Arabidopsis: a practical approach
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Bibliographische Detailangaben
Format: Elektronisch E-Book
Sprache:English
Veröffentlicht: Oxford Oxford University Press 2000
Schriftenreihe:Practical approach series 223
Schlagworte:
Online-Zugang:FAW01
FAW02
Volltext
Beschreibung:Includes bibliographical references and index
1 - Growth, maintenance, and use of Arabidopsis genetic resources - Mary Anderson, Fiona Wilson - 1 -- - 1 - What is Arabidopsis? - 1 -- - 2 - What makes Arabidopsis such an attractive experimental model? - 3 -- - 3 - Arabidopsis genetic resource centres - 4 -- - Arabidopsis genetic resources - 4 -- - Accessing Arabidopsis resources - 5 -- - 4 - Mutants of Arabidopsis - 5 -- - Single gene mutation lines - 5 -- - Resources for the identification/investigation of novel genes - 8 -- - Mapping tools - 10 -- - 5 - Considerations of available resources for identifying novel genes - 11 -- - Forward genetics - 12 -- - Reverse genetics - 14 -- - 6 - Growing Arabidopsis - 15 -- - How to maintain clean growth conditions - 15 -- - Growing Arabidopsis in the glasshouse - 16 -- - Chemical control of pests and diseases - 19 -- - 7 - Seed storage - 21 -- - 8 - Growing Arabidopsis with specific growth requirements - 23 -- - 9 - Sterile culture of Arabidopsis - 24 -- - 2
- Preservation and handling of stock centre clones - Randy Scholl, Keith Davis, Doreen Ware - 29 -- - 2 - Missions of a plant DNA resource centre - 29 -- - 3 - Preservation of stocks - 30 -- - Plasmids with small DNA inserts - 30 -- - Cosmids - 32 -- - Phage and phage libraries - 33 -- - Yeast artificial chromosome (YAC) libraries - 33 -- - Pools of YAC library cells for PCR screening - 37 -- - Distribution of YAC libraries arrayed on nylon filters - 38 -- - Other large-insert libraries - 38 -- - Yeast expression analysis--'two-hybrid' libraries and complementation testing - 42 -- - 4 - Verification of stock identity and purity - 42 -- - 5 - Pooled DNA from T-DNA lines for PCR screening - 44 -- - 6 - Organization of stock information - 48 -- - Collecting, maintaining, and disseminating stock data - 48 -- - Organizing and distributing patron data - 48 -- - 7 - Future - 48 -- - 3 - Genetic mapping using recombinant inbred lines - Clare Lister, Mary Anderson, Caroline Dean
- 51 -- - 2 - Preparation and digestion of A. thaliana genomic DNA - 54 -- - Preparation of genomic DNA - 56 -- - Identifying an RFLP - 60 -- - Southern blotting and hybridization - 61 -- - 3 - Polymorphic markers - 62 -- - RFLP markers - 62 -- - PCR-based markers - 66 -- - Phenotypic and biochemical markers - 68 -- - 4 - Calculating map positions - 69 -- - Mapping programs - 69 -- - NASC mapping service - 70 -- - 5 - Integration of a mutation into a molecular map - 72 -- - 4 - Arabidopsis mutant characterization; microscopy, mapping, and gene expression analysis - Kriton Kalantidis, L. Greg Briarty, Zoe A. Wilson - 77 -- - 1 - Generation of mutants and their importance for developmental biology - 77 -- - 2 - Mapping and segregation analysis - 78 -- - Mapping of mutations - 78 -- - Influence of environment on phenotype - 82 -- - 3 - Microscopy - 82 -- - Fresh material characterization - 82 -- - Fixed material characterization - 84 -- - 4 - Analysis of plant gene expression
- 89 -- - RNA isolation - 89 -- - Northern analysis - 91 -- - In situ hybridizations - 92 -- - 5 - Classical and molecular cytogenetics of Arabidopsis - G.H. Jones, J.S. Heslop-Harrison - 105 -- - 2 - Mitotic chromosome analysis by light microscopy - 108 -- - 3 - In situ hybridization to mitotic chromosome preparations - 112 -- - Photography of in situ hybridizations - 117 -- - 4 - Meiotic chromosome analysis by light microscopy - 117 -- - 5 - Meiotic chromosome analysis by electron microscopy - 121 -- - 6 - Tissue culture, transformation, and transient gene expression in Arabidopsis - Keith Lindsey, Wenbin Wei - 125 -- - 2 - Stable transformation by Agrobacterium tumefaciens - 128 -- - 3 - Transient gene expression in Arabidopsis protoplasts - 131 -- - Reporter gene enzyme assays - 134 -- - 7 - Transposon and T-DNA mutagenesis - Mark G.M. Aarts, Csaba Koncz, Andy Pereira - 143 -- - 2 - Transposon tagging - 143 -- - Endogenous transposable elements - 143 --
- Transposon tagging systems in Arabidopsis - 144 -- - Which system to use? - 149 -- - Genetic and molecular analysis of a putatively transposon tagged mutant - 151 -- - Further applications of transposon tagging - 156 -- - 3.2 - T-DNA tagging - 158 -- - Use of T-DNA as insertional mutagen - 158 -- - Random tagging - 158 -- - Available populations of T-DNA transformants - 159 -- - Promoter/enhancer trapping - 160 -- - Analysis of T-DNA mutants and cloning a tagged gene - 161 -- - Further applications of T-DNA tagging - 166 -- - 8 - Map-based cloning in Arabidopsis - Joanna Putterill, George Coupland - 171 -- - 2 - Locating the mutation of interest relative to DNA markers - 172 -- - Determining an approximate map position - 172 -- - Identifying a short genetic interval containing the mutation as a prelude to isolating the gene - 175 -- - 3 - Placing the gene on the physical map - 177 -- - Chromosome landing - 177 -- - Chromosome walking with YAC clones - 178 -- - 4
- Identification of the gene - 189 -- - Location of the gene by molecular complementation - 189 -- - Determining the structure of the gene - 194 -- - 5 - Perspectives - 194 -- - 9 - Physical mapping: YACs, BACs, cosmids, and nucleotide sequences - Ian Bancroft - 199 -- - 2 - Genome mapping with YAC clones - 199 -- - 3 - Genome mapping with BAC and P1 clones - 202 -- - Communal resources - 202 -- - Construction of BAC libraries - 208 -- - Genome mapping with BACs - 211 -- - 4 - High resolution mapping with cosmids - 216 -- - Approaches to mapping with cosmids - 216 -- - Construction of cosmid libraries - 216 -- - 5 - Nucleotide sequences--the ultimate mapping tool - 221 -- - EST sequencing project - 221 -- - Genome sequencing project - 221 -- - Sequence-based mapping - 222 -- - 10 - Web-based bioinformatic tools for Arabidopsis researchers - Seung Y. Rhee, David J. Flanders - 225 -- - What is bioinformatics - 225 -- - Sources of Arabidopsis bioinformatic data - 226 -- - 2
- Basic tools for the Internet - 227 -- - Web basics - 227 -- - Getting onto the Web - 228 -- - Using your browser - 229 -- - Browser tips and errors - 232 -- - Privacy issues - 235 -- - 3 - Scenarios of bioinformatic use in Arabidopsis research - 235 -- - 4 - Gene information resources - 237 -- - General gene information - 237 -- - Arabidopsis gene information - 237 -- - Plant gene information - 238 -- - Genetic maps - 239 -- - Physical maps - 240 -- - 6 - Sequencing - 242 -- - Arabidopsis genome initiative (AGI) - 243 -- - Annotation of sequences by AGI - 243 -- - Caveats in annotation - 244 -- - Sequence contigs from AtDB - 245 -- - 7 - Sequence analysis tools - 245 -- - BLAST - 246 -- - FASTA - 250 -- - EST databases - 252 -- - Gene identification programs - 253 -- - Gene family analyses - 255 -- - Motif analyses - 255 -- - Protein structures - 258 -- - Comprehensive sequence analysis tools - 259 -- - 8 - Current issues and future directions in bioinformatics - 260 --
- Some important bioinformatic issues - 260 -- - Bioinformatic tools currently under development for Arabidopsis research
Beschreibung:1 Online-Ressource (xix, 275 pages)
ISBN:0585483795
9780585483795

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