Quantitative assessment of human chromosomal polymorphism with regard to paracentromeric heterochromatin

The measurement of C-segment length in chromosomes 1, 9 and 16 of 7 individuals was carried out. The regression analysis was employed to study a change of the C-segment sizes in the process of mitotic chromosome condensation. Typical values of C-segment length for chromosomes 1, 9 and 16 are about 1.4, 1.1 and 0.8mu respectively. Among 7 individuals there was no two which had identical size of C-segments for all three chromosomes studied. In six individuals heteromorphysm of C-segments was revealed. It was found that visually detected heteromorphysm may be expressed quantitatively as ratio length of C-segments in homologous chromosomes.     

The quantitative analysis of polymorphism on human chromosomes 1, 9, 16 and Y

Summary The generalized characteristic of the C-segment lengths on chromosomes 1, 9, 16, and Y is suggested for a study of population heterogeneity. For this purpose, the concept of the distance D is introduced, taking into account the individual C-segment lengths, the mean lengths and standard deviations of C-segment lengths in a group of subjects, as well as the coefficients of correlation of the C-segment lengths on the said chromosomes.It is demonstrated that distance D may be employed to study the relevance of the given subject to the group studied, the relation to the mean characteristics within the group, and selection of subjects' pairs with almost identical C-segment lengths on respective chromosomes.In the study of such problems as zygosity of twins, family analysis, etc., along with the absolute C-segment lengths, it is recommended to employ the relative C-segment lengths on chromosomes 1, 9, 16, and Y, calculated as a part of the sum total of their absolute lengths.     

Relation between the size of C-segments and corresponding euchromatic regions of human chromosomes 1, 9 and 16 during their mitotic condensation

The nature of associations between the length of C-segments and the corresponding euchromatic regions of chromosomes 1, 9, and 16 in the process of their mitotic condensation has been studied. Their statistically significant linear nature in the range of chromosome 2 condensation from 11 to 4 micron has been established. Within the interval of 6.5-8.5 micron the above association is less significant, at the same time minimal variability of C-segment length is observed as compared to other stages of mitotic condensation. It is recommended to define the absolute size of C-segments in chromosomes 1, 9 and 16 by measuring their dimensions in metaphase plates with chromosome 2 length from 6.5 to 8.5 micron. The regressional correction of the results of C-segment measurements or approximation of values depending on the statistical significance of linear regression equation coefficient has been demonstrated.     

Characterization of signal that directs C-tail-anchored proteins to mammalian mitochondrial outer membrane

We analyzed the signal that directs the outer membrane protein with the C-terminal transmembrane segment (TMS) to mammalian mitochondria by using yeast Tom5 as a model and green fluorescent protein as a reporter. Deletions or mutations were systematically introduced into the TMS or the flanking regions and their intracellular localization in COS-7 cells was examined using confocal microscopy and cell fractionation. 1) Three basic amino acid residues within the C-terminal five-residue segment (C-segment) contained the information required for mitochondrial-targeting. Reduction of the net positive charge in this segment decreased mitochondrial specificity, and the mutants were distributed throughout the intracellular membranes. 2) Elongation of the TMS interfered with the function of the C-segment and the mutants were delivered to the intracellular membranes. 3) Separation of the TMS and C-segment by linker insertion severely impaired mitochondrial targeting function, leading to mislocalization to the cytoplasm. 4) Mutations or small deletions in the region of the TMS flanking the C-segment also impaired the mitochondrial targeting. Therefore, the moderate length of the TMS, the positive charges in the C-segment, and the distance between or context of the TMS and C-segment are critical for the targeting signal. The structural characteristics of the signal thus defined were also confirmed with mammalian C-tail-anchored protein OMP25.     

Comparative study of methods for the quantitative assessment of the C-segment size of human chromosomes

The possibilities of comparison and reproducibility of results of estimation of the absolute dimensions of chromosomal C-segments measured by different methods have been studied. The data obtained indicate good comparability of the results obtained by all the methods in a definite range of chromosome condensation. All the methods demonstrated satisfactory reproducibility of the results on chromosomes 1 and 9. The errors of the quantitative estimation of chromosome 16 in the coupled cultures is discussed in view of the artefact nature of C-segment size variability.     

A new method for detection of pfmdr1 mutations in Plasmodium falciparum DNA using real-time PCR

Background

The erythrocyte binding antigen-175 (EBA-175) on Plasmodium falciparum merozoites mediates sialic acid dependent binding to glycophorin A on host erythrocytes and, therefore, plays a crucial role in cell invasion. Dimorphic allele segments have been found in its encoding gene with a 342 bp segment present in FCR-3 strains (F-segment) and a 423 bp segment in CAMP strains (C-segment). Possible associations of the dimorphism with severe malaria have been analysed in a case-control study in northern Ghana.

Methods

Blood samples of 289 children with severe malaria and 289 matched parasitaemic but asymptomatic controls were screened for eba- 175 F- and C-segments by nested polymerase chain reaction.

Results

In children with severe malaria, prevalences of F-, C- and mixed F-/C-segments were 70%, 19%, and 11%, respectively. The C-segment was found more frequently in severe malaria cases whereas mixed infections were more common in controls. Infection with strains harbouring the C-segment significantly increased the risk of fatal outcome.

Conclusion

The results show that the C-segment is associated with fatal outcome in children with severe malaria in northern Ghana, suggesting that it may contribute to the virulence of the parasite.     

C-polymorphism of chromosomes 1, 9, 16 and Y in newborn infants of various gestational ages

Comparative evaluation of absolute C-segment lengths of chromosomes 1, 9, 16 and Y in new-born children of different gestational age has revealed no significant differences in their value between individuals with unfinished intrauterine development and those born in time.     

Translocation of a Bak C-terminus mutant from cytosol to mitochondria to mediate cytochrome C release: implications for Bak and Bax apoptotic function

Background

One of two proapoptotic Bcl-2 proteins, Bak or Bax, is required to permeabilize the mitochondrial outer membrane during apoptosis. While Bax is mostly cytosolic and translocates to mitochondria following an apoptotic stimulus, Bak is constitutively integrated within the outer membrane. Membrane anchorage occurs via a C-terminal transmembrane domain that has been studied in Bax but not in Bak, therefore what governs their distinct subcellular distribution is uncertain. In addition, whether the distinct subcellular distributions of Bak and Bax contributes to their differential regulation during apoptosis remains unclear.

Methodology/Principal Findings

To gain insight into Bak and Bax targeting to mitochondria, elements of the Bak C-terminus were mutated, or swapped with those of Bax. Truncation of the C-terminal six residues (C-segment) or substitution of three basic residues within the C-segment destabilized Bak. Replacing the Bak C-segment with that from Bax rescued stability and function, but unexpectedly resulted in a semi-cytosolic protein, termed Bak/BaxCS. When in the cytosol, both Bax and Bak/BaxCS sequestered their hydrophobic transmembrane domains in their hydrophobic surface groove. Upon apoptotic signalling, Bak/BaxCS translocated to the mitochondrial outer membrane, inserted its transmembrane domain, oligomerized, and released cytochrome c. Despite this Bax-like subcellular distribution, Bak/BaxCS retained Bak-like regulation following targeting of Mcl-1.

Conclusions/Significance

Residues in the C-segment of Bak and of Bax contribute to their distinct subcellular localizations. That a semi-cytosolic form of Bak, Bak/BaxCS, could translocate to mitochondria and release cytochrome c indicates that Bak and Bax share a conserved mode of activation. In addition, the differential regulation of Bak and Bax by Mcl-1 is predominantly independent of the initial subcellular localizations of Bak and Bax.     

C-polymorphism of chromosomes in men with azoospermia

Comparative evaluation of absolute C-segment lengths of chromosomes 1, 9, 16 and Y in 50 azoospermic males has revealed significant differences in chromosome 9 between 50 normal males. These results are considered as nonrandom in pathology of male gametogenesis.     

Heterochromatic regions on chromosomes 1, 9, 16, and Y in children with some disturbances occurring during embryo development

Some reduction of C-segment lengths and their variability on chromosomes 1, 9, 16, and Y was exhibited by children who had had some disturbances at early stages of morphogenesis. The data obtained might suggest a certain activity of the heterochromatic regions during embryo development. Based on this data one may also suppose that reduction of the amount of heterochromatin might affect the normal morphogenetic processes.     

Segmental isotope-labeling of the intrinsically disordered protein PQBP1

Polyglutamine tract-binding protein 1 (PQBP1) is an intrinsically disordered protein abundantly expressed in the brain. Mutations in the PQBP1 gene are causative for X-linked mental retardation disorders. Here, we investigated the structure of the C-terminal segment within the context of full-length PQBP1. We produced a segmentally isotope-labeled PQBP1 composed of a non-labeled segment (residues 1–219; N-segment) and a ¹³C/¹⁵N-labeled segment (residues 220–265; C-segment). Our results demonstrate that the segmental isotope-labeling combined with NMR spectroscopy is useful for detecting a very weak intra-molecular interaction in an intrinsically disordered protein.     

Properties of transposon Tn2555 carrying the genes for sucrose utilization

Tn2555, a new transposon coding for genes of sucrose utilization was studied. Tn2555 was shown to integrate into the plasmids RP4 and R6K, phage P1CmClr100 and Escherichia coli K12 chromosome. Tn2555 frequency of transposition to RP4 and R6K DNA is (2-5) X 10(-7) in Rec+-strain, (3-6) X 10(-8) in Rec--strain. Tn2555 integration site in phage P1CmClr100 Sac+-derivative studied has been localised within the C-segment of P1 DNA. In three independent cases of Tn2555 transposition to the chromosome the transposon was found to be integrated in the region between 29 and 32 min of Escherichia coli K12 linkage map. The restriction endonuclease analysis of seven independent isolates of RP4::Tn2555 has shown the grouping of Tn2555 integration sites in the Tn1 region of RP4. Frequent rearrangements occurring within Tn2555 have been revealed by the analysis. However, an invertible DNA segment of about 6-7 kb was preserved in all transposon structures.     

pH-responsive three-layered PEGylated polyplex micelle based on a lactosylated ABC triblock copolymer as a targetable and endosome-disruptive nonviral gene vector

Nonviral vectors for gene therapy have recently received an increased impetus because of the inherent safety problems of the viral vectors, while their transfection efficiency is generally low compared to the viral vectors. The lack of the ability to escape from the endosomal compartments is believed to be one of the critical barriers to the intracellular delivery of noviral gene vectors. This study was devoted to the design and preparation of a novel ABC triblock copolymer for constructing a pH-responsive and targetable nonviral gene vector. The copolymer, lactosylated poly(ethylene glycol)-block-poly(silamine)-block-poly[2-(N,N-dimethylamino)ethyl methacrylate] (Lac-PEG-PSAO-PAMA), consists of lactosylated poly(ethylene glycol) (A-segment), a pH-responsive polyamine segment (B-segment), and a DNA-condensing polyamine segment (C-segment). The Lac-PEG-PSAO-PAMA spontaneously associated with plasmid DNA (pDNA) to form three-layered polyplex micelles with a PAMA/pDNA polyion complex (PIC) core, an uncomplexed PSAO inner shell, and a lactosylated PEG outer shell, as confirmed by 1H NMR spectroscopy. Under physiological conditions, the Lac-PEG-PSAO-PAMA/pDNA polyplex micelles prepared at an N/P (number of amino groups in the copolymer/number of phosphate groups in pDNA) ratio above 3 were found to be able to condense pDNA, thus adopting a relatively small size (< 150 nm) and an almost neutral surface charge (zeta approximately +5 mV). The micelle underwent a pH-induced size variation (pH = 7.4, 132.6 nm --> pH = 4.0, 181.8 nm) presumably due to the conformational changes (globule-rod transition) of the uncomplexed PSAO chain in response to pH, leading to swelling of the free PSAO inner shell at lowered pH while retaining the condensed pDNA in the PAMA/pDNA PIC core. Furthermore, the micelles exhibited a specific cellular uptake into HuH-7 cells (hepatocytes) through asialoglycoprotein (ASGP) receptor-mediated endocytosis and achieved a far more efficient transfection ability of a reporter gene compared to the Lac-PEG-PSAO/pDNA and Lac-PEG-PAMA/pDNA polyplex micelles composed of the diblock copolymers and pDNA. The effect of hydroxychloroquine as an endosomolytic agent on the transfection efficiency was not observed for the Lac-PEG-PSAO-PAMA/pDNA polyplex micelles, whereas the nigericin treatment of the cell as an inhibitor for the endosomal acidification induced a substantial decrease in the transfection efficiency, suggesting that the protonation of the free PSAO inner shell in response to a pH decrease in the endosome might lead to the disruption of the endosome through buffering of the endosomal cavity. Therefore, the polyplex micelle composed of ABC (ligand-PEG/pH-responsive segment/DNA-condensing segment) triblock copolymer would be a promising approach to a targetable and endosome disruptive nonviral gene vector.     

A New Rapid On-Line Imaging Method to Determine Particle Size Distribution of Granules

The purpose of this research was to study the feasibility of the new image analysis method in the particle size determination of the granules. The method is capable of forming a three-dimensional topographic image of a sample surface from a digital picture. In the method, a flat granule bed surface was illuminated from three different directions, using the three primary colors (red, green, and blue). One color picture was taken by a digital camera, after which a topographic image of the object surface was constructed. The particle size distribution was then calculated from the image data. The particle size analysis method was tested both off-line and on-line. Off-line particle size measurement results determined by the image analysis method corresponded quite well to those of sieve analysis in the size fraction range 250–1,000 μm. In on-line application, images were successfully retrieved and median granule size trend could be calculated and followed during fluid bed granulations.     

An efficient purification and fractionation of genomic DNA from soil by modified troughing method

AIMS: The aim of this study was to utilize a modified troughing method for purification of large genomic DNA obtained from microbiota in natural environment and for fractionation of genomic DNA into many size ranges that facilitates construction of metagenomic library. METHODS AND RESULTS: Genomic DNA extracted from soil or termite gut was purified by the modified troughing method which utilized gel electrophoresis in the presence of 30% PEG8000. The method performed better than various purification kits and allowed no significant loss in the amount of DNA recovered. In addition, the efficiency of the modified troughing method for DNA size fractionation was investigated. DNA size fractionation was achieved with repetitive rounds of electrophoresis and DNA collection to obtain DNA with many size ranges. CONCLUSIONS: The modified troughing method is a simple and efficient method for purification of genomic DNA and for DNA size fractionation. SIGNIFICANCE AND IMPACT OF THE STUDY: The modified troughing method is a straightforward and inexpensive technique readily available for anyone working with environmental genomic DNA. It facilitates cloning of genomic DNA and enhances rapid discovery of useful bioactive compounds from microbial resources.     

Allele-sharing methods for estimation of population size

Genetic data are becoming increasingly important in ecology and conservation biology. This article presents a novel method for estimating population size from DNA profiles obtained from a random sample of individuals. The underlying idea is that the degree of biological relationship between individuals in the sample reflects the size of the population and that DNA profiles provide information about relatedness. A pseudolikelihood approach is taken, involving pairwise comparison of individuals. The main field of applications is seen to be catch data, and as an example, the method is applied to DNA profiles (10 microsatellite loci) from 334 North Atlantic minke whales. It is concluded that the sample size is too small for the method to give useful results. The question about the required sample size is investigated by simulation.     

人体外形的相似性

本文首先提出了人体相似性的概念和定义, 并进行了数学论证, 导出了标准人体的数学表达方法,然后, 根据90名志愿者的样本具体计算说明了标准人体尺寸的适用性。本文提出的标准人体尺寸处理方法, 可供人种和体型分类、人体模型与服装设计时确定人体各部尺寸, 为利用人体其他节段估测人全身尺寸的可能性提供参考。最后指出, 表示人体尺寸间相互关系的人体常数是存在的; 在设计人体模型时, 不管模型的比例如何, 所设计模型的人体常数需保持与所代表的人群样本的人体常数一致。     

A method for determining ploidy distributions in liver tissue by stereological analysis of nuclear size calibrated by flow cytometric DNA analysis

A method is presented for determining ploidy distributions in mouse liver from image analysis with stereological estimations of nuclear size in tissue sections. Nuclear profile distributions obtained from profile measurements were subjected to a mathematical unfolding procedure in order to obtain the nuclear size distributions. Based on the assumption that nuclear size increases monotonically with nuclear DNA content, flow cytometric DNA analysis of suspensions of liver cell nuclei was used to calibrate the method, thus yielding the mean nuclear size of each ploidy class, i.e., diploid, tetraploid, and octaploid nuclei. After the size interval for each of the ploidy classes was determined, the method allowed determination of ploidy distributions in mouse liver by stereological image analysis alone. The method was established from combined stereological and flow cytometric measurements on liver tissue representing two different stages of liver regeneration after two-thirds partial hepatectomy, and it was tested against an independent set of data representing a marked increase in the portion of S-phase cells.     

Electronic determination of size and number in isolated unfixed adipocyte populations

Adipose tissue cellularity and metabolism are traditionally expressed in terms of mean cell size and number. The need for a simple method allowing rapid determination of cell size and number of freshly isolated, unfixed adipocyte preparations led us to compare estimates of cell size determined by the established method of optical sizing to a proposed method of electronic cell sizing and counting. In collagenase-isolated, unfixed adipocytes whose mean diameters ranged from approximately 40 to 65 microns (obtained from healthy rats weighing 100-360 g) the electronic method provided estimates of the mean cell diameter and size distribution that did not differ from the optical sizing technique. Estimates of mean cell diameter and cell number by the electronic method were rapid and reproducible (coefficients of variation 0.5 and 3.8%, respectively) and a less than 20 sec delay until sample analysis, after mixing of the adipocyte suspension, did not alter these estimates. Electronic determination of cell size and number, using freshly isolated, unfixed rat adipocyte populations (mean cell diameter less than or equal to 60 microns), is rapid and reliable. It will be particularly useful for studies of hormone binding and transport processes where it may be necessary to tightly control cell density.     

大中型兽类种群数量估算的研究进展

大中型兽类种群数量的估算是动物生态学中重要的基本问题, 受到研究者、管理者和公众的共同关注。国际上从20世纪中期开始研究该问题, 已出现了多种研究方法和相应案例, 且还在快速发展, 但世界各地仍有很多物种的种群数量尚未知晓。在我国, 从20世纪80年代开始调查大中型兽类种群数量, 取得了重要进展, 也还有很多物种的种群数量尚不清楚。因此, 有必要归纳国际上种群数量估算的研究进展, 同时, 总结国内研究的现状、优势和趋势, 供研究者参考。本文首先选择估算大中型兽类种群数量的原理、数据来源和模型这3个要素归纳出简明的研究框架, 将现有的多种方法置于其中予以阐述。在该框架下, 根据估算原理分为4大类方法, 为距离取样法、标志重捕法、基于遇见率法和遥感影像直接计数法。针对每一大类方法, 论述其基本原理模型和模型假设, 说明能实现该原理的相应数据来源(视觉观测、红外相机拍摄、DNA微卫星识别、卫星定位跟踪、声音监测或遥感影像)的特点及如何实现该原理, 评价其适用性及优缺点, 并选择其中具有可比性的方法予以比较评价。其次, 参照该研究框架, 总结我国的研究现状, 分析未来发展的优势和趋势: 我国的红外相机数据积累充分, 可以发展以此为数据源的距离取样法、标志重捕法和基于遇见率法; 发展以粪便样品为数据来源的距离取样法和粪便DNA标志重捕法; 相比地面调查数据, 获取高分辨率遥感影像数据更容易, 尽量以此估算符合适用条件的大中型兽类的种群数量。最后, 本文提出了适用于我国大中型兽类种群数量的估算方法的选择流程, 供研究者参考。