RESUMO
We have improved an existing clone database management system written in FORTRAN 77 and adapted it to our software environment. Improvements are that the database can be interrogated for any type of information, not just keywords. Also, recombinant DNA constructions can be represented in a simplified 'shorthand', whereafter a program assembles the full nucleotide sequence from the contributing fragments, which may be obtained from nucleotide sequence databases. Another improvement is the replacement of the database manager by programs, running in batch to maintain the databank and verify its consistency automatically. Finally, graphic extensions are written in Graphical Kernel System, to draw linear and circular restriction maps of recombinants. Besides restriction sites, recombinant features can be presented from the feature lines of recombinant database entries, or from the feature tables of nucleotide databases. The clone database management system is fully integrated into the sequence analysis software package from the Pasteur Institute, Paris, and is made accessible through the same menu. As a result, recombinant DNA sequences can directly be analysed by the sequence analysis programs.
Assuntos
Gráficos por Computador , DNA Recombinante , Sistemas de Gerenciamento de Base de Dados , Modelos Moleculares , Linguagens de Programação , Software , Algoritmos , Sequência de BasesRESUMO
This paper describes the structural organization of a repetitive DNA sequence isolated from plasmids of Bacillus thuringiensis strain berliner 1715. DNA sequence analysis of this repetitive sequence (RS) revealed all the characteristic features of an insertion sequence (IS). This 1656-bp element is delineated by two 20-bp inverted repeats which are flanked by two 11-bp direct repeats. A long open reading frame spans almost the entire sequence and is preceded by potential transcriptional and translational signals. A structural homology was observed between this RS and the Escherichia coli IS4 element in the length of their direct repeats, the sequence of their inverted repeats and the sequence of their putative transposases. These data strongly suggest that this sequence is an authentic insertion sequence. Therefore the name IS231 is proposed for this first Bacillus IS element. Further relationships with other known IS sequences were also found and are discussed.
Assuntos
Bacillus thuringiensis/genética , Elementos de DNA Transponíveis , Sequência de Aminoácidos , Composição de Bases , Sequência de Bases , Computadores , Enzimas de Restrição do DNA , DNA Bacteriano/genética , Escherichia coli/genética , Conformação de Ácido Nucleico , Plasmídeos , Sequências Repetitivas de Ácido Nucleico , Homologia de Sequência do Ácido NucleicoRESUMO
The complete nucleotide sequence of the hemagglutinin (HA) gene of the human type B influenza virus B/Singapore/222/79 is presented. Comparison with the only other known sequence of a B hemagglutinin (B/Lee/40) shows that antigenic drift in type B HA genes is essentially the same as already observed within the influenza A H3 subtype, i.e., an accumulation of point mutations. The main difference is that the apparent evolution is significantly slower, most likely due to the cumulative effect of a lower occurrence in the population (slower evolution) and/or less immunological pressure. There is a striking cluster of changes at positions 127 until 137 of the HA1 subunit which may represent one of the antigenic sites of the molecule.
Assuntos
Sequência de Bases , Genes Virais , Genes , Hemaglutininas/genética , Orthomyxoviridae/genética , Sequência de Aminoácidos , Ampicilina/farmacologia , Escherichia coli/genética , Glicosídeos/análise , Resistência às Penicilinas , Plasmídeos , Especificidade da Espécie , Tetraciclina/farmacologiaAssuntos
Genes Virais , Vírus da Influenza A/genética , Neuraminidase/genética , Sequência de Aminoácidos , Sequência de Bases , Clonagem Molecular , DNA Viral , Desoxirribonucleotídeos/análise , Epitopos , Vírus da Influenza A/análise , Neuraminidase/imunologia , Transcrição Gênica , Proteínas Virais/biossínteseRESUMO
The complete nucleotide sequence of the influenza A/PR/8/34 nucleoprotein gene was determined after cloning for dsDNA copy in pBR322. The nucleoprotein gene is 1517 nucleotides long of which 1446 nucleotides code for 482 amino acids. The calculated amino acid composition is in good agreement with those published for influenza A nucleoprotein genes. The amino acid sequence of the nucleoprotein contains clusters of basic amino acids and proline, a property shared with other nucleic-acid-associated proteins like Semliki forest virus nucleocapsid protein, VP1 protein of polyoma virus and Simian virus 40, and the core antigen of hepatitis B virus. The described nucleoprotein structure brings the number of sequenced genes of influenza A/PR/8/34 to five out of eight genes.