A unifying model for the G1 period in prokaryotes and eukaryotes

A model to explain the cell division cycle in both prokaryotes and eukaryotes is presented. No specific 'G1 functions' take place during the G1 period, which is merely part of a larger period for the preparation of DNA synthesis which began at the previous initiation of DNA synthesis. A G1 period exists merely because the doubling time of the cells is greater than the sum of the S and G2 periods.     

Role of RecA protein spiral filaments in genetic recombination

Physical and enzymatic studies on RecA protein from Escherichia coli provide the basis for a molecular model of general genetic recombination, a novel feature of which is the role attributed to spiral filaments of RecA protein.     

几何分布假设检验的一个注记

基于样本 x1 ,… ,xn,讨论了几何分布的分布拟合检验 ,应用几何分布的无记忆性给出了判别该组数据是否来自几何分布总体的判别方法 .在计算机普遍应用的今天 ,这一方法是可取的 .     

A method for haplotype inference in general pedigrees without recombination

The abundance of single nucleotide polymorphisms (SNPs) makes the haplotype-based method instead of single-maker-oriented method the main approach to association studies on QTL mapping. The key problem in haploptype-based method is how to reconstruct haplotypes from genotype data. Directly assaying haplotypes in diploid individuals by experimental methods is too expensive, therefore the in silico haplotyping-determination methods are the major choice at the present. This paper presents a rapid and reliable algorithm for haplotype reconstruction for tightly linked SNPs in general pedigrees. It is based on six rules and consists of three steps. First, the parental origins of alleles in offspring are assigned conditional on genotypes in parent-offspring trios; second, the redundant haplotypes are eliminated based on the six rules; and finally, the most likely haplotype combinations are chosen via maximum likelihood method. Our method was verified and compared with PEDPHASE by simulated data with different pedigree sizes, numbers of loci, and proportions of missing genotypes. The result shows that our algorithm was superior to PEDPHASE in terms of computing time and accuracy of haplotype estimation. The computing time for 100 runs was 10―15 times less and the accuracy was 4%―10% higher than PEDPHASE. The result also indicates that our method was very robust and was hardly affected by pedigree size, number of loci, and proportion of missing genotypes.     

A thermodynamic hypothesis regarding optimality principles for flow processes in geosystems

This paper proposes a new thermodynamic hypothesis that states that a nonlinear natural system that is not isolated and involves positive feedbacks tends to minimize its resistance to the flow process through it that is imposed by its environment. We demonstrate that the hypothesis is consistent with flow behavior in saturated and unsaturated porous media, river basins, and the Earth-atmosphere system. While optimization for flow processes has been previously discussed by a number of researchers in the literature, the unique contribution of this work is to indicate that only the driving process is subject to opti-mality when multiple flow processes are simultaneously involved in a system.     

Translational control of intron splicing in eukaryotes

Most eukaryotic genes are interrupted by non-coding introns that must be accurately removed from pre-messenger RNAs to produce translatable mRNAs. Splicing is guided locally by short conserved sequences, but genes typically contain many potential splice sites, and the mechanisms specifying the correct sites remain poorly understood. In most organisms, short introns recognized by the intron definition mechanism cannot be efficiently predicted solely on the basis of sequence motifs. In multicellular eukaryotes, long introns are recognized through exon definition and most genes produce multiple mRNA variants through alternative splicing. The nonsense-mediated mRNA decay (NMD) pathway may further shape the observed sets of variants by selectively degrading those containing premature termination codons, which are frequently produced in mammals. Here we show that the tiny introns of the ciliate Paramecium tetraurelia are under strong selective pressure to cause premature termination of mRNA translation in the event of intron retention, and that the same bias is observed among the short introns of plants, fungi and animals. By knocking down the two P. tetraurelia genes encoding UPF1, a protein that is crucial in NMD, we show that the intrinsic efficiency of splicing varies widely among introns and that NMD activity can significantly reduce the fraction of unspliced mRNAs. The results suggest that, independently of alternative splicing, species with large intron numbers universally rely on NMD to compensate for suboptimal splicing efficiency and accuracy.