Bacterial Artificial Chromosomes: Volume 1: Library Construction, Physical Mapping, and Sequencing

ISBN-13: 9781617372889 / Angielski / Miękka / 2010 / 360 str.

Shaying Zhao; Marvin Stodolsky

Opis

For both volumes:
Expert investigators describe not only the classic methods, but also the many novel techniques they have perfected for the transfer of large DNAs into the cells of both microbes and animals via large-insert recombinant DNAs. Volume 1 presents readily reproducible techniques for library construction, physical mapping, and sequencing.. An accompanying volume, Volume 2: Functional Studies, provides a wide variety of methods and applications for functional analysis of the DNA-transformed organisms. Besides protocols, each chapter includes scientific reviews, software tools, database resources, genome sequencing strategies, and illustrative case studies.

Spis treści

BAC Library Construction Kazutoyo Osoegawa and Pieter J. de Jong Construction of Small Genome BAC Library for Functional and Genomic Applications David Smajs, Steven J. Norris, and George M. Weinstock Preparation of BAC Libraries From Bacterial Genomes by In Vitro Packaging Sangita Pal, Solida Mak, and George M. Weinstock Exploring Transformation-Associated Recombination Cloning for Selective Isolation of Genomic Regions Natalay Kouprina, Vladimir N. Noskov, Maxim Koriabine, Sun-Hee Leem, and Vladimir Larionov Purification of BAC DNA Tim S. Poulsen Hybridization-Based Selection of BAC Clones Chang-Su Lim and Ung-Jin Kim Applications of Interspersed Repeat Sequence Polymerase Chain Reaction Heike Zimdahl, Claudia Gösele, Thomas Kreitler, and Margit Knoblauch BAC Mapping Using Fluorescence In Situ Hybridization Xiao-Ning Chen and Julie R. Korenberg High-Throughput BAC Fingerprinting Jacqueline Schein, Tamara Kucaba, Mandeep Sekhon, Duane Smailus, Robert Waterston, and Marco Marra BAC End Sequencing Tim S. Poulsen and Hans E. Johnsen Radiation Hybrid Mapping With BAC Ends Michael Olivier, Shannon Brady, and David R. Cox Shotgun Library Construction for DNA Sequencing Bruce A. Roe Rolling Circle Amplification for Sequencing Templates Paul F. Predki, Chris Elkin, Hitesh Kapur, Jamie Jett, Susan Lucas, Tijana Glavina, and Trevor Hawkins Transposon-Mediated Sequencing Rachel Reeg and Anup Madan Pyrosequencing: A Tool for DNA Sequencing Analysis Elahe Elahi and Mostafa Ronaghi Use of Fimers to Eliminate Polymerase Chain Reaction and Primer-Dimer Artifacts and to Increase Yield in BAC-Sequencing Reactions Andrei Malykh, Nikolai Polushin, Alexei Slesarev, and Sergei Kozyavkin Retrofitting BACs and PACs With LoxP Transposonsto Generate Nested Deletions Pradeep K. Chatterjee Preparing Nested-Deletion Template DNA for Field Inversion Gel Electrophoresis Analyses and Position-Specific End Sequencing With Transposon Primers Pradeep K. Chatterjee and Joseph C. Baker, Jr. BAC Finishing Strategies Christine Bird and Darren Grafham Using the TIGR Assembler in Shotgun Sequencing Projects Mihai Pop and Dan Kosack Finishing 'Working Draft' BAC Projects by Directed Sequencing With ThermoFidelase and Fimers Andrei Malykh, Olga Malykh, Nikolai Polushin, Sergei Kozyavkin, and Alexei Slesarev Optimized Multiplex Polymerase Chain Reaction: An Effective Method for Rapid Gap Closure Diana Radune and Hervé Tettelin Assembly of DNA Sequencing Data Jeremy Schmutz, Jane Grimwood, and Richard M. Myers Sequence Finishing Jeremy Schmutz, Jane Grimwood, and Richard M. Myers Quality Assessment of Finished BAC Sequences Jeremy Schmutz, Jane Grimwood, and Richard M. Myers Index

Blurb

The ability to transfer and maintain DNA both within and between species is an essential skill in biotechnology and medicine. In Bacterial Artificial Chromosomes, expert investigators describe not only the classic methods, but also the many novel techniques they have perfected for the transfer of large DNAs into the cells of both microbes and animals via large-insert recombinant DNAs. Volume 1: Library Construction, Physical Mapping, and Sequencing presents readily reproducible techniques for library construction, physical mapping, and sequencing. The laboratory protocols follow the successful Methods in Molecular Biology™ series format, each one offering step-by-step laboratory instructions, an introduction outlining the principle behind the technique, lists of equipment and reagents, and tips on troubleshooting and avoiding known pitfalls. Besides protocols, each chapter includes scientific reviews, software tools, database resources, genome sequencing strategies, and illustrative case studies. An accompanying volume, Volume 2: Functional Studies, provides a wide variety of methods and applications for functional analysis of the DNA-transformed organisms.
Comprehensive and cutting-edge, the two volumes of Bacterial Artificial Chromosomes provide a superlative collection of highly productive protocols that will prove useful to many bioscientists, including genome sequencers, geneticists, molecular biologists, and biochemists studying the structure and function of specific genomes.