MOLECULAR METHODS FOR VIRUS DETECTION
CONTENTS SECTION 1 GENERAL INTRODUCTION CHAPTER 1 PLANT–VIRUS INTERACTIONS CHAPTER 2 ROLE OF CAPSID PROTEINS CHAPTER 3 ROLE OF PLANT VIRUS MOVEMENT PROTEINS CHAPTER 4 MULTIPLE ROLES OF VIRAL REPLICATION PROTEINS IN PLANT RNA VIRUS REPLICATION CHAPTER 5 ROLE OF SILENCING SUPPRESSOR PROTEINS CHAPTER 6 ROLE OF VECTOR-TRANSMISSION PROTEINS SECTION 2 VIRAL NUCLEIC ACID SEQUENCE/FUNCTION ANALYSIS CHAPTER 7 IN VIVO ANALYSES OF VIRAL RNA TRANSLATION CHAPTER 8 IN VITRO ANALYSIS OF TRANSLATION ENHANCERS CHAPTER 9 IDENTI? CATION OF PLANT VIRUS IRES CHAPTER 10 ANALYSIS OF GEMINIVIRUS DNA REPLICATION BY 2-D GEL CHAPTER 11 BEGOMOVIRUSES: MOLECULAR CLONING AND IDENTI? CATION OF REPLICATION ORIGIN CHAPTER 12 ANALYSIS OF VIROID REPLICATION CHAPTER 13 BIOCHEMICAL ANALYSES OF THE INTERACTIONS BETWEEN VIRAL POLYMERASES AND RNAS CHAPTER 14 IN SITU DETECTION OF PLANT VIRUSES AND VIRUS-SPECI? C PRODUCTS CHAPTER 15 DETECTION OF SIRNAS AND MIRNAS CHAPTER 16 CLONING OF SHORT INTERFERING RNAS FROM VIRUS-INFECTED PLANTS CHAPTER 17 SOLUTION STRUCTURE PROBING OF RNA STRUCTURES CHAPTER 18 RNA ENCAPSIDATION ASSAY SECTION 3 PROTEIN ANALYSIS AND INVESTIGATION OF PROTEIN FUNCTION CHAPTER 19 SURFACE PLASMON RESONANCE ANALYSIS OF INTERACTIONS BETWEEN REPLICASE PROTEINS OF TOMATO BUSHY STUNT VIRUS CHAPTER 20 BIOCHEMICAL APPROACHES FOR CHARACTERIZING RNA–PROTEIN COMPLEXES IN PREPARATION FOR HIGH RESOLUTION STRUCTURE ANALYSIS CHAPTER 21 PROBING INTERACTIONS BETWEEN PLANT VIRUS MOVEMENT PROTEINS AND NUCLEIC ACIDS CHAPTER 22 MOVEMENT PRO? LES: A TOOL FOR QUANTITATIVE ANALYSIS OF CELL-TO-CELL MOVEMENT OF PLANT VIRAL MOVEMENT PROTEINS CHAPTER 23 ANALYSIS OF SIRNA-SUPPRESSOR OF GENE SILENCING INTERACTIONS CHAPTER 24 PHOSPHORYLATION ANALYSIS OF PLANT VIRAL PROTEINS CHAPTER 25 ANALYSIS OF INTERACTIONS BETWEEN VIRAL REPLICASE PROTEINS AND PLANT INTRACELLULAR MEMBRANES CHAPTER 26 MEMBRANE AND PROTEIN DYNAMICS IN VIRUS-INFECTED PLANT CELLS CHAPTER 27 SITE-DIRECTED MUTAGENESIS OF WHOLE VIRAL GENOMES CHAPTER 28 VIRAL PROTEIN–NUCLEIC ACID INTERACTION: SOUTH (NORTH)-WESTERN BLOT CHAPTER 29 PROTEIN–PROTEIN INTERACTIONS: THE YEAST TWO-HYBRID SYSTEM CHAPTER 30 NMR ANALYSIS OF VIRAL PROTEIN STRUCTURES CHAPTER 31 LOCALIZATION OF VIRAL PROTEINS IN PLANT CELLS: PROTEIN TAGGING SECTION 4 MICROSCOPY/GFP/PROTEIN TAGGING/INFECTIONS CLONES AND OTHER SUCH TOOLS CHAPTER 32 CONSTRUCTION OF INFECTIOUS CLONES FOR RNA VIRUSES: TMV CHAPTER 33 CONSTRUCTION OF INFECTIOUS CDNA CLONES FOR RNA VIRUSES: TURNIP CRINKLE VIRUS CHAPTER 34 CONSTRUCTION OF INFECTIOUS CLONES FOR DNA VIRUSES: MASTREVIRUSES CHAPTER 35 CONSTRUCTION OF INFECTIOUS CLONES OF DOUBLE-STRANDED DNA VIRUSES OF PLANTS USING CITRUS YELLOW MOSAIC VIRUS AS AN EXAMPLE CHAPTER 36 INSERTION OF INTRONS: A STRATEGY TO FACILITATE ASSEMBLY OF INFECTIOUS FULL LENGTH CLONES CHAPTER 37 ANALYSIS OF CELL-TO-CELL AND LONG-DISTANCE MOVEMENT OF APPLE LATENT SPHERICAL VIRUS IN INFECTED PLANTS USING GREEN, CYAN, AND YELLOW FLUORESCENT PROTEINS CHAPTER 38 AGROINOCULATION: A SIMPLE PROCEDURE FOR SYSTEMIC INFECTION OF PLANTS WITH VIRUSES CHAPTER 39 GEMINIVIRUS: BIOLISTIC INOCULATION AND MOLECULAR DIAGNOSIS SECTION 5 GENOMICS, HOST FACTORS AND PLANT BASED STUDIES CHAPTER 40 EXPRESSION MICROARRAYS IN PLANT–VIRUS INTERACTION CHAPTER 41 GENOME-WIDE SCREENS FOR IDENTI? CATION OF HOST FACTORS IN VIRAL REPLICATION CHAPTER 42 PHOSPHORYLATION OF MOVEMENT PROTEINS BY THE PLASMODESMAL-ASSOCIATED PROTEIN KINASE CHAPTER 43 VIRUS-INDUCED GENE SILENCING AS A TOOL TO IDENTIFY HOST GENES AFFECTING VIRAL PATHOGENICITY CHAPTER 44 YEAST TWO-HYBRID ASSAY TO IDENTIFY HOST–VIRUS INTERACTIONS