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Applied Environmental Microbiology

Indian Institute of Technology Roorkee via NPTEL

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This course prepares the student to address pressing environmental challenges by developing a fundamental understanding of the microbial communities and processes in natural and built environments. It lays and builds upon the foundation of basic microbiology, microbial energetics, and diversity, to applying tools provided by microbiology ranging from traditional to state of art for addressing relevant environmental concerns. It provides an indepth exploration of the diverse role microbes and microbial communities and includes topics such as: cell structure and elements, microbial energetics and diversity, ecology and population dynamics, environmental microbial processes including biogeochemical cycling, and microbes involved in biodeterioration and bioremediation.


Week 1: Introduction; cell elements and composition Cell and its composition, cytoplasmic membrane Prokaryotic cell division Microbes and their environmental niches Historical roots of microbiology Nucleic acids and amino acids DNA structure, replication, and manipulation Protein and its structure Regulation Microbial nutrition Microscopy: Light microscopy, 3D Imaging, AFM, Confocal scanning laser microscopy

Week 2: Microbial energetics and diversity Stoichiometry and bioenergetics Oxidation-reduction NAD, energy-rich compounds and energy storage Mathematics of microbial growth Glycolysis Respiration Citric-acid cycle Catabolic Alternatives Phototrophy, Chemolithotrophy, anaerobic respiration (Nitrate and Sulfate reduction; Acetogenesis; Methanogenesis; Metal, Chlorate, and organic electron acceptors)

Week 3: Microbial metabolism and functional diversity of bacteria Prokaryotic diversity Classical taxonomy Origin of life Tree of life Major catabolic pathways Catalysis and enzymes Energy conservation Sugars and polysaccharides, amino acids, nucleotides, lipids

Week 4: Microbial ecosystems Population, guilds, and communities Environments and microenvironments Microbial growth on surfaces Environmental effects on microbial growth

Week 5: Environmental genomics and microbial ecology; genetic exchange Environmental genomics Microbial ecology Horizontal and vertical gene transfer: Replication, Transformation Transduction

Week 6: Microbial symbiosis and virus, Mutation and its rate ,Genetic recombination, Population dynamics ,Virus ,Viroid, Prion ,Application of environmental microbes

Week 7: Investigations in environmental microbiology: sampling, detection, isolation, taxonomic and functional annotation and quantification; Introductory bioinformatics and data analysis Microbial sampling Culture based and culture independent tools Molecular biology tools: Cloning, amplification, sequencing,Case study

Week 8: Bioremediation and wastewater microbiology, Bioremediation and examples, Acid mine drainage, Enhanced metal recovery, Wastewater microbiology

Week 9: Drinking water microbiology, Drinking water microbiome and treatment, Microbial instability ,Water borne microbial diseases

Week 10: Solid waste microbiology and antimicrobial resistance, Landfills, Leachate, Anaerobic degradation phases, Antimicrobial resistance

Week 11: Epidemiology and biosensors ,Public health, Epidemics, Biosensors ,Wearable biosensors

Week 12: Built microbiology, exposomes and bioinformatics, Exposure routes ,Microbes living around us ,Exposomes Basic bioinformatics, Bioinformatics tools available online

Taught by

Gargi Singh

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