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Microbial gene essentiality : protocols and bioinformatics

Author: Andrei L Osterman; Svetlana Y Gerdes
Publisher: Totowa, N.J. : Humana Press, ©2008.
Series: Methods in molecular biology (Clifton, N.J.), v. 416.
Edition/Format:   eBook : Document : EnglishView all editions and formats
Summary:
Microbial Gene Essentiality: Protocols and Bioinformatics contains a comprehensive collection of experimental and computational strategies and techniques for microbial genome-scale essentiality studies, developed and presented by the leading groups in the field. In addition to wet-lab protocols, the book describes (i) statistical methods essential for planning successful large-scale essentiality screens, as well for  Read more...
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Genre/Form: Electronic books
Additional Physical Format: Print version:
Microbial gene essentiality.
Totowa, N.J. : Humana Press, ©2008
(DLC) 2007926773
(OCoLC)209342501
Material Type: Document, Internet resource
Document Type: Internet Resource, Computer File
All Authors / Contributors: Andrei L Osterman; Svetlana Y Gerdes
ISBN: 9781597453219 1597453218
OCLC Number: 262556051
Language Note: English.
Description: 1 online resource (xiv, 486 pages) : illustrations.
Contents: Overview of whole-genome essentiality analysis / Karen Joy Shaw --
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 --
Identification and analysis of essential genes in Haemophilus influenzae / Sandy M.S. Wong and Brian J. Akerley --
Transposon site hybridization in Mycobacterium tuberculosis / Jeffrey P. Murry [and others] --
Essential genes in the infection model of Pseudomonas aeruginosa PCR-based signature-tagged mutagenesis / François Sanschagrin, Irena Kukavica-Ibrulj, and Roger C. Levesque --
Whole-genome detection of conditionally essential and dispensable genes in Escherichia coli via genetic footprinting / Michael D. Scholle and Svetlana Y. Gerdes --
Generating a collection of insertion mutations in the Staphylococcus aureus genome using bursa aurealis / Taeok Bae [and others] --
Multipurpose transposon insertion libraries for large-scale analysis of gene function in yeast / Anuj Kumar. IB. Systematic collections of knockout mutants. How to make a defined near-saturation mutant library. Case 1: Pseudomonas aeruginosa PAO1 / Michael A. Jacobs --
Comparing insertion libraries in two Pseudomonas aeruginosa strains to assess gene essentiality / Nicole T. Liberati [and others] --
The construction of systematic in-frame, single-gene knockout mutant collection in Escherichia coli K-12 / Tomoya Baba and Hirotada Mori --
The applications of systematic in-frame, single-gene knockout mutant collection of Escherichia coli K-12 / Tomoya Baba [and others] --
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 --
High-throughput creation of a whole-genome collection of yeast knockout strains / Angela M. Chu and Ronald W. Davis --
Analysis of genetic interactions on a genome-wide scale in budding yeast: diploid-based synthetic lethality analysis by microarray / Pamela B. Meluh [and others]. IC. Genome minimization. Scarless engineering of the Escherichia coli genome / Tamás Fehér [and others] --
Minimization of the Escherichia coli genome using the Tn5-targeted Cre/loxP excision system / Byung Jo Yu and Sun Chang Kim --
Construction of long chromosomal deletion mutants of Escherichia coli and minimization of the genome / Jun-ichi Kato and Masayuki Hashimoto --
ID. Conditional knockouts. Identification of essential genes in Staphylococcus aureus by construction and screening of conditional mutant library / Dezhong Yin and Yinduo Ji --
Techniques for the isolation and use of conditionally expressed antisense RNA to achieve essential gene knockdowns in Staphylococcus aureus / Allyn Forsyth and Liangsu Wang --
Introduction of conditional lethal amber mutations in Escherichia coli / Christopher D. Herring --
pt. II. Bioinformatics. IIA. Statistics. Statistical methods for building random transposon mutagenesis libraries / Oliver Will --
Statistical evaluation of genetic footprinting data / Gábor Balázsi --
Modeling competitive outgrowth of mutant populations : why do essentiality screens yield divergent results? / Alexander I. Grenov and Svetlana Y. Gerdes. Statistical analysis of fitness data determined by TAG hybridization on microarrays / Brian D. Peyser, Rafael Irizarry, and Forrest A. Spencer --
IIB. Data integration and modeling. Profiling of Escherichia coli chromosome database / Yukiko Yamazaki, Hironori Niki, and Jun-ichi Kato --
Gene essentiality analysis based on DEG, a database of essential genes / Chun-Ting Zhang and Ren Zhang --
Detection of essential genes in Streptococcus pneumoniae using bioinformatics and allelic replacement mutagenesis / Jae-Hoon Song and Kwan Soo Ko --
Design and application of genome-scale reconstructed metabolic models / Isabel Rocha, Jochen Förster, and Jens Nielsen --
Predicting gene essentiality using genome-scale in silico models / Andrew R. Joyce and Bernhard Ø. Palsson --
Comparative approach to analysis of gene essentiality / Andrei L. Osterman and Svetlana Y. Gerdes.
Series Title: Methods in molecular biology (Clifton, N.J.), v. 416.
Responsibility: edited by Andrei L. Osterman, Svetlana Y. Gerdes.

Abstract:

This book contains a comprehensive collection of experimental and computational strategies and techniques for microbial genome-scale essentiality studies, developed and presented by the leading  Read more...

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