真核生物中DNA复制的动力学模型

Functional analysis of the N-terminal basic motif of a eukaryotic satellite RNA virus capsid protein in replication and packaging

Efficient replication and assembly of virus particles are integral to the establishment of infection. In addition to the primary role of the capsid protein (CP) in encapsidating the RNA progeny, experimental evidence on positive sense single-stranded RNA viruses suggests that the CP also regulates RNA synthesis. Here, we demonstrate that replication of Satellite tobacco mosaic virus (STMV) is controlled by the cooperative interaction between STMV CP and the helper virus (HV) Tobacco mosaic virus (TMV) replicase. We identified that the STMV CP-HV replicase interaction requires a positively char…

iCorr : Complex correlation method to detect origin of replication in prokaryotic and eukaryotic genomes

Computational prediction of origin of replication (ORI) has been of great interest in bioinformatics and several methods including GC Skew, Z curve, auto-correlation etc. have been explored in the past. In this paper, we have extended the auto-correlation method to predict ORI location with much higher resolution for prokaryotes. The proposed complex correlation method (iCorr) converts the genome sequence into a sequence of complex numbers by mapping the nucleotides to {+1,-1,+i,-i} instead of {+1,-1} used in the auto-correlation method (here, 'i' is square root of -1). Thus, the iCorr method …

Quantitative elemental imaging in eukaryotic algae

All organisms, fundamentally, are made from the same raw material, namely the elements of the periodic table. Biochemical diversity is achieved with how these elements are utilized, for what purpose and in which physical location. Determining elemental distributions, especially those of trace elements that facilitate metabolism as cofactors in the active centers of essential enzymes, can determine the state of metabolism, the nutritional status or the developmental stage of an organism. Photosynthetic eukaryotes, especially algae, are excellent subjects for quantitative analysis of elemental d…

General law of growth and replication. Growth equation and its applications

We present significantly advanced studies of the previously introduced physical growth mechanism and unite it with biochemical growth factors. Obtained results allowed formulating the general growth law which governs growth and evolutional development of all living organisms, their organs and systems. It was discovered that the growth cycle is predefined by the distribution of nutritional resources between maintenance needs and biomass production. This distribution is quantitatively defined by the growth ratio parameter, which depends on the geometry of an organism, phase of growth and, indire…

热、化学和基因毒性应激下的DNA复制

DNA Replication under Thermal, Chemical, and Genotoxic Stress

开发基于晶格的随机蒙特卡洛框架，模拟酿酒酵母全基因组复制，揭示复制叉速度异质性导致S期持续时间Erlang分布和异常延长事件，预测非单调热行为、羟基脲应激下的幂律标度等。

Cell-to-cell variability and robustness in S-phase duration from genome replication kinetics

Genome replication, a key process for a cell, relies on stochastic initiation by replication origins, causing a variability of replication timing from cell to cell. While stochastic models of eukaryotic replication are widely available, the link between the key parameters and overall replication timing has not been addressed systematically.We use a combined analytical and computational approach to calculate how positions and strength of many origins lead to a given cell-to-cell variability of total duration of the replication of a large region, a chromosome or the entire genome.Specifically, t…