospitalization in a general medical department and age at death in Oslo, Norway, is studied. The problem is transferred to the one of examining the difference between two cumulative distribution functions F and G. For this purpose, a quantile distance function based on the inverses of the distribution functions is applied. We give the natural estimate of the quantile distance function, and some asymptotic properties of the corresponding empirical process. For the particular situation where one of the distribution functions is known, a confidence band for the quantile distance function is derived. Applying these results, we show that there are reasons to believe that age at hospitalization and age at death are equally distributed, apart from a constant shift.     

木兰属五种珍贵、稀有植物的生态特性分析

本文通过对黄山木兰、天目木兰、宝华玉兰、小花木兰和凹叶厚朴五种珍贵、稀有木兰属植物的野外调查、引种栽培、幼树生长特性的观测以及植物体元素组成和土壤性质的分析,初步总结了它们的地理分布、幼树生长规律、气候和土壤适应性及其生长过程中矿质元素的吸收和循环等。为保护和发展这几种珍贵、稀有植物提供了科学依据。     

Dissimilarity of stream insect assemblages: effects of multiple scales and spatial distances

In addition to the effects of environmental conditions, biotic assemblages may exhibit spatial structure depending on the scale of study. We tested whether the dissimilarity of stream insect assemblages is related to two types of spatial distances (stream corridor and overland distance), and evaluated the relative importance of diversity components at multiple spatial scales. Field data included assemblages of Ephemeroptera, Plecoptera, and Trichoptera found in 16 streams in four microbasins. We evaluated the relationship of the dissimilarity of assemblages with the distance types, using Mantel tests. In addition, we evaluated the relationships among the diversity components at multiple spatial scales, using additive partitioning analysis. The biological dissimilarities were correlated only with the geographical distances. Additive partitioning showed that the values of richness observed in the β1 (among Surber), β2 (among riffles), β3 (among streams), and β4 (among microbasins) were higher than those expected. The highest variation of the richness was found in β3 (30.6%). We conclude that stream faunas are distributed in patches all over the studied spatial extent, causing a weak relationship of biological dissimilarity with distance but important beta components when compared to a completely homogenous distribution of the fauna.     

The ripple phase of phosphatidylcholines: effect of chain length and cholesterol

Saturated phosphatidylcholine (PC) bilayers display a rippled surface in the temperature region between the pre- and main transitions. Ripple repeat distance was measured from freeze-fracture electron micrographs. All of the lipids examined (C13PC to C16PC; C14C16PC and equimolar C14PC/C16PC) showed a bimodal distribution of ripple repeat distances with the two dominant values being in the ratio of 1:2. Within this series, chain length was a weak determinant of the actual repeat distance. The introduction of increasing concentrations of cholesterol eliminated the bimodal distribution and led to the appearance of a single distribution of increasing repeat distance and decreasing amplitude. Ripples disappeared above a cholesterol concentration of 15 mol%. These observations are discussed within the framework of a model which links the genesis of the ripples (vertical displacement of lipid molecules) to the trans-gauche isomerization known to occur at the pre-transition.