Methods and Applications in Comparative Bacterial Genomics: Studying Microevolution in Action - Tapa blanda

Fuxelius, Hans-Henrik

 
9783836475808: Methods and Applications in Comparative Bacterial Genomics: Studying Microevolution in Action
Tapa blanda
ISBN 10: 3836475804 ISBN 13: 9783836475808
Editorial: VDM Verlag Dr. Müller, 2008

Sinopsis

Comparative studies of bacterial genomes generate massive amounts of information. In order to support a systematic and efficient approach to genomic analyses, a database driven system with visualization capacity was developed. The GenComp software was applied to studies of intracellular bacteria. ORFs were extracted and grouped into families. Based on gene order synteny, orthologous clusters of core genes and variable spacer ORFs were identified and extracted for alignments and further analysis.GenComp was applied to six Chlamydia trachomatis strains to identify the most rapidly evolving genes. Five genes were chosen for genotyping, and close to a 3-fold higher discrimination capacity was achieved than that of serotyping.A massive comparative analysis were performed on the variable gene set in the Rickettsiaceae, which includes R. prowazekii and O. tsutsugamushi, the agents of epidemic and scrub typhus. The analysis indicates that up to 70% of the extensively degraded and variably present genes represent mobile genetic elements and genes putatively acquired by horizontal gene transfer. This explains the paradox of the high pseudogene load in the small Rickettsia genomes.

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Reseña del editor

Comparative studies of bacterial genomes generate massive amounts of information. In order to support a systematic and efficient approach to genomic analyses, a database driven system with visualization capacity was developed. The GenComp software was applied to studies of intracellular bacteria. ORFs were extracted and grouped into families. Based on gene order synteny, orthologous clusters of core genes and variable spacer ORFs were identified and extracted for alignments and further analysis. GenComp was applied to six Chlamydia trachomatis strains to identify the most rapidly evolving genes. Five genes were chosen for genotyping, and close to a 3-fold higher discrimination capacity was achieved than that of serotyping. A massive comparative analysis were performed on the variable gene set in the Rickettsiaceae, which includes R. prowazekii and O. tsutsugamushi, the agents of epidemic and scrub typhus. The analysis indicates that up to 70% of the extensively degraded and variably present genes represent mobile genetic elements and genes putatively acquired by horizontal gene transfer. This explains the paradox of the high pseudogene load in the small Rickettsia genomes.

Biografía del autor

Hans-Henrik Fuxelius did his post graduate studies in Molecular Evolution at the Evolutionary Biology Centre at Uppsala University in Sweden. He also received a Bachelor of Science Degree in theoretical computer science and mathematics at Uppsala University. His studies includes massive computation of bacterial evolution and genotyping.

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Editorial
VDM Verlag Dr. Müller
Año de publicación
2008
Idioma
Inglés
ISBN 10 
3836475804
ISBN 13 
9783836475808
Encuadernación
Tapa blanda
Número de páginas
72
Contacto del fabricante
no disponible
Persona responsable
no disponible