Navid Microbial Systems Biology

Methods and Protocols
2011
ISBN: 978-1-61779-827-6
Verlag: Humana Press
Format: PDF
Kopierschutz: 1 - PDF Watermark

E-Book, Englisch, Band 881, 615 Seiten, eBook

Reihe: Methods in Molecular Biology

 Systems biology is the study of interactions between assorted components of biological systems with the aim of acquiring new insights into how organisms function and respond to different stimuli.  Although more and more efforts are being directed toward examining systems biology in complex multi-cellular organisms, the bulk of system-level analyses conducted to date have focused on the biology of microbes.  In, Microbial Systems Biology: Methods and Protocols expert researchers in the field describe the utility and attributes of different tools (both experimental and computational) that are used for studying microbial systems.  Written in the highly successful Methods in Molecular Biology™ series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and key tips on troubleshooting and avoiding known pitfalls.

Authoritative and practical, Microbial Systems Biology: Methods and Protocols introduces and aids scientists in using the various tools that are currently available for analysis, modification and utilization of microbial organisms.

Zielgruppe

Professional/practitioner

Autoren/Hrsg.

Navid, Ali

Inhaltsverzeichnis

Part I: Sample Prepartion and Identification 1. Flow Cytometry in Environmental Microbiology: A RapidApproach for the Isolation of Single-Cells for Advanced Molecular Biology AnalysisFerrari BC., Winsley T., Bergquist PL. and van Dorst, J. 2. Pressure Cycling Technology in Systems BiologyBradford S. Powell, Alexander V. Lazarev, Greta Carlson, Alexander R. Ivanov, and David A. Rozak 3. Targeted Isolation of Proteins from Natural Microbial Communities Living in an Extreme EnvironmentSteven W. Singer 4. Bacterial Identification and Subtyping Using DNA Microarray and DNA Sequencing Sufian F. Al-Khaldi, Magdi M. Mossoba, Marc M. Allard, E. Kurt Lienau, and Eric D. Brown Part II: Experimental Genomic Analyses 5. Genetic Manipulation of the Obligate Chemolithoautotrophic Bacterium Thiobacillus denitrificansHarry R. Beller, Tina C. Legler, and Staci R. Kane 6. Genome-wide Mapping of the Binding Sites of Proteins that Interact with DNAStephen Spiro Part III: Protein and Lipid Analyses 7. MICROBIAL PROTEOMICS USING MASS SPECTROMETRYHarry B. Hines 8. Fourier Transform Infrared Spectroscopy for Molecular Analysis of Microbial CellsJesús J. Ojeda  Part IV: Metabolomic Analyses 9. Mass Spectrometry-based Microbial MetabolomicsEdward E. K. Baidoo, Peter I. Benke and Jay D. Keasling 10. Fast Sampling of the Cellular MetabolomeWalter M. van Gulik, Andre B. Canelas, Hilal Taymaz-Nikerel, Rutger D. Douma, Lodewijk P. de Jonge and Joseph J. Heijnen Part V: Analyses of Cellular Metabolism 11. Metabolic Pathway Determination and Flux Analysis in Non-model Microorganisms through 13C-isotope LabelingXueyang Feng, Wei-Qin Zhuang, Peter Colletti, Yinjie J. Tang 12. Biolog Phenotype MicroarraysApril Shea, Mark Wolcott, Simon Daefler, and David Rozak  13. NanoSIP: NanoSIMS Applications for Microbial BiologyJennifer Pett-Ridge and Peter K. Weber Part VI: Kinetic Modeling of Cellular Processes 14. Electrophysiological-metabolic Modeling of Microbes: Applications in Fuel Cells and Environment AnalysisMax Fontus and Peter Ortoleva15. Simulating Microbial Systems: Addressing Model Uncertainty/Incompleteness via Multiscale and Entropy Methods  A. Singharoy, H. Joshi, S. Cheluvaraja, Y. Miao, D. Brown and P. Ortoleva Part VII: Genome-Scale Computational Studies16. Bacterial Genome AnnotationNicholas Beckloff, Shawn Starkenburg, Tracey Freitas, and Patrick Chain 17. LeishCyc: a Guide to Building a Metabolic Pathway Database and the Visualization of Metabolic DataEleanor C. Saunders, James I. MacRae, Thomas Naderer, Milica Ng, Malcolm J. McConville and Vladimir A. Likic18. Development of Constraint-base System-level Models of Microbial Metabolism Ali Navid19. Complex Network Analysis in Microbial Systems: Theory and Examples Zahra Zavareh, Eivind Almaas 20. Modeling a Minimal Cell Michael L. Shuler, Patricia Foley, Jordan Atlas