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This collection of diverse articles by the pioneers of modern genomics takes stock of the current state of the field and elucidates the contribution that sequencing genomes has made to our understanding of microbial metabolism and evolution. Through twenty-eight thought-provoking chapters, the authors describe some of the most common computational methods and their applications to studying pathogenic microorganisms, show how genomics can be used to reconstruct the history and dynamism of the microbial world, and discuss issues as diverse as reconstruction of metabolic pathways, cell cycle processes, microbial evolution, metagenomics, and vaccine development. Additional chapters deal with microarrays and expression analysis and the role of genomic in drug discovery. Genomic technologies have transformed the field of microbiology, making it possible to investigate hundreds of genomes and uncover millions of new genes. In Microbial Genomics, a panel of genomics pioneers-many from The Institute for Genomic Research (TIGR)-take stock of the current state of the field. Through 28 thought-provoking chapters, the authors describe some of the most common computational methods and their applications to studying pathogenic microrganisms, show how genomics can be used to reconstruct the history and dynamism of the microbial world, and discuss issues as diverse as reconstruction of metabolic pathways, cell cycle processes, microbial evolution, metagenomics, and vaccine development. Additional chapters deal with microrarrays and expression analysis and the role of genomics in drug discovery.
Stimulating and comprehensive, Microbial Genomics brings together not only many of the major investigators of modern microbial genomics, but also synthesizes a coherent view of the contributions that sequencing has made to our understanding of genomic structures, evolution, and biology.
List of contents
Part I: IntroductionHistory of Microbial GenomicsHamilton O. SmithPart II: Bioinformatics As a Tool in GenomicsTools for Gene Finding and Whole Genome ComparisonSteven L. Salzberg and Arthur L. DelcherBacterial Genome Annotation at TIGROwen WhiteBioinformatics and Microbial PathogenesisFiona S. L. Brinkman and Joanna L. FueyoBacteriophage BioinformaticsDerrick E. FoutsPart III: Core FunctionsComparative Microbial MetabolismKaren E. NelsonGenomic Analysis of Membrane TransportIan T. Paulsen, Katherine H. Kang, Mark E. Hance, and Qinghu RenGenomics-Based Analysis of the Bacterial Cell CycleMichael T. Laub, Harley H. McAdams, and Lucy ShapiroPart IV: The Evolution of Microbial GenomesA Brief History of Views of Prokaryotic Evolution and TaxonomyLorraine Olendzenski, Olga Zhaxybayeva, and J. Peter GogartenHow Bacterial Genomes ChangeTimothy D. Read and Garry S. A. MyersConcepts of Bacterial Biodiversity for the Age of GenomicsFrederick M. CohanCoevolution of Symbionts and Pathogens With Their HostsRobert A. FeldmanPart V: A Survey of Microbial GenomeA Survey of Plant Pathogen GenomesC. Robin BuellAnoxygenic Phototrophic BacteriaF. Robert Tabita and Thomas E. HansonGenomics of ThermophilesFrank T. RobbThe Genomes of Pathogenic EnterobacteriaJulian Parkhill and Nicholas R. ThomsonObligate Intracellular PathogensSiv G. E. AnderssonLow G+C Gram-Positive GenomesSteven R. GillGenomics of Actinobacteria, the High G+C Gram-Positive BacteriaStephen D. Bentley, Roland Brosch, Stephen V. Gordon, David A. Hopwood, and Stewart T. ColeParasite GenomicsMalcolm J. GardnerGenome Sequence of an Extremely Halophilic ArchaeonShiladitya DasSarmaPart VI: Applications of Genomic DataMicroarrays, Expression Analysis, and Bacterial GenomesCarsten Rosenow and Brian TjadenMicrobial Population Genomics and Ecology: A New FrontierEdward F. DelongApplication of Genomics to Biocatalysis and BiodegradationLawrence P. WackettEnzyme Discovery and Microbial GenomicsRobert M. Kelly and Keith R. ShockleyIntegration of Genomics in the Drug Discovery ProcessJacques RavelA Genomic Approach to Vaccine DevelopmentRino Rappuoli, Vega Masignani, Mariagrazia Pizza, Guido Grandi, and John L. TelfordMicrobial ProteomicsSvend Birkelund, Brian B. Vandahl, Allan C. Shaw, and Gunna ChristiansenIndex
Summary
This collection of diverse articles by the pioneers of modern genomics takes stock of the current state of the field and elucidates the contribution that sequencing genomes has made to our understanding of microbial metabolism and evolution.
