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  CERTIFICATE IN MICROBIOLOGY
     
  Code: VET_CMB  
 

 

Introduction

Microbiology, the study of micro-organisms including bacteria, fungi and viruses, is a vast subject with importance not only for medicine but also in many other areas such as environmental sciences, food technology and brewing. The vast majority of micro-organisms are relatively benign, and most are beneficial in performing an essential recycling role through the turnover of organic materials in the environment. This module is designed to introduce some of the concepts of microbiology, with a clear emphasis on applications relevant to the pharmaceutical sciences. The module will also provide an introduction to later modules dealing further with antibiotics and biotechnology.

Micro-organisms can have significant effects within three main areas of pharmaceutical sciences:

 
 

• In causing diseased states, notably due to bacteria, viruses and fungi.
• In generating pharmaceutical products, such as antibiotics or vaccines
• In spoilage of pharmaceutical products, typically by bacteria or fungi (yeast/moulds)

 

Who Should Do This Course?

This course is ideal for bioscience professionals (Academics, Food Technologists, Research Scientists, Pharmacists, Biotechnologists, etc.) and healthcare workers (Medical Practitioners, Nurses, Medical Laboratory Scientists). Participants should have at least diploma qualification or second year level achievement in biomedical science undergraduate discipline.

Aims

This course will introduce some of the basic concepts of microbiology, with particular emphasis on pharmaceutical issues. The course will help participants to understand the properties of some micro-organisms and their role in pathogenicity and spoilage of pharmaceutical preparations. A broad training in basic microbiological issues for scientifically aware managers will be provided.

LEARNING OUTCOMES

Knowledge and Understanding:

After completing this module you will be able to:

• Describe the structure and functions of bacterial cell components and appreciate how antibiotics interact with these components.
• Appreciate the different types of growth media and their use in bacterial identification.
• Describe bacterial growth in open and closed environments.
• Appreciate causative organisms for several diseased states.
• Understand the mechanisms whereby bacteria acquire antibiotic resistance.
• Describe the basic principles of pathogenicity and immunology
• Understand the role of fungi in common medical conditions
• Describe how viruses replicate and cause pathogenicity.
• Appreciate the various methods available for sterilisation of pharmaceutical products.


Discipline specific skills and you will also be able to:

• Safely handle potentially pathogenic organisms.
• Microscopically examine bacteria using a range of stains and examine for motility
• Safely reconstitute penicillin and prepare Total Parenteral Nutrition in an isolation unit.
• Perform aseptic manipulations.

READING LIST
There are numerous basic microbiology books in the library and these will assist in your learning about basic bacterial cell structure and function.

Recommended Texts
Prescott, LM, Harley, JP, Klien, DA. Microbiology 5th Edition McGraw-Hill, Boston, 1999
ISBN 0-697-35439-3

For the more pharmaceutical aspects of the module, the recommended text is:

"Pharmaceutical Microbiology" Edited by W.B. Hugo and A.D. Russell (Blackwell Scientific Publications).

 

LECTURE CONTENT


Course Content

Lecture
Topic
   
  Introduction to Microbiology
1
History of Microbiology
Microbial Products
Microorganisms and disease
Thermolabile (Heat Sensitive) and Thermoresistant (Heat tolerant) microbes.
Endospores and development of pure cultures
   
2
Microbial Evolution: Phylogeny (Evolutionary relatedness)
The Protists: simple biological organisation at cellular level.
Classification based on Morphological Characteristics: 2 types of cellular organism
1. Prokaryotes
2. Eukaryotes
Evolutionary Relatedness: Comparative sequencing of rRNA
Biological World - 3 domains: BACTERIA, ARCHAEA, EUKARYA
Origins of Chloroplasts and Mitochondria: Endosymbiont Theory
   
3

Structure and Function of Prokaryotic Cells
Membranes of Prokaryotic and Eukaryotic Cells
Cytoplasmic Membranes and Proteins in the cytoplasmic membrane
Fluid Mosaic Model and Cytoplasmic Membranes
Eukaryotic membranes; Action of Sterols
Archaeal Membranes: Structure and Functions
Permeases; Group Translocation and Active Transport (Proton motive force)
Sugar phosphotransferase system (PTS) and mechanisms of glucose uptake
Types of transport protein: uniporters; symporters; and antiporters

   
4
Bacterial Cell Walls.
Structure and function of bacterial cell capsule and wall
Composition and Structure of Peptidoglycan
Cross linkages in peptidoglycan; Gram +ve and Gram –ve bacteria
Lysozyme; Effect of penicillin
Function of Teichoic acids and lipopolysaccharides (LPS)
Cell walls of Archaea
Properties of some bacterial species: Staphylococcus; Streptococcus; Bacillus; Clostridium; Listeria; Neisseria; Pseudomonas; Vibrio; Yersinia; Bordetella; Escherichia; Salmonella
   
5
Movement and Attachment of Prokaryotes
Functional diversity in prokaryotes: spores, cysts
Bacterial Capsules, Slime, Layers and the Glycocalyx
Glycocalyx: Function; Phagocytosis; Adherence; Adherence and disease
Applications of Bacterial Polysaccharides
Structure and Function: Pili; Fimbriae;
Bacterial Flagella and Chemotaxis
Spores; Cysts and Bacterial Endospores (structure; chemical composition; formation, germination; sterilisation)
   
6
Genetic Storage and Exchange in Prokarytes.
Prokaryotic Genome; Structure and function of Plasmids
DNA supercoiling and Topoisomerae
Initiation of DNA replication in Prokaryotes: Bi-directional and Rolling Circle DNA replication
Gene exchange in Eukarya and Prokaryotes (Transformation; Transduction; Conjugation)
Genetic basis of acquired antibiotic resistance in bacteria
Biochemical mechanisms of resistance and clinical problems of bacterial resistance
   
7
Bacterial Physiology & Biochemistry
Nutritional Requirements.
Requirements and conditions for growth: Anabolic and catabolic pathways: Glycolysis and TCA; Elemental requirements of microbes: Essential major, minor and trace elements
Basic structural units: Heterotrophs and Autotrophs. Organic requirements (Medium): C sources; steroids; lipids; nucleosides; growth factors etc
Sources of Nitrogen and Oxygen; N fixation and ammonia assimilation; Utilisation of minor and trace elements: P, S, K, Mg, Fe, etc.; Development of media
   
8
Environmental Requirements 1; Water, pH.
Water activity; Classes of solute (Electrolyte and Non-electrolytes);
Growth at extreme conditions (high and low Aw)
Compatible solutes: K ions and organic molecules (amino acids. Polyols, etc)
Hypersaline environments: cell walls and osmotic pressure effects
   
9
Environmental Requirements 2; Temperature, pressure, Radiation
Effect of temperature: arrhenius equation; temperatures for growth
Microbes in extreme environments: Psyhrophiles’ Mesophiles, Thermophiles etc.
pH environments and microbe adaptation to extreme pH: acidophiles, Alkalinophiles
Pressure effects on microbes: Barophiles
Radiation effects on microbes: Ionizing (X rays, gamma rays etc); UV to IR light
Responses to light: phototaxic and phototrophic microbes
   
10
Aerobic Respiration
Revision of nutrition requirements and energy supply; Electron acceptors and free energy production; Assimilative and Dissimilative metabolism; Oxygen: Terminal electron acceptor (Aerobes); Anaerobes: Fermentation and Anaerobic respiration
Faculatative Anaerobes; Obligate Aerobes and Anaerobes; Aerotolerant Anaerobes;
Microaerophiles; Anaerobic Respiration: Nitrate Fixation and De-nitrification
Sulphate reduction; Carbonate as TEA; other electron acceptors
   
11
Electron Acceptors: Mechanisms of Energy Generation
Glycolysis (several glycolytic pathways); Krebs cycle (TCA); Embden-Myerhof Pathway; Entner-Doudoroff pathway; Substrate Level Phosphorylation; Oxidative phosphorylation: Electron Transport Chains; classes of electron carrier; H carriers; terminal electron carriers; ATP generation; Sidedness of membranes; Protomotive Force PMF and ATP generation
Chemiosmotic hypothesis and ATP synthesis
   
13
Autotrophs
Winogradsky’s definition; Facultative Autotrophs and CO2 -Fixation pathways: Calvin cycle (Plants + many bacteria); Green bacteria - reverse TCA Cycle; Archaea/acetogenic bacteria - carbon monoxide – pathway; Energy Sources for CO2-Fixation: Photolithotrophs and Chemlithotrophs; Photosynthesis and Photosystem II; Generation of PMF; Cyclic and Non Cyclic Photophosphorylation; Anoxygenic Photosynthesis.
   
14
Photosynthetic Bacteria
Purple Bacteria: Rhodospirillineae and Purple-S-Bacteria: Chromatiaceae
Purple non-S-Bacteria: Rhodospirillaceae and Chromatiaceae; Green S Bacteria: Chlorobiineae; Green Non-S Bacteria: Cloroflexicaceae; Absorption spectra of photosynthetic pigments Other Phototrophic Bacteria: Heliobacterium; Halobacteria
   
15
Chemolithotrophs
Biogeochemical cycling
Nitrification and nitrifying bacteria; Sulphur oxidizing bacteria; S-oxidation/ denitrification bacteria; Iron Oxidizing Bacteria; Acidophilic iron and sulphur oxidizing bacteria; Non-acidophilic Iron Bacteria; hydrogen bacteria; Sulphate reducing bacteria (SRB); Methanogens; ATP Production by Lithotrophs; Reverse Electron Flow
   
16
Types of eukaryotic microorganisms
Classification of Eukaryotes; Phylogeny of Eukarya
The hydrogenosome; Protozoa: classification (locomotion and Official 1980 system); Amoeba – pseudopod former; Paramecium – ciliate; Giardia – Flagellate
Slime moulds; Fungi: Classification; Cell wall and metabolism; Filamentous fungi
Asexual reproduction and Sexual Reproduction
Yeasts; Sexual reproduction in yeast
Algae; Algae – Phylogeny; Medically important fungi
Mycoses are subdivided into 3 categories: Superficial; Subcutaneous; Systemic
   
17
Taxonomy of Protists
Diplomonads: Giardia lambia; Trichomonas; 18S RNA Not reliable for Protist Taxonomy;
Microsporidia: uses and life cycle; A fungus. Taxonomy according to Proteins; Choanoflagellates; Sponges (Metazoa); Cellular Slime Moulds; Dictyostelium Slugs; Plants: Chlamydomonas (Green Algae); Euglenophyta; Alveolata (ciliates etc); Pfiesteria; Chromista (Brown Algae); Cryptomonads; Foraminifera & Radiolarians
   
18
Fungi
Filamentous fungi; fungal thallus; Fungal subdivisions; Yeast Cell Cycle; Life cycle of basidiomycete; Mushroom; Fungal Mycelium; Fungal hypha; Secretion from mycelium; DNA and genes; Nuclei distribution in hypha; Fungal groups; Industrial uses of fungi cellulases; Mycorrhizae; Fungi: Biological control agent;
   
19
Industrial Microbiology and Biotechnology
Examples of products and industrial microorganisms; Gene prospecting; random mutagenesis and screening; Tools for genetic engineering; Fermentation; Formation of primary and secondary metabolites; Medium and inoculum preparation; Ethanol fermentation; Enzymes Production; Products made by genetic engineering; Biotrends
   
20
Acellular Microorganisms
Viruses: structure, classification; reproduction
Nature of Viruses; Genome Diversity; Electron Micrographs and Virus Structures; Assay and Detection of Viruses; Virus Replication; Epidemiology of Virus Diseases Vaccines
   
21

Microbial Growth
Microbial population and community dynamics
Analysis of a Population; Parameters to Assess Population; Biomass; Component Analysis; Power of population to increase; Environments (open/closed); Bacterial Growth; Basic growth equations; Specific Growth Rate; Exponential Growth; Growth Rate Constant; Closed System growth ; Growth phases; Industrial applications; Human digestive system;

   
22
Growth in limited environments
Assumption: basic growth equations; Growth Curve; Pearl - Verhulst - Logistic Model
Phases of Growth; Monod Equation; Saturation Constant (Ks); Growth Yield
   
23
Microbial growth in open environments
Chemostats; The Dilution Rate and Biomass Concentration; The dilution rate & growth limiting substrate concentration; Steady State; Growth Yield and Maintenance Energy
   
24
Epidemiology of infectious diseases
Epidemics; Vaccination effect; Immunisation; Elimination of Smallpox; Disease origin; Pathogen adaptation; Myxomatosis; SARS; Flu epidemics/pandemics; H5N1 Chicken Flu
   
25
Microbial growth in food
Food hygiene; Bacterial Toxins: Clostridium, Bacillus, Staphylococcal, etc.
Food-borne microbial illness: Salmonella, Campylobacter, etc.
Viral Gastroenteritis; Fungal food poisoning; Food Spoilage; Food Preservation
   
26
Pathogenicity and immunology
Pathogens and virulence; Damage to host; Body defense mechanisms; Specific body defense mechanisms (immune system)
   

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