Enlarged Similarity of Nucleic Acid Sequences

The concept of nucleic acid sequence base alternations is presented.The number of base alterations for the sequences of differentlength is established. The definition of "enlarged similarity"of nucleic acids sequences on the basis of sequence base alterationsis introduced. Mutual information between sequences is usedas a quantitative measure of enlarged similarity for two comparedsequences. The method of mutual information calculation is developedconsidering the correlation of bases in compared sequences.The definitions of correlated similarity and evolution similaritybetween compared sequences are given. Results of the use ofenlarged similarity approach for DNA sequences analysis arediscussed.     

Enlarged model of lambda phage ontogenesis

An enlarged threshold model of the Regulatory System of Development of λ -Phage (RSDP λ-2) is built. It includes 15 synthetic blocks of proteins and mRNAs and four blocks corresponding to the other ontogenetic processes: two-stage replication, integration and excision of phage genome, formation of oligomers of regulatory proteins, regulation of bacteriallysis. By way of computer simulation of the RSDP A-2 model the dynamics of concentrations of all main proteins, respective fractions of mRNAs and DNA are described in the lytic and lysogenic regimes of phage ontogenesis. Results obtained are in good agreement with available experimental data. The dependence of a portion (%) of lysogenic responses on the multiplicity $\text{k}$ of phage infection of bacterial culture, is built. This curve has a maximum point in accordance with the experimental data of P. Kourilsky (1973).     

An Enlarged Profile of Uremic Solutes

Better knowledge of the uremic solutes that accumulate when the kidneys fail could lead to improved renal replacement therapy. This study employed the largest widely available metabolomic platform to identify such solutes. Plasma and plasma ultrafiltrate from 6 maintenance hemodialysis (HD) patients and 6 normal controls were first compared using a platform combining gas and liquid chromatography with mass spectrometry. Further studies compared plasma from 6 HD patients who had undergone total colectomy and 9 with intact colons. We identified 120 solutes as uremic including 48 that had not been previously reported to accumulate in renal failure. Combination of the 48 newly identified solutes with those identified in previous reports yielded an extended list of more than 270 uremic solutes. Among the solutes identified as uremic in the current study, 9 were shown to be colon-derived, including 6 not previously identified as such. Literature search revealed that many uremic phenyl and indole solutes, including most of those shown to be colon-derived, come from plant foods. Some of these compounds can be absorbed directly from plant foods and others are produced by colon microbial metabolism of plant polyphenols that escape digestion in the small intestine. A limitation of the metabolomic method was that it underestimated the elevation in concentration of uremic solutes which were measured using more quantitative assays.     

Enlarged model of lambda phage ontogenesis

An enlarged threshold model of the Regulatory System of Development of λ-Phage (RSDP λ-2) is built. It includes 15 synthetic blocks of proteins and mRNAs and four blocks corresponding to the other ontogenetic processes: two-stage replication, integration and excision of phage genome, formation of oligomers of regulatory proteins, regulation of bacteriallysis. By way of computer simulation of the RSDP λ-2 model the dynamics of concentrations of all main proteins, respective fractions of mRNAs and DNA are described in the lytic and lysogenic regimes of phage ontogenesis. Results obtained are in good agreement with available experimental data. The dependence of a portion (%) of lysogenic responses on the multiplicity $\text{k}$ of phage infection of bacterial culture, is built. This curve has a maximum point in accordance with the experimental data of P. Kourilsky (1973).