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Content available remote Finite state automata built on DNA
This paper describes a non-deterministic finite-state automaton based on DNA strands. The automaton uses massive parallel processing offered by molecular approach for computation and exhibits a number of advantages over traditional electronic implementations. This device is used to analyze DNA molecules, whether they are described by specified regular expression. Presented ideas are confirmed by experiment performed in a genetic engineering laboratory.
The polymerase chain reaction method (PCR) has been applied to the detection of FMD viral RNA in samples taken from the calf during the clinical stage of FMD. Total RNA was extracted with a guanidinum thiocyanate-phenol-chloroform method and reverse transcribed using AMV-reverse transcriptase. cDNA was used as a template for the amplification by PCR of the 672 bp of the VP1 coding sequence. The amplified fragment of cDNA was cloned in the pBS(+) phagemid-containing sites recognized by Smal endonuclease and expressed in E. coli strain MV1193. The first DNA strand was sequenced and concurrently an amino acid sequence was established. Comparison between VP1 amino acid sequence of FMDV types A and earlier described type O was performed.
In the bovine genome we found two intrachromosomal DNA fragments flanked by inverted telomeric repeats (GenBank Accession Nos. AF136741 and AF136742). The internal parts of the fragments are homologous exclusively to the human sequences and to the consensus sequence of the L1MC4 subfamily of LINE-1 retrotransposons which are widespread among mammalian genomes. We found that distribution of homologous human sequences within our fragments is not random, reflecting a complicated pattern of insertion mechanisms of and maintenance of retrotransposons in mammalian genomes. One of the possible explanations of the origin of LINE-1 truncated elements flanked by inverted telomeric repeats in the bovine genome is that extrachromosomal DNA fragments may be modified by telomerase and subsequently, transferred into chromosomal DNA.
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