Microbial gene essentiality
Subtitle: protocols and bioinformatics
By: edited by Andrei L. Osterman and Svetlana Y. Gerdes.
Contributors: Osterman, Andrei L.; Gerdes, Svetlana Y.
Series: Methods in molecular biology -- 416; Methods in molecular biology (Clifton, N.J.) -- v. 416.
Publisher: Humana Press
Published: 2008
Place of publication: Totowa, N.J
Language: eng
Number of pages: 486
ISBN-13: 9781588293787
Subjects: Microbial genetics; Computational biology; Genes, Essential -- genetics -- Laboratory Manuals; Genetics, Microbial -- Laboratory Manuals; Genome, Bacterial -- genetics -- Laboratory Manuals; Computational Biology -- Laboratory Manuals; Genomics -- methods -- Laboratory Manuals; Genetic Techniques -- Laboratory Manuals; Microbiological Techniques -- Laboratory Manuals
Genres: Laboratory Manuals.
Notes: Includes bibliographical references and index.
Table of contents: title: Overview of whole-genome essentiality analysis / Karen Joy Shaw; title: Pt. I. Experimental protocols. IA. Populational genome-wide essentiality screens. Transposon-based strategies for the identification of essential bacterial genes / William S. Reznikoff and Kelly M. Winterberg; title: Identification and analysis of essential genes in Haemophilus influenzae / Sandy M.S. Wong and Brian J. Akerley; title: Transposon site hybridization in Mycobacterium tuberculosis / Jeffrey P. Murry ... [et al.]; title: Essential genes in the infection model of Pseudomonas aeruginosa PCR-based signature-tagged mutagenesis / François Sanschagrin, Irena Kukavica-Ibrulj, and Roger C. Levesque; title: Whole-genome detection of conditionally essential and dispensable genes in Escherichia coli via genetic footprinting / Michael D. Scholle and Svetlana Y. Gerdes; title: Generating a collection of insertion mutations in the Staphylococcus aureus genome using bursa aurealis / Taeok Bae ... [et al.]; title: Multipurpose transposon insertion libraries for large-scale analysis of gene function in yeast / Anuj Kumar; title: IB. Systematic collections of knockout mutants. How to make a defined near-saturation mutant library. Case 1: Pseudomonas aeruginosa PAO1 / Michael A. Jacobs; title: Comparing insertion libraries in two Pseudomonas aeruginosa strains to assess gene essentiality / Nicole T. Liberati ... [et al.]; title: The construction of systematic in-frame, single-gene knockout mutant collection in Escherichia coli K-12 / Tomoya Baba and Hirotada Mori; title: The applications of systematic in-frame, single-gene knockout mutant collection of Escherichia coli K-12 / Tomoya Baba ... [et al.]; title: A novel, simple, high-throughput method for isolation of genome-wide transposon insertion mutants of Escherichia coli K-12 / Takeyoshi Miki, Yoshihiro Yamamoto, and Hideo Matsuda; title: High-throughput creation of a whole-genome collection of yeast knockout strains / Angela M. Chu and Ronald W. Davis; title: Analysis of genetic interactions on a genome-wide scale in budding yeast: diploid-based synthetic lethality analysis by microarray / Pamela B. Meluh ... [et al.]; title: IC. Genome minimization. Scarless engineering of the Escherichia coli genome / Tamás Fehér ... [et al.]; title: Minimization of the Escherichia coli genome using the Tn5-targeted Cre/loxP excision system / Byung Jo Yu and Sun Chang Kim; title: Construction of long chromosomal deletion mutants of Escherichia coli and minimization of the genome / Jun-ichi Kato and Masayuki Hashimoto; title: ID. Conditional knockouts. Identification of essential genes in Staphylococcus aureus by construction and screening of conditional mutant library / Dezhong Yin and Yinduo Ji; title: Techniques for the isolation and use of conditionally expressed antisense RNA to achieve essential gene knockdowns in Staphylococcus aureus / Allyn Forsyth and Liangsu Wang; title: Introduction of conditional lethal amber mutations in Escherichia coli / Christopher D. Herring; title: Pt. II. Bioinformatics. IIA. Statistics. Statistical methods for building random transposon mutagenesis libraries / Oliver Will; title: Statistical evaluation of genetic footprinting data / Gábor Balázsi; title: Modeling competitive outgrowth of mutant populations : why do essentiality screens yield divergent results? / Alexander I. Grenov and Svetlana Y. Gerdes; title: Statistical analysis of fitness data determined by TAG hybridization on microarrays / Brian D. Peyser, Rafael Irizarry, and Forrest A. Spencer; title: IIB. Data integration and modeling. Profiling of Escherichia coli chromosome database / Yukiko Yamazaki, Hironori Niki, and Jun-ichi Kato; title: Gene essentiality analysis based on DEG, a database of essential genes / Chun-Ting Zhang and Ren Zhang; title: Detection of essential genes in Streptococcus pneumoniae using bioinformatics and allelic replacement mutagenesis / Jae-Hoon Song and Kwan Soo Ko; title: Design and application of genome-scale reconstructed metabolic models / Isabel Rocha, Jochen Förster, and Jens Nielsen; title: Predicting gene essentiality using genome-scale in silico models / Andrew R. Joyce and Bernhard Ø. Palsson; title: Comparative approach to analysis of gene essentiality / Andrei L. Osterman and Svetlana Y. Gerdes.