Soil Molecular Ecology Laboratory

Workshop Bangalore - India: 6-17 December 2004

Day 1: Introduction and course overview (Andy, Rakesh, Hector) Overview of toxic organic and inorganic chemicals in soils
·	Environmental factors controlling fate of contaminants in soils.
·	Simple models describing degradation and transport; coupled processes
Day 2: Biochemistry and Genetics of Metabolism of Toxic Organics (Andy and Rakesh)
	Toluene
·	pWW0 (TOL)
·	Alternative pathways
	Naphthalene
·	pPG7 (NAH7)
·	R. opacus M213
Day 3: Anaerobic transformations (Andy)
·	Reductive dechlorination
·	Anaerobic oxidation
·	Halorespiration
·	Cometabolism
·	TCE
Day 4: Metal transformations (Andy)
·	Physiology and ecology of mercury, chromium, arsenic transformation
·	Electron shuttles
Day 5: Molecular Ecology of Biodegradation (Andy)
·	Plasmid biology and genetic exchange
·	Plasmid ecology (2,4-D case example)
Days 6-7: Weekend (no lectures)
Day 8: Methods: Overview (Andy)
·	Enrichment and isolation strategies
·	Characterization of isolates: Polyphasic Taxonomy, PLFA, and DNA
Day 9 : Methods: (Andy)
·	Isolation of nucleic acids from environmental matrices
·	Cloning
Day 10: 16S rRNA gene phylogeny (Hector)
Day 11: DNA fingerprinting (Andy and Hector)
·	T-RFLP
·	DGGE
Day 12: Use of stable isotopes in environmental microbiology (Andy)
·	Confirmation of Biodegradation
·	Stable Isotope Probing of Communities

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