M.Phil MICROBIOLOGY CURRICULUM

AND

LOG BOOK

DEPARTMENT OF MICROBIOLOGY

MymensinghMedicalCollege, Mymensingh

July 2012

D:\Department\Academic\M Phil\MPhil Academic calendar course curriculum\MPhil Micro course curriculum modified.doc

STUDENT’S PROFILE

Class roll no: University registration no: Session: July’200

Name: ......

Father’s Name: ......

Mother’s Name: ......

BMDC registration no:......

Date of Birth: ......

Nationality: ......

Address:

Present with telephone:

Permanent with telephone:

Academic records:

Degree
/ Name of the Institute / Year / Division
SSC
HSC
MBBS

Service records:

Name of the Office
/ Duration / Designation / Govt./Non-Govt.

Head of Microbiology

D:\Department\Academic\M Phil\MPhil Academic calendar course curriculum\MPhil Micro course curriculum modified.doc

OVERVIEW OF THE COURESE

Name of the curse: Master of Philosophy, Microbiology

Duration of the course:02(Two) years

Comprises Part-I, II (each 6 months) & Part-III (One year)

Commencement of the course: 1st July of each year

Part-I (Six months):

Paper-I (Biostatistics, Biophysics & Basic Chemistry)

Paper-II (General Bacteriology & Systemic Bacteriology)

Paper-III (Parasitology & Mycology)

Part-II (Six months):

Paper-IV (Virology & Water bacteriology)

Paper-V (Basic & Applied Immunology)

Paper-VI (Biochemistry/ Physiology)

Part-III (One year):

Thesis & Thesis defense

Comprehensive Viva

Examination format

Each paper of Part-I & II / Total Marks / Pass Marks
Written / 100 / 60
Practical / 50 / 30
Oral / 50 / 30
Part-III
Thesis & Thesis defense / 200 / 120
Comprehensive Viva / 100 / 60

M.Phil (Microbiology) Syllabus

PART-I:

Paper –I (Biostatistics, Biophysics & Basic chemistry)

Biostatistics

1.Introduction to research, research strategies and design

  1. Concept regarding major categories of medical research: a) experimental studies b) descriptive epidemiological studies and c) clinical trials (aspects more relate to basic sciences research shall be emphasized)
  2. Relevant methodological details of collection and interpretation of data a) sampling techniques and sample size b) questionnaire design c) preparation of data sheet d) bias and confounding e) basic risk measurements
  3. Tests of significance of differences, association and causation
  4. Ethical aspects of medical research
  5. Preparation of a research proposal (protocol)
  6. Writing up of thesis-details of every aspect (from title to appendices) of the thesis including presentation of results (descriptive statistics) in tables, graphs, charts, photographs, photomicrographs, etc.
  7. Writing a research paper
  8. Presentation of a research paper: a) oral presentation b) poster presentation

Teaching methodology

  1. Basics of learning and teaching, curriculum planning and quality assurance in the Institution.
  2. Teaching methods: a) basic planning b) giving lectures c) small group teaching d) taking practical classes.
  3. Teaching resources (materials): a) audio-visual aids and their uses.
  4. Assessment of student performance: a) principles of assessment b) planning of written examinations( including setting of various types of written questions and their comparisons) c) planning of oral and practical examinations (including designing OSPE stations)

NB: Teaching assignments shall be given to the students and shall be evaluated by the teachers.

Paper – II

GeneralBacteriology

Theory:

Bacterial Structure, Nomenclature, Growth and Nutrition, Genetic and Metabolism.

Classification, Media and Staining. Sterilization & Disinfection,

Host parasite Relationship, Genetics, Normal floras & Opportunistic Bacteria,

Bacterial Pathogenesis,Antimicrobial agents and Drug resistance, Milk, food & Water

Bacteriology. Laboratory design and Management and Laboratory safety, Safe disposal of laboratory products.

Practical:

Laboratory safety, Quality assurance, Safe disposal of laboratory products,

Specimen collection and transportation, Laboratory procedures, Record keeping, Preparation of Media, Preparation of Staining material, Staining,

Microscopy of Stained smear, Preservation of culture and other sample, Preparation of Antimicrobial disc, Practice of sterilization and disinfection.

Systemic Bacteriology

Theory:

Cocci ( Staphylococcous, Streptococcous, Neisseria), Haemophilus, Corynebacteria,

Mycobacteria, Enterobacteriaceae, Vibrioniaceae, Pseudomoniaeae, Plesiomonas

Aeromonas, Listeria, Erysipelothrix, Actinomyces, Acinatobacter, Nocardia, Yersinia, Pasturella, Bordetella, Francisella, Brucella, Anaerobic (Non sporing) bacteria, Spore-bearing bacteria,Helicobacter, Campylobacter, Spirocheate, Campylobacter, Rickettisia, Chlamydia, Mycoplasma, Legionellae, Gardenella, Actinobacillum. Outbreak investigation: Sample transportation, Isolation, Identification and reporting, Diarrheal pathogens

Practical:

1. Isolation and Identification of unknown Bacteria

  1. Serological procedures in Bacteriology
  2. Biochemical procedures in Bacteriology
  3. Antimicrobial susceptibility
  4. Performance testing and IQC

Paper –III (Parasitology & Mycology)

Parasitology

Theory:

Introduction, Classification of Parasite

Protozoology: Amoebae, Flagellates, Ciliata, Sporozoa

Helminthology: Cystode, Trematode, Nematode

Practical:

  1. Examination of urine
  2. Examination of Stool
  3. Examination of Blood
  4. Examination of Bone marrow
  5. Exam of Aspirate : Liver

Spleen

Lymphnode

  1. Examination of adult parasite

Mycology

Theory:

Structure, Classification, Anti fungal drugs

M.furfur, Dermatophytes, Candida.

Deep/Systemic fungus

Opportunistic fungus

Practical

1)Specimen collection

2)Microscopy (Wet film and Stained microscopy)

3)Culture and Serology

4)Reporting

PART-II

Paper-IV (Virology)

Theory:

General Virology:

Nomenclature, Properties and structure of virus, Viral Pathogenesis, Antiviral Agents, Viral vaccine

Systemic virology:

Herpes viruses (H. simplex, H. Zooster, Cyto-megalo Virus, Epstein Bar Virus, HSV- 6)

Hepatitis viruses, Virus Associated with diarrhea, Rota virus, Corona virus, Adeno virus

Papilloma virus, Respiratory viruses (Influenza and Para influenza virueses, Respiratory Synsytial Virus, Adeno virus, Rhino virus) Corona viruses, Measles, Rubella, Mumps

Entero viruses (Polio virus), Pox virus, Viral Hemorrhage fever, Rhabdo virus, Dengue Virus, Retro viruses, HTLVs, HIVs, Prion disease, Oncogenic viruses, Viral oncogenesis. Milk, Food and Water bacteriology

Practical:

1)Specimen collection and transport

2)Laboratory safety

3)Laboratory diagnosis of viral diseases

4)Tissue culture and other laboratory Techniques

5)Serological method in virology

6)Testing water/Milk

Paper –V (Basic & Applied Immunology)

Theory:

Structure & organization of Immune system, Cells of Immune system. Antigen, Immunogen, Hapten. Mediators (Complements, Cytokines and Immunoglobulin), MHC,

Immunity and Immune response. Tolerance, Hypersensitivity, Transplantation Rejection, Auto immunity, Tumor immunology

Immunity against Bacteria,Virus, Parasite, Fungus, Immunodeficiency, Autoimmune diseases,Vaccines.

Practical:

Haemolysin preparation, Titration ( Complement, Haemolysin), CFT, Agglutination, Precipitation, IFAT, ELISA, Electrophoresis, Chromatography, PCR, Western Blot, Chemiluminescence, Cell separation(Flow cytometry), HLA typing.

Paper VI (Biochemistry/ Pathology)

FINAL PART:

A. Thesis & Thesis defense

B. Comprehensive VIVA

Comprehensive VIVA will cover all areas of Bacteriology, Parasitology and Mycology, Immunology & Virology.

Bacteriology Pactrical

Duration in Week / Section / Date / Level of Participation / Teachers comment
One /
  • Orientation in the department and Reception: Patient dealing, sample collection, processing, recording & reporting system
/ A
B
C
Two /
  • Aseptic practices in laboratory and safety precautions
  • Collection/transport of specimens for microbiological investigations
  • Sterilization Section, Lab safety, waste disposal
  • Introduction to BSL -1& 2
/ A
B
C
one /
  • Operation of autoclave, hot air oven, distillation plant, filter, Refrigerated centrifuge, Microwave oven, Micropipette, Water bath, Heating block

One /
  • Microscopy (Light, DGI, Phase contrast, Imm FI Microscopy: Maintenance)

  • Preparation of stains viz. Gram, Ziehl Neelsen , Albert’s, capsules, spores, (ZN) etc.
/ A
B
C
Two /
  • Preparation, examination & interpretation of direct smears fromclinical specimens ( stool, urine, Pus, HVS, Sputum, U/S, CSF)
/ A
B
C
  • Introduction to Plating of clinical specimens on media for isolation, purification,identification and quantitation purposes.
/ A
B
C
Two /
  • Preparation of media like Nutrient Broth/ agar, Blood Agar, Mac-conkey agar,
  • Robertson’s cooked meat broth, Lowenstein Jhensen
  • .Preparation of reagents -oxidase, Kovac Sugars, Kligler iron agar, etc.
  • Quality control of media, reagents etc.
  • Bleeding techniques of sheep and preparation of BA and Chocolate agar media.
/ A
B
C
Two /
  • Study of Colony Morphology Of Common Bacteria- Staphyloccus, Strepcococcus, Esch Coli, Salmonella, Shigella, Pseudomonas, Proteus, Klebsiella, Enterococci, Campylobacter, Mycobacterium (Using control strains)
/ A
B
C
One /
  • Tests for Motility, hanging drop, DGI, Soft agar, catalase, oxidase, Coagulase, (slide & tube)Sugar fermentation, TSI, Citrate, Indole, Hippurate etc

  • Special culture technique including anaerobiosis, Microaerophilic etc

Two /
  • Identification Of Bacteria Of Medica1 Importance Upto Species Level including serotyping.
/ A
B
C
Two /
  • Plating of clinical specimens on media for isolation, purification,identification and quantitation purposes.
/ A
B
C
One /
  • Quantitative analysis of urine by pour plate method and semiquantitative analysis by standard loop tests for finding significantbacteriuria
/ A
B
C
Two /
  • Culture of Blood, Sputum, CSF, Stool etc.
/ A
B
C
One /
  • Disposal of contaminated materials like cultures
  • Disposal of infectious waste
/ A
B
C
One /
  • Maintenance & preservation of bacterial cultures
/ A
B
C
Two /
  • Test of tap water for bacteria and colony count

Two /
  • Efficacy of sterility by autoclaving , Hot air oven and filtration

Two /
  • Bacteriological study of Mobiles, key boards, table top.

  • Introduction to Molecular techniques-
  • DNA/ RNA extraction from clinical specimen, Bacterial colony
  • Different type of Electrophoresis for detection DNA/RNA
  • Amplification of DNA
  • Documentation of amplicon.

Parasitology

Duration in Week / Section / Date / Level of Participation / Teachers comment
Two /
  • Collection and transport of specimens for diagnosis of parasitic diseases
  • Stool- for Protozoa and Helminths
  • Blood for MP, Filaria, Kala-azar, Trypanos,oa,
  • Aspirate/Biopsy from Bone marrow, /liver, spleen, L.node, , skin
/ A
B
C
one /
  • Examination of faeces for parasite ova and cysts etc. by direct Microscopyand concentration methods (salt floatation and formol-ether methods)

One /
  • Egg counting techniques for helminths by Mcmaster technique

  • Preservation of parasites-mounting, fixing, staining etc.
/ A
B
C
  • Examination of blood for protozoa and helminths by wet mount, thick
  • and thin stained smears

  • Examination of blood for microfilariae including concentration techniques

  • Culture media Leishmania donovani in NNN medium

  • Culture of Helminths by Haradimori technique

  • Preparation of stains- Giemsa, Leishman, Methylene blue, Fields stain, Iron hematoxylene, etc

Mycology

Duration in Week / Section / Date / Level of Participation / Teachers comment
Two /
  • Collection and transport of specimens for diagnosis of Fungal diseases
  • Collection technique for dermatophytes from Skin, nail and Hair
/ A
B
C
one /
  • Processing of samples for microscopy and culture
  • o Direct examination of specimens by KOH, Gram’s, Acid fast,
  • Giemsa, Lactophenol cotton blue & special fungal stains

One /
  • Isolation and identification of medically important fungi & commonlaboratory contaminants

  • Comparison of SDA and Special fungal media like Dermatophyte test media alike
/ A
B
C
  • Germ tube test for Candida

  • Special fungal culture techniques e.g. Plates culture, Slide culture

  • Special techniques like hair baiting, hair perforation, paraffin baiting and

Virology

Duration in Week / Section / Date / Level of Participation / Teachers comment
one /
  • Preparation of clinical specimens for isolation of viruses
  • Collection & transport of specimens
/ A
B
C
Two /
  • Serological tests -ELISA for HBsAg, HBsAB, HBeAg, HCV, HEV
  • ICT for HIV, HCV , HEV etc

One /
  • Molecular techniques in virology
/ A
B
C
  • Polyacrylamide Gel electrophoresis for Rota virus

  • Introduction to cell/ Tissue culture
  • Preparation of glassware for tissue cultures (washing, sterilisation).
  • Preparation of buffers like PBS, Hank’s, TBE

Water Bacteriology

Duration in Week / Section / Date / Level of Participation / Teachers comment
one /
  • Examination of Water –
  • Sampling – Tap water, River water, Tube well water
  • Counting indicator bacteria- Fecal Esch coli
  • Filtration method
  • Multiple tube - MPN
/ A
B
C
Two /
  • Examination of Milk –
  • Methylene blue test
  • Phosphatase test

One /
  • Food Bacterilogy
/ A
B
C

Book List

Bacteriology

1.Medical Microbiology,LANGE

2.Mandell, Douglas, and Bennett's Principles and Practice of Infectious Diseases

3.Medical Microbiology Patrick. M. Murry

4.District Laboratory Practice in Tropical Countries; Part 1 and Part II; Monica Cd Cheesbrough, Cambridge university press. Reprint 2007

5.Mackie & McCartney ; Practical Medical Microbiology, Fourteenth Edition, Churcill Livingstone

Immunology

1.Medical Immunology, LANGE

2.Immunology ; Richad A. Goldsby, Janis Kuby

3.Roitt’s Essential Immunology

Parasitology

1.K. D. Chatterjee

2.Medical Parasitology basic and clinical.

Mycology

1.Medically Important Fungi, 4th Edition, Davise H Larone, ASM press, WashingtonDC

2.Human Mycology by Dr. Ahmed Abu Saleh

B. ASSIGNMENT

Date / Topic of Assignment / Duration / Date of Submission / Score / Signature Co-ordinator
1
2
3

C. Journal club Registrar

No. / Topics / Date / Coordinator
1
2
3

D. Seminar Registrar

No. / Topics / Date / Coordinator
1
2

This is to certify that Dr...... having the BSMMU egistration no...... are correct and eligible/not eligible to appear in the Part-I examination.

Signature of the Course Co-ordinator:

Name of the Institute:

Head of the department:

B. ASSIGNMENT

Date / Topic of Assignment / Duration / Date of Submission / Score / Signature Co-ordinator
1
2
3

C. Journal club Registrar

No. / Topics / Date / Coordinator
1
2
3
4
5.
6.

D. Seminar Registrar

No. / Topics / Date / Coordinator
1
2
3
4.
5
6

This is to certify that Dr...... having the DhakaUniversity registration no...... are correct and eligible/not eligible to appear in the Part-II examination.

Signature of the Course Co-ordinator:

Name of the Institute:

Head of the department:
Certificate:

Area of activity

/ Performance / Signature
Attendance
Attention
Laboratory skill
Communication skill
Journal presentation
Seminar presentation
Research skill

Total

Remarks by Head:

Assignments

  1. Discovery of vaccine is a mile stone in the Medical science.
  2. Discovery of solid media is breakthrough in the filed of bacteriology- Discuss
  3. Common bacterial infections in Bangladesh with their prevalence in BD and other parts of world.
  4. Common parasitic infections in Bangladesh with their prevalence in BD and other parts of world.
  5. Common fungal infections in Bangladesh with their prevalence prevalence in BD and other parts of world.

You have been called on to prevent outbreaks of staphylococcal scalded skin syndrome in the nursery of a hospital where an MRSA strain of S. aureus has been isolated. Explain what this organisms is, your main concerns and what procedures you would establish to address them

2. Explain the historical world impact made by epidemic typhus, discussing the disease’s mode of transmission, symptoms and disease progression. Describe how this disease was finally brought under control, explaining current methods of treatment

3. Conduct an on-line search for emerging protozoan pathogens. Identify five of these species and make notes of the sources of infection and diseases caused

  1. All three of the living microbial kingdoms, bacteria, fungi and protozoa co-exist on our planet. If a global catastrophe were to occur, and only ONE of these could be preserved, which would you choose?
  2. A flask of water is inoculated in BA media then heated in hot air oven for at 180 0C for 10 min, 30 min, and 60 min and then inoculated in BA and incubated at 37 0 C? Interpret your findings.
  3. A flask of water is inoculated in BA media then heated in Autoclave for 50 min, 10 min, and 30 min and then inoculated in BA and incubated at 37 0 C? Interpret your findings.
  4. Most important in 20th and 21st century in medical microbiology.
  5. Isolate from Microbes from mobiles used by officers and staff of Microbiology, MMC.
  6. Re-emergence of tuberculosis worldwide: reasons and approaches for a solution.
  7. Occasional spread of polio despite universal vaccination; reasons and approaches towards a solution.

D:\Department\Academic\M Phil\MPhil Academic calendar course curriculum\MPhil Micro course curriculum modified.doc