master of science in medical microbiology and...
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FFaaccuullttyy ooff MMeeddiicciinnee AAiinn SShhaammss UUnniivveerrssiittyy
PPoossttggrraadduuaattee SSttuuddiieess
Master of Science in Medical Microbiology and Immunology
Program Code: (MI600)
انميكروبيىنىجيا انطبيت وانمناعت درجت انماجستير ف
Program Guide and
Logbook
C a n d i d a t e C u r r i c u l u m v i t a e
2
[Name]
Please attach
your recent
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[telephone no]
[mobile no]
[mailing address]
[email address]
[postcode]
Experience
[organization]
[your present job title]
[start date]
[location]
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[organization]
[previous job title]
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3
[start and end date]
[location]
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Education
[certificates]
[start and end date]
[school or college]
Training
[any other training that will be useful in your job]
4
Filled by post graduate authorities
Date of Registration
First semester _______________________
Second semester _______________________
Third semester _______________________
Fourth semester _______________________
TABLE OF CONTENTS:
Page
I – Welcome Statement
II - Mission Statement
5
III – Senior supervisor and affiliated departments and Hospitals
IV – Program specifications
1 - Basic Information
2 - Professional Information
3 - Academic standards
4 - Curriculum structure and contents
5 – Program courses:
Medical Biochemistry
Medical parasitology
Fundamentals of Medical Microbiology and Immunology
and Basics of Infection Control
Systemic and Applied Medical Microbiology and
Immunology and Infection Control
6- Programme admission requirements:
7- Regulation for progression and programme completion
8- Appendix: course specifications
V - General information
VI – Your log book 1 - Introduction
2 - Supervisors, Trainers and/or Educators
3 - Tables for training records
4 – Log book preview
VII - Head of department approval for the exam entry
Detachables forms:
VIII – Thesis follow up
IX - Evaluation forms
I – WELCOME STATEMENT:
The Department of Medical Microbiology and Immunology welcomes you to
the Master of Science Degree in Medical Microbiology and Imunology. As a
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department we are committed to medical student education and continuously strive
to improve your educational experience.
This handbook presents information guide and logbook activity of the Master of
Science Degree in Medical Microbiology and Immunology administered by the
Medical Microbiology and Immunology Department, Faculty of Medicine, Ain
Shams University.
II - MISSION STATEMENT: The mission of the Faculty of Medicine, Ain Shams University is ―The
preparation of a competent graduate, who is able to compete on both national
and regional levels, capable of lifelong learning, training and tutoring, while
adhering to the codes of practice of medical health services and ethics. The
college as well, seeks continuous development of programs and courses. It also
enhances expansion of applied scientific research and health programs for
community services and environmental development. Moreover, through
providing distinguished academic and research cadres of teaching staff,
supporting the administrative system and sustainability of own resources, the
college is able to achieve goals and objectives”.
The mission of this degree is to prepare a trained graduate with managerial
and technical skills in the field of Medical Microbiology and Immunology, capable
of providing health education and participating in infection control and prevention
at hospital and community basis.
III – SENIOR SUPERVISOR AND AFFILIATED DEPARTMENTS AND
HOSPITALS
SENIOR SUPERVISORs
----------------------------------------------
----------------------------------------------
AFFILIATED DEPARTMENTS AND HOSPITALS
Accredited training centers:
o Central Labs of Ministry of Health
o Microbiological Lab of Abbasia Fever Hospital
o Microbiological Lab of Abbasia Chest Hospital
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IV – PROGRAM SPECIFICATIONS
A- Basic Information
1. Programme title:
Master of Science in Medical Microbiology and Immunology
2. Programme type: Single Double Multiple
3. Faculty
Ain Shams University – Faculty of Medicine
4. Department
Department of Medical Microbiology and Immunology
5. Assistant co-ordinator
----------------------------
6. Co-ordinator
----------------------------
7. Last date of programme approval: July 2009
B- Professional Information
1. Programme aims:
On completion of the programme, the candidate will have acquired:
sufficient knowledge and skills to start professional careers as specialist in
the field of medical microbiology and immunology
basic teaching skills of medical microbiology and immunology
capability to participate in supervised or team research
2. Intended learning outcomes (ILOs):
a. Knowledge and understanding:
By the end of the program the candidate will be able to:
a1 - explain basic biology of medically important bacterial, viral, and fungal
agents.
a2 - explain pathogenic mechanisms involved in infection process and the role
of host response in immunopathology.
a3- outline the principles of epidemiology, clinical presentation, and
management of infections.
a4- recognize the principles of immunity and immunological phenomena
which help to understand the pathogenesis and laboratory diagnosis of
infectious and non infectious diseases
a5- Understand the principles of laboratory techniques in the field of medical
bacteriology, virology, mycology and immunology
a6- Recognize potential community-acquired and health care associated
infections and the role of environmental factors.
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b. Intellectual capabilities:
By the end of the programme the candidate will be able to:
b1 - Formulate a systematic approach for laboratory diagnosis of
medically important microorganisms
b2 - Correlate the clinical picture with laboratory information to help the
physician in establishing the appropriate antimicrobial treatment,
prevention and control measures.
b3- Perform risk assessment for all procedures undertaken in the
laboratory
b4- Critically evaluate information and data from a variety of sources, to
interpret quantitatively and qualitatively scientific information, and to
explain complex scientific ideas in written, visual and oral forms.
c. Professional and practical skills:
By the end of the programme the candidate will be able to:
c1-Process all routine specimens received in the laboratory.
c2-Carry out tests necessary for full identification of medically important
viral/bacterial/fungal pathogens
c3-Perform current techniques for antimicrobial susceptibility testing with
appropriate quality control.
c4- Perform and interpret immunological and serological tests.
c5- Operate routine and sophisticated instruments in the laboratory.
c6- Apply the good laboratory practices and biosafety measures in
medical microbiology lab
d. General and transferable skills:
By the end of the programme the candidate will be able to:
d1- Study skills of reading, noting, recall and essay/report writing.
d2- Gain competence in the use of IT skills including e-mail, word
processing, spreadsheets, presentation software, use of the Internet and
on-line library facilities.
d3-Develop the ability to work independently.
d4- Develop interpersonal skills, including team-working.
d5- Develop the ability to plan, organize and prioritize work activities.
d6- Develop skills of written, oral and visual presentation.
3. Academic standards: (Benchmarks)
University of Arkansas Graduate Program, USA
Curriculum for higher specialist training in medical microbiology and
virology, The Royal College of Pathologists, UK
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4. Curriculum structure and contents:
4a- Programme duration: two academic years (4 semesters)
4b- Programme structure:
انمناهج
انكىد انمقرراث اندراسيتانساعاث
انمعتمدة
دورة أساسياث انبحث انعهمي متطهباث انكهيت
انجزء األول MI6001 3 كيمياء حيىيه
MI6002 3 طفيهياث
6 انرسانت
انجزء انثاني
. اساسياث انميكروبيىنىجيا انطبيت وانمناعت 1
دوي وانمبادئ انعامت نمكافحت انع
MI6003 6
. انتصنفياث وانتطبيقاث انعمهيت ف 2
عهم انميكروبيىنىحيا انطبيت وانمناعت
ومكافحت وانعدوي
MI6004 11
االختياريت انمقرراث
مقرر واحد من بين انمقرراث األتيت:
أخالقياث مهنت انطب وانبحث انعهمي
اإلحصاء انطبي
E6034
E6009 1
6 كراست األنشطت
36 انمجمىع
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5. Programme courses:
a. Compulsory
Code Course title No. of hours
L P F SDL
MI6001 Medical Biochemistry and Molecular
Biology 35 20
MI6002 Medical Parasitology 30 30
MI6003
Fundamentals of Medical Microbiology and
Immunology and Basics of Infection
Control
75 30 -
MI6004
Systemic and Applied Medical
Microbiology and Immunology and
Infection Control
105 90 60
L: Lecture, C: Clinical, F: field and SDL: Self directed learning
b. Elective
Code Course title No. of hours
L P F SDL
E9034 Medical and Research Ethics 15
E9009 Medical and research Statistics 15
6. Program admission requirements:
-( : يشترط لقيد الطالب للحصول على درجة الماجستير:6) المادة عمى درجة البكالوريوس في الطب والجراحة من إحدى جامعات جميورية - 1 أن يكون حاصال
موافقة جية العمل -3 أن يكون قد أمضى سنة التدريب )االمتياز( -2 مصر العربية أو عمى درجة معادلة
-5( 1ريف التدريب واستيالك األجيزة واستيفاء المستندات المطموبة في الممحق )تسديد الرسوم ومصا -4 0التفرغ لمدراسة لمدة فصمين دراسيين قبل دخول امتحان الجزء الثاني
-الماجستير األوراق التالية :ة يقدم طالب اإللتحاق لدرج ( :1ملحق )شببببببيادة المببببببيالد أو مسببببببتخرج -04يببببببازشببببببيادة اإلمت -3 0شببببببيادة البكببببببالوريوس -2 0طمببببببب إلتحبببببباق -1
صبور 6عبدد -7 0موافقة جية العمبل عمبى التسبجيل والتفبرغ المطمبوب -6 0الموقف من التجنيد -05رسميبالنسبة لموافدين يقدم الطالب موافقة السفارة ويحدد جية تحمل النفقات كمبا يقبدم شبيادة -8 0فوتوغرافية جديدة
0صحية7. Regulation for progression and program completion
يببتم التسببجيل لمماجسببتير مببرة واحببدة فببي السببنة تبببدأ مببن أول يوليببو حتببى أخببر أغسببطس (: 8مااادة )ويجوز قبول تسبجيل النبواب والمعيبدين والوافبدين فبي الفتبرة 0عمى أن تبدأ الدراسة في شير أكتوبر من كل عام
دخول إمتحبببان الجبببزء األول إال بعبببد إنقضببباء فتبببرة مبببن أول نبببوفمبرحتى أخبببر ديسبببمبر عمبببى أال يسبببم ليبببم بببب .الدراسة المطموبة
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تببوزا الدراسببة فببى كببل عببام جببامعى عمببى فصببمين دراسببيين مببدة كببل منيمببا خمسببة عشببر (: 9مااادة )اسبببوعا ي يبببدا االول فببى أول أكتببوبر ويبببدا الثببانى فببى منصببف فبرايببري مببف تنكببيم فصببل دراسببى صببيفى مكثببف
تم التسببجيل لمفصبل الدراسببى قبببل اسببوعين مببن بدايتبو عمببى االقببل بعبد إسببتيفاء الشببروط لمبدة سببتة اسبابيف ي و يببسببباعات معتمبببدةي 6حسبببب المقبببررات المسبببجمةي والينبدبببى أن يزيبببد العببببء الدراسبببى فبببى الفصبببل الواحبببد عبببن
جبوز ويجوز لمطالب تعبديل المقبررات خبالل اسببوعين مبن بدايبة الفصبل الدراسبى )بالحباف او االضبافة(ي كمبا ي لو االنسحاب خالل ستو اسابيف من احد المقرارت دون احتسابو راسبا فيوي
: مدة الدراسة لمحصول عمى درجة الدبموم أو الماجستير ىى أربعة وعشرون شيرا ( 11المادة ) )أربعة فصول دراسية( عمى جزئين يجتاز فييا الطالب برنامجا تدريبيا متكامال طبقا لمساعات المعتمدة
وال يسم لو بدخول األنشطة الموضحة بالباب الرابف ويستوفى خالليا المطموب منة فى كتيب متابعة 0اإلمتحان قبل إستيفاء ثالثة أرباا المطموب منة في كل جزء من البرنامج
يجتاز بعدىا واحد الدبموم والماجستير الجزء األول فصل دراسي فيمدة الدراسة ( :12المادة )إمتحانا وال يشترط النجاح فيو بالكامل لإلنتقال لمدراسة في الجزء الثانيي والجزء الثاني يتطمب تفرغ الطالب يبأحد المستشفيات أو المراكز المعتمدة من الكمية لمدة فصمين دراسيين لمتدريبالطالب
أو يقوم الدارس لدرجة الماجستير بتسجيل موضوا الرسالة عمى شكل بحث نكري( : 13مادة )عمى من التسجيل عممي بعد إستيفاء فصل دراسي واحد عمى األقل ويجوز أن يناقش رسالتة بعد ستة شيور
صاألقل عمى أن يكون قد نج فى مقررات الجزء األول بالكامل وقبل دخول إمتحان الجزء الثاني وال يخص 0ت ليا درجا
معة قبل تسجيل الرسالة ومتطمبات يقوم دارس الماجستير بإستيفاء متطمبات الجا( : 14مادة )متطمبات الجامعة ىي الحصول عمى شيادة التويفل في المدة و يالكمية قبل دخول إمتحان الجزء الثاني
درجة عمى األقل( ومتطمبات الكمية ىي حضور دورات معتمدة من لجنة الدراسات 450اإلنجميزية بمجموا ) واإلحصاء الطبى أو بإجتياز إختبارات خاصة تحددىا المجنةي مىمناىج البحث العمالعميا بالكمية في مجال
يجوز لمحاصمين عمى درجة الدبموم إستكمال درجة الماجستير بتسجيل رسالة (: 15مادة )الماجستير خالل أربف سنوات من الحصول عمى درجة الدبموم ويحصل عمى الدرجة بعد إستيفاء متطمبات
الة بنجاحي الجامعة والكمية ومناقشة الرسالساعات المعتمدة لدراسة الدبموم والماجستير ثالثون ساعة معتمدة عمى األقل (: 16مادة )
وتشمل ست ساعات عمى األقل لمجزء األول وثماني متابعة األنشطة يخصص منيا ست ساعات لكتيب ويضاف إلييا ست ساعات لمرسالة فى الماجستيري عشرة ساعة عمى األقل لمجزء الثاني
يلماجستير أربف سنواتامدة القيد لدرجة (: 22مادة ) درجة لمجزء 300درجة منيا 1200مماجستير لمجموا درجات االمتحان النيائى (: 24مادة )
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يمماجستيردرجة ل 300يوازى مى التراكمى بما صاألولي ويضاف الييا المعدل الفمن كل عام ويعقد إمتحان الدور الثاني يعقد إمتحان الدور األول في أكتوبر ونوفمبر (: 25مادة )
فى أبريل ومايو من كل عامي % من 60يكون النجاح فى كل مادة من الدبموم العالى والماجستير بعد الحصول عمى (: 26مادة )
% من درجة60الدرجة الكمية لكل لجان المادة مجتمعة ويكون النجاح فى مواد الدكتوراه بعد الحصول عمى ممي واالكمينيكى والشفوي كل عمى حدةيالتحريري والع
(: فبى حالببة إسببتنفاا مبدة القيببد يمكببن لطالبب الدراسببات العميببا إعبادة التسببجيل مببرة أخببرى وال 29)مااادة يعتد بالنجاح فى الجزء األول أو الرسالة ويجب إعادتيماي
Assessment Schedule and Weighing of Assessments
Item Mark
Po
ints
GP
A s
core
ةطان
اننححا
Stu
den
t
sta
te
During
semester
End of
semester Total
First semester (If present) 100 300 400
Second semester 100 100
Third semester 100 100
Fourth
semester
Final exam
Written
900 900
Oral
Practical
/Clinical
Total 300 1200 1500
عه انىج انران:يهحىظح: ذعادل درجاخ انطانة طثقا نهقاط
نقاط 4 : % فأكثر 09 -1 A
نقاط 3.63 : % 09% حت أقم من 55من -2 A-
نقاط 3.33 : %55% حت أقم من 59من - 3 B+
نقاط 3.99 : %59حت أقم من %35من - 4 B
نقاط 2.63 : %35% حت أقم من 39من - 5 B-
نقاط 2.33 : %39% حت أقم من 65من - 6 C+
نقاط 2.99 : %65% حت أقم من 62من -3 C
نقاط 1.63 : %62% حت أقم من 69من - 5 C-
F صفر : %69أقم من - 0
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درجح نهجسء 011درجح يها 0011يجىع درجاخ االيرحا انهائ نهدتهىو انعان واناجسرير
درجح نهجسء األول إ وجد. 011درجح يها 0011األول ويجىع درجاخ االيرحا انهائ نهدكرىرا
درجح 011دتهىو انعان واناجسرير ودرجح نه 011ه انرراك تا يىازي صويضاف إنيها انعدل انف
.نهدكرىرا
( عهى ساىاش يجىىع حاضىم نىرب قىاط كىم يقىرر يضىروتا GPAويرى حساب انعدل انفصه )
ف عدد ااعاذ انعردج يقسىيا عه انساعاخ انعردج نهقرراخ انر دراىها انطانىة فى انفصىم اندرااى.
( عهى ساىاش يجىىع حاضىم نىرب انقىاط انرى حصىم CGPAانعدل انرراك نهطانة ) كا يرى حساب
عهيها انطانة ف كم يقرر يضروتا ف عدد ااعاذ انعردج يقسىيا عه يجىع انساعاخ انعردج انكهيح.
يىىرى سو انىىدكرىرا واناجسىىرير فىى انىىدتهىو سقىىرراخ انفىى حانىىح انراىىىب فىى يىىادج سو يجىعىىح يىى
ويرى حساب انرقىدير انفعهى انىيي يحصىم عهيى فى سول إعىادج فقىظ سيىا إ ا ىعح فقظ. اإلعادج ف انادج سو انج
قاط اي 0.01% فقظ )اي01ذكرر راىتح فيحسة ن عد انجاح ذقدير -
C).
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Course Specifications
Medical Biochemistry and Molecular Biology Course Specifications
Ain Shams University Faculty of Medicine
Course specifications
Programme(s) on which the course is given: Master of Science in Medical
Mcrobiology and Immunology
Major or minor element of programmes: Major
Department offering the programme: Medical Microbiology and Immunology
Department offering the course: Medical Biochemistry and Molecular Biology
Academic year / Level: 1st semester
Date of specification approval :…………July 2009……………………………..
A- Basic Information
Title: Medical Biochemistry and Molecular Biology
Code: MI6001
Credit Hours: 3
Lectures: 35 Practical: 20 Total: 55
Co-ordinator
-----------------------------
B- Professional Information
1 – Overall aims of course: help the candidate to
Acquire core knowledge in the field of medical biochemistry, both at
cellular and molecular level, relevant to human health and disease
Acquire a thorough understanding of the basic principles of molecular
biology and the tools of DNA technology in order to be able to read and
interpret scientific papers and to interpret experimental data and
diagnostic laboratory results in molecular biology.
2- Intended learning outcomes (ILOs) from the course:
A- Knowledge and understanding
By the end of the course the candidate will be able to:
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a1- Explain the methods of classification and regulation of enzymes as well as
kinetics of enzymes, enzyme inhibitors, and diagnostic utility of enzymes.
a2- Describe the metabolic pathways of carbohydrates, their energetics, their sites,
and the ways of their regulation.
a3- Compare exergonic and endergonic reactions, and define ATP sources and
functions in the living cell
a4- Describe the components of mitochondrial ETC and their inhibitors.
a5- Describe membrane architecture and different cross-membrane signaling
pathways
a6- Understand the structure, function and organization of human genomes
a7- Describe the main principles of methods for preparation and extraction of DNA
and RNA.
a8. Understand the main principles of methods for DNA amplification (PCR, RT-
PCR, Real-time PCR, etc.)
a9- Identify the main principles of methods for DNA sequencing
a10- Describe the main principles of DNA and RNA blotting
a11- Understand the concepts of recombinant DNA technology
a12- Understand the applications of molecular biology techniques in the diagnosis,
species and strain differention of microorganisms.
a13- Understand the applications of molecular biology techniques in genetic
testing, in paternity testing, studying drug resistance, and vaccine and drug
development.
a14- Describe the molecular basis of cancer, and role of telomerase and apoptosis
in tumorogenesis
b- Intellectual skills
By the end of the course the candidate will be able to:
b1- Integrate basic molecular biology facts with microbiological data.
b2- Identify the appropriate molecular biology technique required for diagnosing
infectious diseases.
b3- Analyse and interpret the results of molecular biology techniques.
b4- Identify tumor-associated genetic defects related to viral infections.
c- Professional and Practical skills
By the end of the course the candidate will be able to:
c1- Incorporate new molecular biology knowledge and tools into research projects
c2- Use the computer to retrieve and compare molecular biology data
16
c3- Solve any subject-related problems provided by staff
c4- Apply methods to prevent contamination of the lab and equipments.
c5-Follow proper method of disposal of biohazardous samples (infectious,
carcinogenic, etc.).
c6- Interpret the results of DNA sequencing
c7- Interpret the results of PCR and RT-PCR, site-directed mutagenesis, and DNA
finger printing
d- General and transferable skills
By the end of the course the candidate will be able to:
d1- develop the skills of working in teams
d2- develop appropriate relationships with patient and family
d3- Use basic computing skills and internet to follow electronic lectures
d4- Communicate relevant information with teaching staff and colleagues
d5- Search gene and protein Database.
d6-Use molecular biology software.
3- Course contents:
Contents No of hours
L P T SDL
Introduction to Biochemistry 1
Carbohydrate metabolism 4
Bioenergetics 4
Enzymes 4
Biological Membranes and Signal transduction 4
Gene and Genomes.
Structure of DNA and RNA,
DNA Replication and RNA Transcription 8
Cell Cycle Regulation and Cancer (Oncogenes
and Tumor suppressor genes) 2
Apoptosis 2
Cell aging and Telomerase 2
Regulation of gene expression 2
Gene therapy 2
Recombinant DNA technology 4
17
Molecular biology techniques ( Extraction of
DNA & RNA, PCR and RT-PCR , Blotting
techniques and Hybridization techniques)
6
DNA sequencing 2
Branched DNA technology 2
DNA finger printing 4
Site directed mutagenesis 2
6 -- List of References
6.1- Course Notes (paper and / or electronic)
Lectures notes and Practical Biochemistry book provided by the staff of Medical
Biochemistry and Molecular Biology Department.
6.2- Essential Books (Text Books)
USMLE Road Map Biochemistry, Macdonald R, McGraw-Hill Medical Pub.
Textbook of Biochemistry with Clinical Correlations, Devlin TM, Wiley-Liss, Inc.
Pub.
6.3- Recommended Books
Lippincott's Illustrated Reviews: Biochemistry, Champe PC, Lippincott
Williams & Wilkins Pub.
Harper's Illustrated Biochemistry, Robert K. Murray RK, Granner DK,
Mayes PA and Rodwell VW, McGraw-Hill Medical Pub.
Lehninger Principles of Biochemistry, Nelson DL and Cox MM, Freeman
Pub.
Biochemistry lecture notebook, Berg JM, Tymoczko JL and Stryer L,
Freeman Pub.
18
Medical Parasitology Course Specifications
Ain Shams University Faculty of Medicine
Course specifications
Programme: Master degree Of Medical Microbiology and Immunology
Major or minor element of programmes: Major
Department offering the programme: Medical Microbiology and Immunology
Department offering the course: Medical Parasitological Department.
Academic year / Level: Master First Semester
Date of specification approval: July 2009
A- Basic Information
Title: Medical Parasitology Code: MI6002
Credit Hours: 3 credits
Lecture: 30 Practical: 30
Total: 60 hours
Coordinator: -----------------------------
B- Professional Information
1 – Overall aims of course: help the candidate to
Acquire basic knowledge of Medical Parasitology including
Helminthology, and Protozoology
Acquire practical skills and experience in the laboratory diagnosis of
parasitic infections.
2- Intended learning outcomes (ILOs) from the course:
a- Knowledge and understanding
By the end of the course the candidate will be able to:
19
a1. Identify parasitic infections of major significance to public health with an
emphasis on the endemic infections in Egypt.
a2. Demonstrate knowledge and understanding of the biology, pathogenesis,
diagnosis, prevention and control of parasitic infections of medical importance.
a3. Explain the principals of immunoparasitology and identify parasitic infections
commonly occurring in immunocompromised patients.
b- Intellectual skills
By the end of the course the candidate will be able to:
b1. Interpret specific symptoms and signs caused by certain parasitic infections.
b2. Choose the best laboratory investigations to verify the presence of certain
parasites and interpret the clinical and laboratory findings to reach a proper
diagnosis.
b3. Formulate a plan for differential diagnosis with prioritization of the common
possibilities for each parasitic infection.
c- Professional skills
By the end of the course the candidate will be able to:
c1- Apply safety measures in the parasitology laboratory.
c2- Collect and process different clinical specimens for diagnosis of parasitic
infections of medical importance
c3- Identify microscopically the parasites with their different stages in urine stool
and blood specimens
d- General and transferable skills
By the end of the course the candidate will be able to:
d1- Plan and implement efficient and effective modes of team working.
d2- Choose and use appropriate computer program packages, electronic filling
management, locate and download online data.
d3- Find information independently and visit different internet sites.
d4- Find effective solutions for work problems
3- Course content:
20
TOPICS No of hours
L P/C SDL
I. Introduction to parasitology
Host-Parasite relationship
Clinical manifestations of parasitic diseases
Prevalence and transmission of parasitic infections
Taxonomy and classification
Anti-parasitic drugs.
2
II. Phylum Platyhelminthes
Class: Trematoda
Introduction
Fasciola gigantic , F. hepatica , Fasciolopsis buski
Heterophyes heterophyes , Metagonimus yokogawai
Schistosoma haematobium, S. mansoni, S. japonicum
Paragonimus westermani
Class: Cestoidea
Diphyllobothrium latum, Diphyllobothrium mansoni)
Taenia saginata, Taenia solium
Echinococcus granulosus, Echinococcus
multilocularis
Dipylidium caninum
Hymenolepis nana, Hymenolepis diminuta
3
3
4
III. Phylum: Nemathelminthes
Trichocephalus trichuris
Capillaria hepatica
Capillaria philippinensis
Trichinella spiralis
Strongyloides stercoralis
Ancylostoma duodenale , Ancylostoma braziliense ,
Ancylostoma caninum , Necator americanus
Ascaris lumbricoides , Toxocara sp.
Enterobius vermicularis
Wuchereria bancrofti , Wuchereria malayi
Onchocerca volvulus
Loa loa
Dracunculus medinensis
3 4
IV. PROTOZOA
Phylum Sarcomastigophora 3 4
21
Class: Rhizopoda
Entamoeba histolytica
Entamoeba coli
Acanthamoeba spp .
Naegleria fowleri
Class: Zoomastigophorfa (flagellates)
Leishmania donovani complex
Leishmania tropica complex
Leishmania mexicana complex
Leishmania braziliensis complex
Trypanosoma brucei gambiense
Trypanosoma brucei rhodesiense
Trypanosoma cruzi
Giardia lamblia
Trichomonas vaginalis
3
Phylum Ciliophora Balantidium coli
Phylum Apicomplexa (Sporozoa)
Class : Sporozoa Cryptosporidium parvum
Eimeria and Isospora
Toxoplasma gondii
Plasmodium vivax
Plasmodium ovale
Plasmodium malariae
Plasmodium falciparum
Babesia spp.
1
3
V. MEDICAL ENTOMOLOGY
CLASS INSECTA ORDER: DIPTERA [Mosquitoes and Flies]
Phlebotomus papatasii (Sandfly)
Mosquitoes: Anopheles , Culex , Aedes.
Simulium spp
Culicoides sp.
Glossina spp
Musca domestica, Stomoxys calcitrans
Myiasis causing flies (Calliphora, Sarcophaga, Wohlfartia
3
4
22
spp)
and Myiasis
ORDER: SIPHONEPTERA [Fleas]
Pulex irritans
Ctenocephaledes canis
Ctenocephaledes felis
Xenopsylla cheopis
Tunga penetrans
ORDER: ANOPLURA (Lice: biting lice and sucking lice)
Pediculus humanus capitis , Pediculus h. corporis
Phthirus pubis
ORDER: HEMIPTERA
Cimex lectularius
Triatoma megista
CLASS ARACHNIDA (TICKS and MITES)
Hard Ticks
Soft Ticks
Sarcoptes scabiei
Trombicula akamuchi
CLASS CRUSTACEA (Cyclops)
Vector control
Insecticides, rodenticides
House dust mites
Myiasis
2
1
1
1
4
VI. Nosocomial Parasitic Infections 1
VII. Diagnostic parasitological techniques (for Trematoda, Cestoda, Nematoda
and Protozoa) including:
Collection, preservation, transport of fecal specimens
Macroscopic and microscopic examination of fecal
specimens
Examination of blood for parasites
Cultivation of parasites
Other specimens
Parasitic infections of compromised hosts
10
23
L: Lecture P: Practical F: Field training and SDL: Self directed learning
4 - Student Assessment Methods:
Written exam. to assess knowledge and intellectual skills: 90 Marks
Oral exam to assess knowledge and intellectual skills: 15 marks
Practical exam to assess practical skills: 45 Marks
5- Weighing of Assessment of :
5.1-Biochemistry exam (150 Marks) distributed as follows:
Written exam 90
Clinical exam 45
Oral exam 15
5.2-Paracitology exam (150 Marks) distributed as follows:
Written exam 90
Clinical exam 45
Oral exam 15
5.3-End of semester exam: 100 marks
6- List of References
6.1- Course Notes (paper and / or electronic)
6.2- Essential Books (Text Books) a) Clinical Parasitology: by Craig, Faust , Beaver (Lippincott
Williams & Wilkins, US; 9th edition).
b) Manson's Tropical Diseases: by Cook and Zumla (Saunders Ltd.;
21st edition).
c) Foundations of Parasitology: by Schmidt and Roberts (Times Mirror
/ Mosby College Publishing).
d) Diagnostic Medical Parasitology: by Garcia (American Society for
Microbiology; 5th
edition).
e) Markell and Voge's Medical Parasitology: by John , Petri
(Saunders; 9th edition).
f) Atlas of Tropical Medicine and Parasitology: by Peters and, Pasvol
(Mosby 6th).
g) Immunology and Molecular Biology of Parasitic Infections: by
Warren (Blackwell Science Ltd; 3rd Ed edition)
h) Immunity to Parasites: How Parasitic Infections are Controlled: by
Wakelin (Cambridge University Press; 2 edition)
6.3- Recommended Books
24
1. Diagnostic Medical Parasitology: by Garcia (American Society
for Microbiology; 5th
edition)
2. Manson's Tropical Diseases: by Cook and Zumla (Saunders
Ltd.; 21 edition)
6.4- Periodicals, Web Sites, etc
1. Egyptian Journal of Parasitology
2. Parasitologists United Journal
3. Egyptian Journal of Basic Sciences
4. Egyptian Journal of Immunology
5. American Journal of Tropical Medicine and Hygiene
6. Transaction of Royal Society of Tropical Medicine and Hygiene
7. Journal of Clinical Microbiology
8. Journal of Infectious Diseases
9. European Journal of Clinical Microbiology
10. WHO: www.who.int
11. Parasitology Division, Center of Disease Control: www.cdc.dpdx.gov
12. Pubmed: www.ncbi.nlm.nih.gov
13. Clinical Microbial Review: www.cmr.asm.org
14. American Society of Microbiology: www.asm.org
15. TDR, a Special Programme for Research and Training in Tropical
Diseases: www.who.int/tdr/
16. The World Organisation for Animal Health (OIE): http://www.oie.int/
17. The American Society of Parasitologists (ASP):
http://asp.unl.edu/index.php
18. Microbiology, Immunology and Parasitology course online ―South
Carolina University:www.med.sc.edu:85/book/parasit-sta.htm
25
Fundamentals of Medical Microbiology and Immunology and Basics of
Infection Control Course Specifications
University: Ain Shams Faculty: of Medicine
Course specifications
Programme(s) on which the course is given: Master of Science in Medical
Microbiology and Immunology
Major or minor element of programmes: Major
Department offering the programme: Medical Microbiology and Immunology
Department offering the course: Medical Microbiology and Immunology
Academic year / Level: 2nd
, semester
Date of specification approval : July 2009………………………………………..
A- Basic Information
Title: Medical Microbiology Code: MI 6003
Credit Hours: 6 Lectures: 75 (5 cr)
F: - Practical: 30 (1 cr) Total: 105
Co-ordinator
-----------------------------
B - Professional Information
1 – Overall aims of course:
At the end of this course the candidates will:
Acquire a comprehensive knowledge as regards biological characteristics of
medically important bacteria, fungi and viruses.
Understand the pathogenic mechanisms involved in infection process and the role
of host response in immunopathology.
Acquire a core knowledge and understanding in the subject areas of cellular and
molecular components of the immune system.
Identify the basic principles and practices of infection prevention and control.
26
2- Intended Learning Outcomes (ILOs) from the Course:
a- Knowledge and understanding
By the end of the course the candidate will be able to:
a1. Understand basic biology of bacteria, fungi and viruses responsible for human
disease including structure, replication and growth.
a2. Identify methods of controlling microbial growth in vitro
a3. Understand principles of microbial genetics and their applications in the field
of medical microbiology
a4. Recognize basis of bacterial taxonomy, classification and identification
a5. Explain pathogenic mechanisms involved in establishing of medically
important infections
a6. Understand epidemiological characteristics of infectious diseases
a7. Identify different classes of antimicrobial drugs, their mechanisms of action
and development of resistance
a8. Recognize the molecular and cellular mechanisms involved in the
development and regulation of the immune response.
a9. Identify risk factors and epidemiological characteristics for health care
associated infection transmission
a10. Recognize job description for IC positions
a11. Identify principles of healthcare personnel safety and health
a12. Recognize principles of rational use of antimicrobials
a13. Describe, the indication, optimal methods for collection, transport, storage,
reception, identification and documentation of different clinical and environmental
specimens.
a14. Explain the principles of different microbiological and immunological
laboratory techniques
b. Intellectual Skills
By the end of the course the candidate will be able to:
b1. Apply principles of microbial cell biology and microbial genetics in clinical
and research problems
b2. Differentiate types of host microbe interactions
b3. Correlate different microbial pathogenic mechanisms with disease process
b4. Interpret the results of different antimicrobial tests
b6. Interpret the results of some serological and antigen based techniques
b7. Interpret results of different laboratory bacterial identification tests
b9. Classify different microbes according to risk groups
27
b10. Appreciate the danger of handling and use of infectious agents on community
and environment
c. Practical Skills
By the end of the course the candidate will be able to:
c1. Formulate a policy on the use of sterilization and disinfection in the laboratory,
hospital or community
c2. Supervise collection, and safe handling of all routine specimens
c3. Process all routine specimens received in the laboratory.
c4. Perform current techniques for antimicrobial susceptibility testing with
appropriate quality control.
c5. Perform and interpret immunological and serological tests.
c6. Operate routine and sophisticated instruments in the laboratory.
c7. Apply the good laboratory practices and biosafety measures in medical
microbiology lab
d- General and transferable skills
By the end of the course the candidate will be able to:
d1. Communicate effectively through oral presentation, computer processing,
written reports and scientific publications
d2. Acquire management skills: decision processes, objective criteria, problem
definition, research design and evaluation, teem-work and coordination.
d3. Integrate and evaluate information from a variety of sources.
d4. Manage resources and time.
d5. Learn independently with open- mindedness and critical enquiry.
3- Course content:
Topic No of hours
I. Bacteriology & Mycology: 2 Cr. H L P F SDL
1. Prokaryotic cell structure
Cell wall- Cell membrane-Directed movement of molecules
across cytoplasmic membrane (transport & secretion)-
Surface layers external to cell wall- Filamentous protein
appendages- Internal structures
2
2. Dynamics of prokaryotic growth
Principles of bacterial growth- Factors influencing bacterial
growth (environmental & nutritional)- Bacterial growth in
lab. conditions (growth curve- colony growth- continuous
culture)- Bacterial growth in nature (bacterial communities
interactions- biofilms)
2
28
3. Control of microbial Growth in vitro
Principles of control- Using heat, chemicals and radiation to
destroy microorganisms- Removal of microorganisms by
filtration- Preservation
2
4. Bacterial Metabolism
Central metabolic pathways- Respiration- Fermentation 2
5. Bacterial Genetics
Mutation (spontaneous & induced)- Repair of damaged
DNA- DNA mediated transformation- Transduction and
bacterial viruses- Plasmids and conjugation- Transposable
elements- Genetic transfer of virulence factors- Barriers to
gene transfer – Recombinant DNA biotechnology
3
6. Identification and Classification of bacteria
Principles of taxonomy- Phenotypic characteristics-
Genotypic characteristics- Studying strain differences and
relatedness
2
7. Host Microbe interactions
Anatomical barrier and normal flora- Principles of infectious
diseases- Establishing the cause of infection- Bacterial
pathogenesis and establishment of infection-
2
8. Epidemiology of infectious diseases
Principles of epidemiology- Epidemiological studies-
Infectious disease surveillance- Trends in infection
2
9. Antimicrobial medications
History and development- Features ( selective toxicity-
spectrum of activity- tissue distribution, metabolism and
excretion)- Mechanisms of action- Resistance to
antimicrobials- Combined antimicrobial therapy-
Prophylactic use- Adverse effects and complications
3
Total 20
II. Virology: 1 Cr. H L P F SDL
1. General properties of viruses , Classification and
nomenclature of viruses 2
2. Principles of virus structure 2
3. Virus Genome Replication 2
4. Pathogenesis and Control of Viral Diseases 2
5. Viral Genetics 2
6. Host Defenses against Viral Infection and Viral
Counterdefenses 1
7. Antiviral drugs 2
29
8. Viral vaccines 1
9. Laboratory Diagnosis of Viral Infections 1
Total 15
III. Immunology : 2 Cr. H L P F SDL
1. Overview of the Immune System
(Historical Perspective, Innate Immunity, Adaptive
Immunity, Comparative Immunity, Immune Dysfunction and
Its Consequences).
2
2. Cells and Organs of the Immune System
(Hematopoiesis, Cells of the Immune System, Organs of the
Immune System (structure &function), lymphocyte
Recirculation).
2
3. Innate Immune Response
(Mechanical and chemical barriers, Pattern recognition
receptors, Phagocytosis, acute phase response, Leukocyte
Migration and Inflammation).
2
4. Cell-Adhesion Molecules, Chemokines—Key Mediators
of Inflammation. 4
5. Antigens
(Immunogenicity Versus Antigenicity, Factors That
Influence Immunogenicity, Epitopes, Haptens, Pattern-
Recognition Receptors, Heterophil antigens, Adjuvants).
2
6. Antibodies: Structure and Function
(Immunoglobulin Fine Structure, Antibody-Mediated
Effector Functions, Antibody Classes and Biological
Activities, Antigenic Determinants on Immunoglobulins, The
B-Cell Receptor, The Immunoglobulin Superfamily,
Monoclonal Antibodies).
2
8. Major Histocompatibility Complex
(General Organization and Inheritance of the MHC, MHC
Molecules and Genes, Detailed Genomic Map of MHC
Genes, Cellular Distribution of MHC Molecules, Regulation
of MHC Expression, MHC and Immune Responsiveness,
MHC and Disease Susceptibility )
2
9. Antigen Processing and Presentation
(Antigen-Presenting Cells, Self-MHC Restriction of T Cells,
Endogenous Antigens: The Cytosolic Pathway, Exogenous
Antigens: The Endocytic Pathway, Presentation of
Nonpeptide Antigens).
2
30
10. T-Cell Receptor
(αβ and γϨ T-Cell Receptors: Structure and Roles,
Organization and Rearrangement of TCR Genes, T-Cell
Receptor Complex: TCR-CD3, T-Cell Accessory Membrane
Molecules,Three-Dimensional Structures of TCR-Peptide-
MHC Complexes).
2
11. T-Cell Maturation, Activation, and Differentiation
(T-Cell Maturation and the Thymus, Thymic Selection of the
T-Cell Repertoire, TH-Cell Activation, T-Cell
Differentiation, Cell Death and T-Cell Populations,
Peripheral γϨ T-Cells. Antigen-Presenting Cells).
2
12. B-Cell Generation, Activation, and Differentiation
(B-Cell Maturation, B-Cell Activation and Proliferation,
Regulation of the Immune Effector Response).
2
13. The Complement System
(The Functions of Complement, The Complement
Components, Complement Activation, Regulation of the
Complement System, Biological Consequences of
Complement Activation, Complement Deficiencies).
2
14. Cytokines
(Properties of Cytokines, Cytokine Receptors, Cytokine
Antagonists, Cytokine Secretion by TH1 and TH2 Subsets,
Cytokine-Related Diseases, Therapeutic Uses of Cytokines
and Their Receptors, Cytokines in Hematopoiesis).
2
15. Cell-Mediated Effector Responses
(Effector Responses, General Properties of Effector T Cells,
Cytotoxic T Cells, Natural Killer Cells, Antibody-
Dependent Cell-Mediated Cytotoxicity).
2
Total 30
IV. Infection Control: 1Cr.H L P F SDL
1. Definitions of health care associated infections (HAIs) 1
2. Risk factors for nosocomial infection transmission 2
3. Epidemiological aspects of HAIs 1
4. Organizational structure for infection prevention and
control program
The roles and responsibilities of the infection control team
2
31
and committee
5. Antimicrobial stewardship:
Rational use of antimicrobials
Clinical use of antibiotics for therapy and prophylaxis.
Antibiotic resistance: reservoirs and how to prevent.
Antibiotic policy.
2
6. Occupational health and safety 2
Total 10
Applied
1. Biosafety in microbiological laboratories 2
2. Approaches to diagnostic microbiology
Specimen collection
Culture containers and media
Culture of bacteria
Identification tests
Immunological and serological methods
Nucleic acid based techniques
12
3. Quantification in microbiology: Methods to detect and
measure bacterial growth 6
4.Antimicrobial susceptibility tests, lab control of
antimicrobial therapy 8
5. Management of experimental animals 2
Total 30
L: Lecture P: Practical F: Field training and SDL: Self directed learning
4 - Student Assessment Methods:
Written exam. to assess knowledge and intellectual skills
Oral exam to assess knowledge and intellectual skills
Practical exam to assess practical skills
5- Weighing of Assessment :
5.1- Written exam 150
Clinical exam 120
Oral exam 30
5.2-End of Semester exam (100 marks)
32
6 -- List of References
5.1- Essential Books (Text Books)
Jawetz, Melnick & Adelberg’s Medical Microbiology
Medical Microbiology, Greewood D., Slack R., Peutherer J., and Barer M.
Mackie & McCartney Practical Medical Microbiology
Basic Immunology, Aul K. Abbas, Andrew H. Lichman. Elsevier Science
(USA).
Medical Immunology, Tristram G. Parslow, Daniel P. Sites, Abba I. Terr
and John B. Imboden. McGRAW- Hill Companies, Inc.
International Federation of Infection Control: Basic Concepts
(www.theific.org).
APIC Text of Infection Control and Epidemiology, Association for
Professionals in Infection Control and Epidemiology, INC.
5.2- Recommended Books
Manual of Clinical Microbiology
Bailey & Scott’s Diagnostic Microbiology
Basic Virology, Edward K. Wagner R. and Atinez J.
Fundamental Virology, Bernard N. and david M. Publisher: Lippincott
Williams & Wilkins,.
Fields Virology: (Vol.1&2) by Bernard N. Fields (Editor), David M.
Knipe (Editor), Peter M. Howley
Immunobiology, The Immune System in Health and Disease, Charles A.
Janeway, Paul Travers, Mark Walport and Marl J. Shlomchik Churchill
Livingstone, New York.
Cellular and Molecular Immunology, Abul K. Abbas, Andrew H.
Lichman. Elsevier Science (USA).
CDC, Infection Control in Healthcare Settings
http://www.cdc.gov/ncidod/dhqp/
WHO, Infection Control Health topics
http://www.who.int/topics/infection_control/en/
Information Resources in Infection Control
http://www.theific.org/pdf_files/damani_IFIC_resource_5theditiodf
33
Systemic and Applied Medical Microbiology and Immunology and Infection
Control course specifications
University: Ain Shams Faculty: of Medicine
Course specifications
Programme(s) on which the course is given: Master of Science in Medical
Microbiology and Immunology
Major or minor element of programmes: Major
Department offering the programme: Medical Microbiology and Immunology
Department offering the course: Medical Microbiology and Immunology
Academic year / Level: 3rd
and 4th
semesters
Date of specification approval: July 2009 ………………………………………..
A- Basic Information
Title: Medical Microbiology Code: MI 6004
Credit Hours: 11 Lectures: 105
F: 60 Practical: 90 Total: 255
Co-ordinator
------------------------------
B - Professional Information
At the end of this course the candidates will:
Acquire a comprehensive knowledge as regards microbiological
characteristics, modes of transmission, pathogenesis and outcomes of common
medically important microbial infections.
Recognize modern approaches to the development of therapeutic agents and
vaccines for the prevention of human microbial diseases of major significance
to public health.
Recognize how the normal function of the immune system eliminates
microorganisms, and how its abnormal function leads to human disease.
Gain an in-depth knowledge of cancer and transplantation immunology,
autoimmunity, hypersensitivity defects in the immune system, and
immunodeficiency.
Acquire knowledge and sufficient practical skills to be a competent specialist
in the field of medical microbiology and immunology
34
Be able to participate in education, training and raising awareness regarding
infection prevention and control at health care farcicalities and community
level.
Be trained in basic research methodology so that they are able to conduct
fundamental and applied research.
Be trained in teaching methods so that they can take up teaching assignments
2- Intended Learning Outcomes (ILOs) from the Course:
a- Knowledge and understanding
By the end of the course the candidate will be able to:
a1. Recognize microbiological, epidemiological and clinical characteristics of
medically important microorganisms.
a2. Understand concepts and tools of laboratory diagnosis of medically important
bacterial, fungal and viral infections.
a3-Recognize methods of prevention and treatment of medically important
bacterial, fungal and viral infections infection.
a4-Discuss viral induced oncogenesis.
a5- Explain the different ways by which the immune system responds to different
types of microbes and how they can evade the host’s immune response.
a6- Identify different types of vaccines, methods of preparation and their
application in clinical settings.
a7- Understand the ways in which defects in the immune system can lead to
hypersensitivity, autoimmunity, tumor and immunodeficiency.
a8- Organize the way of manipulation of the immune system for management of
the transplantation and cancer.
a9. Identify evidence based guidelines for general and standard infection
prevention and control measures
b- Intellectual skills
By the end of the course the candidate will be able to:
b1. Formulate a systematic approach for laboratory diagnosis of medically
important microorganisms
b2. Correlate the clinical picture with laboratory information to help the physician
in establishing the appropriate antimicrobial treatment, prevention and control
measures for infectious diseases
b3. Perform risk assessment for all procedures undertaken in the laboratory
b4- Plan, carry out and evaluate research in the field of medical microbiology and
immunology.
35
b5-Evaluate, analyze and interpret laboratory tests related to applied medical
microbiological and immunological problems.
b6. Perform an infection-control oriented risk assessment for all procedures
undertaken in the hospital, including the laboratory and for all categories of
workers, including the pregnant and immuno-compromised.
b7. Apply clinical and microbiological parameters for identification of HAIs.
b8. Experience the practice of audit through evaluating different aseptic processes
against the standards according to evidence based IC guidelines.
c- Professional and Practical skills
By the end of the course the candidate will be able to:
c1. Collect, transport and process pathological specimens for laboratory diagnosis
of medically important infections
c2. Carry out tests necessary for full identification of medically important
microorganisms
c3. Develop a sense of the continuity of identification of specimens from
collection, through culture and further testing to the issuing of a final report.
c4. Recommend appropriate typing methods for clinical and epidemiological
situations and interpret the results.
c5. Provide clinical advice for the selection of the appropriate antimicrobial in the
clinical setting based on interpretation of susceptibility testing.
c6. Carry out tests for examination of environmental water samples
c7. Advise on appropriate patient placement in different health care settings c8.
Initiate and discontinue isolation precautions when indicated.
c9. Conduct infection prevention awareness programs for patients and visitors.
c10. Participate in educational and training infection prevention and control
programs in different health care settings
d- General and transferable skills
By the end of the course the candidate will be able to:
d1. Communicate effectively through oral presentation, computer processing,
written reports and scientific publications
d2. Acquire management skills: decision processes, objective criteria, problem
definition, research design and evaluation, teem-work and coordination.
d3. Integrate and evaluate information from a variety of sources.
d4. Manage resources and time.
d5. Learn independently with open- mindedness and critical enquiry.
3. Course Contents
36
Topic No of hours
I. Systemic and Applied Bacteriology and Mycology
(6 credit hours)
L P F SD
L
Systemic
Morphology & Identification, Antigenic structure,
Pathogenesis, Epidemiology, Clinical spectrum,
Laboratory diagnosis, Antimicrobial susceptibility.
Treatment, Prevention and Control of the following
microorganisms:
1. Staphylococci & Micrococci 2 4
2.Streptococci & Enterococci 2 4
3. Neisseria and Moraxella 2 4
4.Bacillus 2 2
5. Listeria, Corynebacterium and other Coryneform
bacteria 2 2
6. Erysipelothrix, Lactobacilli, Gardenella &
Arcanobacterium 1 2
7. Nocardia, Actinomycetes & Streptomyces 1
8. Enterobacteriaceae :
E.coli, Klebsiella, Proteus & other genera
Salmonella
Shigella
Yersinia
3 8
9. Acinetobacter & Stenotrophomonas 1
10. Pseudomonas, Burkholderia 2 2
11. Vibrio, Aeromonas, Plesiomonas & Chromobacterium 2 2
12. Campylobacter and Helicobacter 2 2
13. Haemophilus, Bordetella 2 2
14. Pasteurella, Francisella 2
15. Brucella 2
16. Legionella 1
17. Bartonella, Streptobacillus moniliformis, Spirillum
minus, Calymmatobacterium 1
18. Anaerobic bacteria:
Clostridia
Bacteroides
Other anaerobic bacteria
3
19. Mycobacteria 2 3
20. Spirochaetes 2 2
21. Mycoplasma, Ureaplasma 2
37
22. Chlamydia 2
23. Rickettsia 2
24. Medically important fungi 2 6 6
25.Approaches to diagnostic microbiology
20
26. Environmental Microbiology (water, milk, air
and food) 4
Total 45 45 30
II. Systemic and Applied Virology (3.5 credit hours)
Systemic Structure, replication, epidemiology, pathogenesis, clinical spectrum, diagnosis and
prevention and control of the following viruses:
DNA Viruses 27. Parvovirus 2
28. Pox virus 2
29. Herpes viruses 3
30. Adenoviruses 2
31. Papilloma viruses 2
32. Hepatitis viruses 4
RNA Viruses
33. Picornaviruses (Enterovirus and Rhinovirus groups) 2
34. Rhinoviruses 2
35. Reoviruses, Rotaviruses and Calciviruses 2
36. Arthropode-Borne and Rodent- Borne Viral Diseases 2
37. Orthomyxoviruses (Influenza viruses) 2
38. Paramyxoviruses and Rubella Virus 2
39. Coronaviruses 1
40. Rabies 2
41. Slow virus infection and Prion diseases 2
42. AIDS and Lentiviruses 2
43. Viruses and Cancer 2
44. Emerging Viruses 1
Applied 45.Sampling and Direct Examination of Clinical Materials:
Microscopy and staining 2
46. Virus isolation [Tissue culture, Chick embryo, Animal
inoculation) 4
47. Direct Antigen Detection , Electron microscopy,
immunofluorescence, ELISA, Latex agglutination, PCR 3
38
48. Serology 3
49. Nucleic Acid Detection and Hybridization 2
Total 38 14
III. Systemic and Applied Immunology (2.5 credit hours)
Systemic
50. Mucosal Immunity 2
51. Immune Response to Infectious Diseases
(Viral Infections, Bacterial Infections, Protozoan Diseases,
Diseases Caused by Parasitic Worms (Helminths).Fungal
diseases).
2
52. Regulation of Immune Response 2
53. Vaccines
(Active and Passive Immunization, Designing Vaccines for
Active Immunization, Whole-Organism Vaccines, Purified
Macromolecules as Vaccines, Recombinant-Vector
Vaccines, DNA Vaccines,Multivalent Subunit Vaccines).
2
54. Hypersensitive Reactions
(IgE-Mediated (Type I) Hypersensitivity, Antibody-
Mediated Cytotoxic (Type II) Hypersensitivity, Immune
Complex–Mediated (Type III) Hypersensitivity, Type IV
or Delayed-Type Hypersensitivity).
2
55. AIDS and Other Immunodeficiencies
(Primary Immunodeficiencies, AIDS and Other Acquired
or Secondary Immunodeficiencies).
2
56. Tolerance and Autoimmunity
(Organ-Specific Autoimmune Diseases, Systemic
Autoimmune Diseases, Proposed Mechanisms for
Induction of Autoimmunity, Treatment of Autoimmune
Diseases).
4
57. Transplantation Immunology
(Immunologic Basis of Graft Rejection, Clinical
Manifestations of Graft Rejection, General
Immunosuppressive Therapy, Specific Immunosuppressive
Therapy, Immune Tolerance to Allografts, Clinical
Transplantation).
3
58. Cancer and the Immune System
(Malignant Transformation of Cells, Oncogenes and
Cancer Induction, Tumors of the Immune System, Tumor
Antigens, Immune Response to Tumors, Tumor Evasion
of the Immune System, Cancer Immunotherapy).
3
39
Applied
59. Antigen-Antibody Interactions: Principles and
Applications
(Strength of Antigen-Antibody Interactions, Cross-
Reactivity, Precipitation Reactions, Agglutination
Reactions, Radioimmunoassay, Enzyme-Linked
Immunosorbent Assay, Western Blotting
Immunoprecipitation, Immunofluorescence, Flow
Cytometry and Fluorescence, Immunoelectron
Microscopy).
6
60. HLA Testing
(HLA typing, HLA antibody detection, Mixed
lymphocytereaction).
3
61. Assessment of immune competence
(Phagocytic cell defects complement defects, B cell
defects, T cell defects).
4
62. Experimental Systems
(Experimental Animal Models, Animal Models for
Autoimmune Diseases, Animal models of immune
deficiency).
3
Total 22 16
IV. Applied Infection Control (1 credit hour)
63. Antisepsis and hand hygiene 2
64. Personal protective equipment 2
65. Patient care equipment management 3 4
66. Environmental cleaning and disinfection 2 4
67. Waste management 2 4
68. Isolation precautions 2 4
69. Aseptic techniques 2 14
Total 15 30
4 - Student Assessment Methods:
Written exam to assess knowledge and intellectual skills
Oral exam to assess knowledge, intellectual and general transferable
skills.
Practical exam to assess professional &practical skills.
5- Weighing of Assessment:
5.1- Final assessment
Written exam 340
40
Practical exam 150
Oral exam 60
5.2- End of third semester exam: 100marks
6 -- List of References
6.1- Essential Books (Text Books)
Jawetz, Melnick & Adelberg’s Medical Microbiology
Medical Microbiology, Greewood D., Slack R., Peutherer J., and Barer M.
Mackie & McCartney Practical Medical Microbiology
Basic Immunology, Abul K. Abbas, Andrew H. Lichman. Elsevier
Science (USA).
Medical Immunology, Tristram G. Parslow, Daniel P. Sites, Abba I. Terr
and John B. Imboden. McGRAW- Hill Companies, Inc.
International Federation of Infection Control: Basic Concepts
(www.theific.org).
APIC Text of Infection Control and Epidemiology, Association for
Professionals in Infection Control and Epidemiology, INC.
5.2- Recommended Books
Manual of Clinical Microbiology Bailey & Scott’s Diagnostic Microbiology
Basic Virology, Edward K. Wagner R. and Atinez J.
Fundamental Virology, Bernard N. and david M. Publisher: Lippincott
Williams & Wilkins,.
Fields Virology: (Vol.1&2) by Bernard N. Fields (Editor), David M.
Knipe (Editor), Peter M. Howley
Viruses and Human Diseases Authors: James H. Strauss and Ellen G.
Strauss
Immunobiology, The Immune System in Health and Disease, Charles A.
Janeway, Paul Travers, Mark Walport and Marl J. Shlomchik Churchill
Livingstone, New York.
Cellular and Molecular Immunology, Abul K. Abbas, Andrew H.
Lichman. Elsevier Science (USA).
5.3- Periodicals, Web Sites, etc
41
http://www.virology.net/
http://www.ncbi.nlm.nih.gov/ICTVdb/
Medscape:www.medscape.com/infectious diseases
Pubmed:www.ncbi.nlm.nih.gov/pubmed
http://www.nature.com/
http://www.sciencedirect.com/
Allergy/Asthma Information Association - http://www.aaia.ca
Canadian Society Of Allergy and Clinical Immunology -
http://www.csaci.ca
http://www.paediatric-infectious-diseases.com/immunology.htm
Link to immunological societies
http://www.proimmune.com/ecommerce/page.php?page=Immunology-
Societies
http://www.biology.arizona.edu/immunology/microbiology_immunology.
html
IDN-SysAdmin@slackinc.com
CDC, Infection Control in Healthcare Settings
http://www.cdc.gov/ncidod/dhqp/
WHO, Infection Control Health topics
http://www.who.int/topics/infection_control/en/
Information Resources in Infection Control
http://www.theific.org/pdf_files/damani_IFIC_resource_5thedition.pdf
American Journal of Infection Control:
http://www.ajicjournal.org/
Infection Control And Hospital Epidemiology
http://www.shea-online.org/publications/iche.cfm
42
Elective courses:
1- Medical and Research Ethics Course:
University: Ain Shams University Faculty: of Medicine
Course specifications
Program on which the course is given: Master of Science Degree in Medical
Microbiology and Immunology
Major or minor element of programs: Minor
Department offering the program: Medical Microbiology and Immunology
Department
Department offering the course: Medical Microbiology and Immunology
Department
Academic Level:
Master of Medical Microbiology and Immunology 4th semester
Date of specification approval: …………………………..
A- Basic Information
Title: Medical and Research Ethics Course
Code: E6034
Credit Hours: 1
Coordinator: Medical Microbiology and Immunology Department
B - Professional Information
1- Course Aim:
To foster candidates commitment to ethical standards of medical practice
to be able to protect the dignity, rights and welfare of patients, patients'
families and staff.
To enable the candidate to plan and conduct a medical research in his
specific field complying with legal and ethical aspects of medical research.
43
2- Intended Learning Outcomes (ILOs) from the Course:
a- Knowledge and understanding
By the end of the course the candidate will be able to:
a1- Define key terms of medical and research ethics.
a2- Recognize the principles and importance of medical ethics that guide the
doctor-patient and doctor-doctor relationship in different levels of health care
services and their impact on the patient, physician, family and community.
a3- Define Professionalism, misconduct in science, Fabrication, Falsification,
Plagiarism
a4- Identify ethical dilemma encountered in routine medical and research practice
a5- Outline the social and moral dimensions of ethical dilemmas in healthcare
a6- Describe the framework of solving ethical dilemmas in medical and research
practice
a7- Explain ethical aspects of medical research including those specifically applied
to clinical trials
a8- Discuss the medico legal legislations in Egypt and its impact on medical and
research practice.
a9- Recognize the developments in ethics and their implications on medical and
research practice.
a10- Demonstrate how ethical issues specifically affect physicians, patients, and
patients' families.
a11-Demonstrate critical awareness and detailed knowledge of current ethical
issues in their close area of professional practice
a12-Describe the threats to medical professionalism, and common medical errors,
which can occur during practice of medicine
b- Intellectual skills
By the end of the course the candidate will be able to:
b1- Interpret new knowledge, principally through the production of their own
research theses to be good enough to satisfy peer review and to merit publication
b2- Integrate information on medical and research ethics principally through the
production of their own research theses, that they are able to conceptualize, design
and implement a project for the generation of new knowledge and to adjust the
project design in the light of unforeseen problems
b3-Critically appraise research articles, and interpret and assess the methodology
applied in light of medical research ethics.
44
b4- Comprehend, analyze and interpret texts (including both official policy
documents and moral-philosophical material) in the area of medical ethics
b5- Assess critically the cogency of ethical arguments and to formulate and defend
their own substantially independent arguments and positions on major topics in
medical ethics
c- Professional skills
By the end of the course the candidate will be able to:
c1- Solve some common ethical dilemmas based on the framework and personnel
experience
c2- Balance between professional and personal demands and anticipate the
situations that might damage this balance and seeks to minimize its adverse effects.
c3- Provide appropriate counseling in different situations.
c.4- Support safe medical practice through early recognition, reporting and
correction of medical errors.
c5- accept constructive feedback and respond appropriately.
c6- Show appropriate professional attitudes with the patients, patients' family and
staff including empathy, trust worthiness, respect for the dignity, and privacy.
c7-- Demonstrate originality in the application of knowledge, together with a
practical understanding of how established techniques of research and enquiry are
used to create and interpret knowledge in medical ethics
c8- Devise, manage, and execute an independent scheme of research
c9-Comply with and implement all moral criteria and guidelines as well as the
social and religious values laid down by the competent authority for conducting
medical research on human beings.
c10- comply with fully informing the volunteers in a clear way of the targets of the
research, the research approaches which will be used in it, the benefits expected
therefrom, the probable risks and the extent of their effect on the volunteers.
c11- comply with obtaining a written consent (built on knowledge) from the
volunteer to conduct the research on him officially in the presence of a prosecution
witness.
c12- Respect the right of the volunteer to cease his voluntariness to conduct the
experiments and research or the full withdrawal from the research without
sustaining any negative consequences as a result of his cessation or withdrawal
must be emphasized.
c13- Prepare a detailed and clear report on the targets of the research and the
justifications for conducting it on human beings. This report shall be submitted to
the quarter legally competent with approving to conduct the research in order to
obtain such approval.
45
c14- guarantee the privacy of the individuals, the secrecy of the results and keeping
them as well as minimizing the negative effects on the physical, mental and
psychological safety of the volunteers
c15- Exercise appropriate caution in the conduct of medical research that may
harm the environment.
c16- Conduct properly medical research using identifiable human material or data,
by seeking consent for the collection, analysis, storage and/or reuse. In situations
where consent would be impossible or impractical to obtain for such research or
would pose a threat to the validity of the research, research may be done only after
consideration and approval of a research ethics committee.
d- General and transferable skills
By the end of the course the candidate will be able to:
d1 - Work effectively in a team from different backgrounds, either as a member or
a leader, accepting principles of collective responsibility, and to consult colleagues
when appropriate.
d2 - Respects the role of staff and co-staff members regardless of degree or
occupation.
d3 - Communicate effectively with professional microbiologists and wider medical
community
d4- Present their own research thesis through written and oral presentations
d5 - Learn independently with open-mindedness and critical enquiry.
3- Course Contents
TOPICS HOURS
L C/P
1. Introduction to medical and research ethical
principles
2. Ethical theories and how they apply to
medical and research practice
3. Ethical reasoning
4. Belmont report and the code of medical ethics
5. Framework for recognition and solving ethical
dilemmas
6. Real ethical scenarios
46
T: Tutorial and C/P: Clinical or Practical and SDL: Self directed learning
4 - Student Assessment Methods
4-1 Written exam to assess knowledge and understanding and will concentrate on
problem solving questions
4-2 Weighing of assessment
Written exam 100
5 - List of References
47
2- Medical statistics course specification
University: Ain Shams University Faculty: of Medicine
Course specifications
Program on which the course is given: Master of Science Degree in Medical
Microbiology and Immunology
Major or minor element of programs: Minor
Department offering the program: Medical Microbiology and Immunology
Department
Department offering the course: Community, Environmental and Occupational
Medicine
Academic Level: Master of Science – 2nd
, 3rd
or 4th
semester
Date of specification approval: ……July 2009……………………..
A- Basic Information
Title: Medical statistics course
Code: E9009
Credit Hours: 1 hour
Coordinator: Community, Environmental and Occupational Medicine Department
B - Professional Information
1- Course Aim:
To enable the candidate to plan, conduct, analyze and interpret the results of a
research in his specific field. This course unit introduces the application of
statistical ideas and methodology to medical research.
2- Intended Learning Outcomes (ILOs) from the Course:
a- Knowledge and understanding
By the end of the course the candidate will be able to:
48
a1 - Define medical statistics and identify uses and importance of medical statistics
in medical research
a2 – Define:
Types of variables.
Descriptive statistics.
Presentation and summarization of data.
Measures of central tendency and scatter.
Principles of probability and probability distributions.
Concepts of inferential statistics: confidence interval and hypothesis
testing.
Different tests of statistical significance.
Difference between parametric and nonparametric tests of significance.
Correlation and regression
Concept of statistical modeling using multivariable and multivariate
statistical methods.
Combining evidence from different studies and meta-analysis
Importance and methods of sampling and how to determinate the suitable
sample size.
Different types of research methodology:
observational and intervention studies and the different statistical issues
related to the design, conduct, analysis and interpretation of the results of
each study type.
Ethical aspects of medical research including those specifically applied to
clinical trials.
b- Intellectual skills
By the end of the course the candidate will be able to:
b1 - Interpret correctly the results of statistical analyses and critically evaluate the
use of statistics in the medical literature.
b2 - Integrate and evaluate information from a variety of sources.
c- Professional skills
By the end of the course the candidate will be able to:
c1- Select appropriate study designs to address questions of medical relevance
c2 - Select and apply appropriate statistical methods for analyzing data typically
encountered in medical applications.
c3- Use selected software packages for statistical analysis and data management.
49
d- General and transferable skills
By the end of the course the candidate will be able to:
d1 - Work effectively in a group from different backgrounds.
d2 - Respects the role of staff and co-staff members regardless of degree or
occupation.
d3 - Communicate effectively with professional statisticians and the wider medical
community, including the ability to present results of statistical analyses
through written and oral presentations
d4 - Use of computer data bases and other computer skills.
d5 - Handle data appropriately and analyze them through: decision processes,
objective criteria, problem definition, project design and evaluation, risk
management, teamwork and coordination.
d6 - Learn independently with open-mindedness and critical enquiry.
3- Course content:
Topics Hours
T C/P
1. Introduction to medical statistics and its uses
Types of variables and Descriptive statistics
Graphic presentation of data
1
2. Introduction to probability theory and rules 1
3. Sample and population: sampling distribution of mean and
proportion
1
4. Confidence interval of a mean and a proportion
Confidence interval of a difference between two mean
/proportion
1
5. Testing a hypothesis about population mean/proportion 1
6. Testing a hypothesis about the difference between two
means/proportion
1
7. Comparing between more than two means-Introduction to
factorial analysis
1
8. Cross-tabulation and introduction to categorical data 1
50
analysis
9. Simple correlation and simple regression 1
10. Introduction to multivariable and multivariate analysis 1
11. Study designs: observational studies
Study designs: Intervention studies: clinical trials
Study designs: Experimental animal studies
Study designs: Bias and Confounding
2
12. Ethical issues in medical research 1
13. Sample size estimation for continuous and binary outcome
measures.
1
14. Meta-analysis and publication bias. 1
T: Tutorial and C/P: Clinical or Practical and SDL: Self directed learning
4 - Student Assessment Methods
4-1 Written exam to assess knowledge and understanding and will concentrate on
problem solving questions
4-2 Weighing of assessment
Written exam 50
5 - List of References
5.1- Course Notes (paper and / or electronic)
Student Notes on Medical Statistics and Research Methods. Prof. Mohsen
Abdel Hamid and Dr Moustafa El Houssinie. Department of Community,
Environmental and Occupational Medicine.
5.2- Essential Books (Text Books)
Statistics in Clinical Practice. avid Coggon. BMJ Books. 2nd
edition 2003
5.3- Recommended Books
Handbook of Epidemiology. Springer 2005
5.4- Periodicals, Web Sites, etc
www.brettscaife.net/statistics/introstat/
onlinestatbook.com/rvls/
www. Epidemiolog.net
http://www.shef.ac.uk/scharr/spss/
51
Modules
1st semester:
Biochemistry, Paracytology
Course Code Credit hours
Medical Biochemistry and Molecular Biology MI6001 3
Medical Parasitology MI6002 3
2nd
semester:
Course Code Credit hours
Fundamentals of Medical Microbiology and
Immunology and Basics of Infection Control
course specifications
MI6003 6
3rd
semester:
Course code Credit hours
Systemic and Applied Medical Microbiology
and Immunology and Infection Control course
specifications
MI6004
(1-13),
(27-38),
(50-58).
6
4th
semester
Course Code Credit hours
Systemic and Applied Medical Microbiology
and Immunology and Infection Control course
specifications
MI6004
(14-26),
(39-49),
(59-69).
5
Elective 1
Medical and Research Ethics
Medical statistics
6034
6009
1
1
52
V- GENERAL INFORMATION
1 - MONITORING OF TRAINING AND SUBMISSION OF TRAINING
REPORTS
You must keep proper and updated records in your logbook to reflect the
activities encountered in your training. Your logbook must be duly endorsed by an
authorized signatory at the end of each semester.
You will be continuously assessed by your supervisors, in consultation
with head of department. An assessment will be submitted within 2 weeks of
completion of each semester.
2 - MISCELLANEOUS INFORMATION:
INJURY AND/OR BLOOD OR BODY FLUID EXPOSURE:
During regular working hours, you should immediately report an exposure
incident to --------------------------. If exposure occurs after regular working hours
or during a weekend or holiday; please call the ----------------------------------------.
For injury, please report to the Emergency Department.
Please also be sure to inform the supervisors of an exposure incident and/or
injury.
3 - ACTION ON COMPLETION OF CLINICAL TRAINING
Once all training sessions are completed the log book should be signed by
the senior supervisor and the head of the department and then should be submitted to
post graduate Secretariat.
4- REFERENCE
The Training Guide is available at the post graduate Secretariat and could be
downloaded from the following website is
---------------------------------------------------------------
53
VI – YOUR LOG BOOK
1- Introduction
The aim of this book is to give you a guide to the expectations for each
item. It will be a guide for both you and your teachers to what you should be seeing
and doing.
It will give you a list of the important topics that you should think about and
should be covered in:
1. Clinical or practical sessions or
2. Tutorials
or
3. Self-directed learning (SDL)
For each item there is also a list of
1. Clinical conditions or Practical sessions to be seen or
attended (According to each degree)
2. Practical procedures to be seen and done
Remember
This document is only a guide. It is not an exhaustive list. It is not just a checklist
to score points. It is a guide to encourage you to read and learn more. This book is
for your benefit. It will form a record of your clinical training and experience.
2 - Supervisors
………………………………………………………………………………………
……………………………………………………………………………
……………………………………………………………………………
……………………………………………………………………………
………
3–Tables for Training Records
Candidates are required to fulfill 75% of the listed activities in order to be eligible
for the exam entry. The minimum number required for each activity = 75%. You
are free to attend more and record your extra attendance.
54
Medical Microbiology, Immunology and Infection Control
Conferences attendance
(NB. Minimum number required is 6)
No
Da
te
Pla
ce
Topics Supervisor
signature
Department Weekly Seminars Attendance
(NB. Minimum number required is 20)
No Date Place Topics Supervisor
signature
55
Department Weekly Seminars Presentation
(NB. Minimum number required is 3)
No Date Place Topics Supervisor
signature
Thesis attendance
(NB. Minimum number required is10)
No Date Place Name of the thesis Supervisor
signature
Web CME certificates in the field of Medical Microbiology, Immunology and
Infection Prevention and Control
(NB. Minimum number required is 10)
No Name of CME module Web site Supervisor
signature
1
2
3
4
5
6
7
8
9
10
56
Practical Skills
I. Good Laboratory Practice Training
Skill Date Supervisor Sign.
1. Preplanning and preparation of
equipment and material before start of
work
2. Wearing and taking off personal
protective equipment appropriately
3. Hand washing
4. Use of aseptic techniques when
handling specimens and cultures
5. Safe Pipetting technique
6. Safe centrifugation
7. Safe handling of hypodermic
needles and othe rsharps
8.Decontaminating working surfaces at
the end of work
9. Emergency response to spillage
10. Decontamination of specimens and
safe disposal of other laboratory waste
57
II. Medical Microbiology Laboratory Skills
1. Microscopy
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. L/M microscope
―Examination of different Stained
preparations".
2. Fluorescent microscope
3. Dark field microscope
―Demonstration‖
4. Electron Microscope
―Demonstration‖
2. Preparation and Fixation of Smears
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Labeling of slides
2. How to make smears: from
Cultures
Swabs
Sputum
Urine
CSF
Fecal specimen
3. Fixation of smears
58
3. Staining (minimum required 30 at least 10 A)
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
Preparation of stained smears:
Simple stain
- Methylene blue
Differential stain
- Gram stain (+ve & -ve)
- Acid Fast stain for T.B
Z.N. stain ―hot method‖
Kinyoun method ―cold method‖
date score
4. Culture Media and Preservation of Stock Cultures
Skill Date I confirm that
experience has
been acquired
Supervisor Sign.
1. Preparation of different culture media
-Nutrient agar - Blood agar
-MacConkey’s
agar
- Chocolate agar
- Loeffler’s serum - Lowenstein
Jensen
- Blood tellurite - Robertson
cooked meat broth
- Bile esculin - Mannitol salt
agar
59
- TCBS - DCA
- CLED
3. Preservation of stock culture
- Soft agar
-Long preservation
-Lyopholization
4. Preparation of media for biochemical
reactions
5. Inoculation of Culture Media
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Aseptic techniques
2. Inoculation of specimens on
culture plates
3. Inoculation of slopes
4. Inoculation of deep agar medium
5. Inoculation of fluid media
6. Labeling of inoculated media
7. Incubation of inoculated media:
temperature, humidity, different
gaseous atmosphere.
8. Anaerobic culturing :
- Anaerobic jar & Gas Pack System
60
6. Tests for Bacterial Identification
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Catalase test
2. Coagulase test
3. Bile solubility test
4. Citrate utilization
5. DNase test
6. Indole test
7. Litmus milk test
8. Oxidase test
9. Urease test
10. Sugar fermentation tests
11. MIO, LIA, TSI tests
12. Bacterial identification by API
system
61
7. Collection of Specimen for Bacteriological Examination
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Pus :
Swabs
Syringe
2. Upper respiratory tract
specimens:
Conjunctival swab
Throat swab
Nasopharyngeal swab
Anterior naris swab
Nasal wash
3. Lower respiratory tract
specimens
Sputum
Induced sputum
Endotracheal-aspirate(ETA)
BAL
PSB
2. Urine specimen :
MSU
From catheterized patients
Infants samples
3. Female genital samples
High vaginal swab,
Endo cervical swab
62
4. CSF by lumbar puncture
5. Blood for blood culture
6- Fecal specimens
Stool and diarrheal fluid
Rectal swabs
7- Environmental samples.
Surface samples
Swabing methods
Rinsing method
Fluid samples: water and dialysate
fluid samples from hemodialysis
units
8. Examination of LRT specimens
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1 specimen
Macroscopic appearance
2. Preparation of specimen
- Liquefaction
-Liquefaction & Decontamination
3. Microscopical examination
- Testing reliability of the specimen
- Gram smear
- Z.N. stain
- Cold stain for AFB
4. Culture and quantitative culture
- Blood agar
- Chocolate agar
- Media for isolation of t.b.
5. Identification and reporting.
63
9. Examination of Fecal Specimens
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Specimen (macroscopic
appearance)
2. Enrichement and Culture
- MacConkey’s agar
- DCA, S & S
- Hectoen agar media
- TCBS
3. Identification, Confirmation
(slide agglutination tests) and
reporting.
10. Examination of Urine:
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Specimen
Macroscopic appearance
Dip stick test
2. Microscopical examination
- Gram-stain
- Wet preparation
3.Quantitative Culture
Semi quantitative: Dip Slide
4. Identification & reporting
11. Examination of Pus:
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Microscopical examination
64
2. Culture (Blood Agar & Mac
Conkey's agar media)
(aerobic & anaerobic)
3. Culture Identification & reporting.
12. Blood Culture
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Inoculation of blood culture bottle
2. Examine microscopically
3. Subculture on:
- Blood & Chocolate agar
- MacConkey’s agar
4. Culture examination and reporting
significant growth
13. Antimicrobial susceptibility testing
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
Disc Diffusion
Min. inhibitory conc.(MIC)
Min. bactericidal conc.(MBC)
E-Test
Detection of:
- MRSA
- VRSA
- VRE
- ESBL
- Other B lactamses prod
65
14. Examination of Water
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Collection of water samples from
different sources
2. Bacteriological testing of water
Membrane filtration technique
Inoculation of culture bottle, tubes (Most
probable number)
(Coliforms, Enterococci, Pseudomonas,
Staphylococci)
Colony count ( pour plate method)
3. Subculture on:
- MacConkey’s agar
-Eijkman's test
-Bile Esculin hydrolysis test
4. Examination and reporting
15. Sterilization and Disinfection:
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Use of autoclave
2. Test of autoclave efficiency
- Chemical
- Biological
3. Use of hot air oven
4. Sterilization by Sietz filter and other
filters
66
III. Medical Virology Laboratory Skills
Micropipettes
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Different types and applications
2. How to use it
Inverted Microscope
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Uses
2. Interpretation of results
Isolation of the Virus from Clinical Specimens:
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Preparation of specimens before
inoculation
2. Required equipments and reagents
Serological Tests for the Diagnosis of Viral Infection
Detection of Specific Viral Antigens and/or Antibodies by:
Skill Date I confirm that
experience has been
acquired
Supervisor Sign.
1. IFT
2. NT
3. HIT
67
Detection of Viral Nucleic Acid in Clinical Specimens:
Skill Date I confirm that
experience has been
acquired
I confirm that
experience has been
acquired
Supervisor Sign.
1. Nucleic acid hybridization
2. Polymerase chain reaction (PCR)
IV. Medical Immunology Laboratory Skills
Agglutination tests (slide & tube):
Widal test
Brucella testing
Test Procedures Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Separation of patient serum
2. Serial dilution of patient serum
(micropipette)
3. Addition of patient serum to
antigen
4. Preparation of controls
5. Proper conditions for reactants
6. Interpretation of results
68
Antistreptolysin O titration
Test Procedures Date I confirm that
experience has been
acquired
Supervisor Sign.
1. Separation of patient serum
2. Serial dilution of patient serum
(micropipette)
3. Addition of patient serum to
RBCS
4. Addition of streptolysin O
5. Preparation of controls
6. Proper conditions for reactants
7. Interpretation of the results
ELISA
Test Procedures Date I confirm that
experience has been
acquired
Supervisor Sign
1. Separation of patient serum
2. Serial dilution of patient serum
(micropipette)
3. Addition of patient serum to
wells of microtitre plates
4. Washing step
5. Addition of substrate
6. Addition of human anti γ
globulin
7. Preparation of controls
8. Proper conditions for reactants
9. Interpretation of the results
69
Tuberculin test
Test Procedures Date I confirm that
experience has been
acquired
Supervisor Sign.
1. I.D. injection of PPD
2. Measure induration reaction
3. Interpretation of the results
70
V. Basic Infection Control Practices Training
Subject Place Date Supervisor sig.
Hand Hygiene
Hand Washing
Antiseptic Hand Washing
Hand Rub
Surgical Hand antisepsis
Personal Protective Equipment
Putting on for clean technique
Putting on for sterile
technique
Taking off
Aseptic Techniques
Clean
Sterile
Patient care equipment management
Cleaning
Disinfection: low,
intermediate and high level
Sterilization by autoclaves
Sterilization by hot air ovens
Sterilization of heat sensitive
items: EO, H2O2 gas plasma,
chemical
Environmental protection
Surface barrier protection
Cleaning and disinfection
Dealing with blood/OPIF
spills
Waste management
Isolation Precautions
71
Field Laboratory Training
Minimum required: 10 specimens
Serial Type of pathological specimen Date Supervisor sig.
1.
2.
3.
4.
5.
6.
7.
8.
9.
10.
72
Field IC Training
Minimum required: 10 activities
(Observation and auditing different processes related to aseptic techniques)
Nameof
hospital/training
centre
Date Activitiy/s Trainer
sig.
Supervisor
sig.
1.
2.
3.
4.
5.
6.
7.
8.
9.
10.
73
5 - Log book preview
The candidate logbook will be reviewed and patients seen/ skills
performed summarized by diagnosis groups during the semester evaluation and at
the end of the course in the table below. The results of this review will be totaled
in the summary chart below.
Summary
Skills acquired 1
st
semester
2nd
semester
3rd
semester
4th
semester
Microbiological
Laboratory skills
Check yes
if
acquired
Check yes
if
acquired
Check yes
if
acquired
Check yes
if
acquired
1. Good Laboratory
practices
2. Microscopy
3. Preparation and Fixation
of Smears
4. Staining
5. Preparation and Fixation
of Smears
6. Preparation of Culture
Media and Preservation of
Stock Cultures
7. Tests for Bacterial
Identification
8. Collection of Specimen
for Bacteriological
Examination
Specimen examination
9. LRT specimens
10. Fecal Specimens
11. Urine specimens
12. Pus
13. Blood cultures
Antimicrobial susceptibility
testing
14. Disc diffusion
15. MIC
74
16. Detection of MRSA
17. Detection of ESβLs
18. Water examination
19. Laboratory sterilization
and disinfection
Virology laboratory skills
20. Use of Micropipettes
21. Inverted Microscopy
22. Isolation of the Virus
from Clinical Specimens
23. Serological Tests for the
Diagnosis of Viral Infection
24. Detection of Viral
Nucleic Acid in Clinical
Specimens
Immunology laboratory
skills
25. Slide agglutination tests
26. Tube agglutination tests
27. Antistreptolysin ―O‖
titration test
28. EIAs
29. Tuberculin Test
Basic infection control
practices
30. Hand Hygiene
31. Personal Protective
Equipment
32. Aseptic Techniques
33. Patient care equipment
management
34. Environmental
protection
35. Waste management
36. Isolation Precautions
Total (36)
75
Semester 1st 2
nd 3
rd 4
th Total
Activities No No No No
Medical Microbiology,
Immunology and Infection
Control
Conferences attendance (6)
Department Weekly Seminars
attendance (20)
Department Weekly Seminars
preparation and presentation
(6)
Thesis attendance (10)
Web CME certificates (10)
Field Laboratory training (10
specimens)
Field IC training (10
activities)
VII - HEAD OF DEPARTMENT APPROVAL FOR THE EXAM ENTRY
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
____________
76
77
VIII – THESIS FOLLOW UP
انرقرير انصف انسىي نعاو /
ع انطانة /
انقيد ندرجح ) ياجسيرر / اندكرىراج (
تقسى /
ذقرير انسادج االااذيج انشرفى
قطع شىطا يحدودا جع انادج انعهيح تدس
إره ي انجع سوشك عه اإلرهاء و كراتح انقديح
قطع شىطا يحددا انجسء انعه تدس
إره ي انرحهيم سوشك عه اإلرهاء
قطع شىطا يحدودا ياقشح انرائج تدس
إره ي انرحرير سوشك عه اإلرهاء
قطع شىطا يحددا انراجعح انهائيح يع انشرف تدس
إرهد ذايا سوشك عه اإلرهاء
------------------------------------------------------------------------------------------------
انسادج انشرفىرسي
يد انقيد إاررار قيد انطانة
شطة قيد انطانة
ذاريخ انرشكيم / / ذى ذشكيم نجح اناقشح عى
ال
يد / شطة انقيد
78
79
VIII – THESIS FOLLOW UP
انرقرير انصف انسىي نعاو /
ع انطانة /
نقيد ندرجح ) ياجسيرر / اندكرىراج (ا
تقسى /
ذقرير انسادج االااذيج انشرفى
قطع شىطا يحدودا جع انادج انعهيح تدس
جع إره ي ان و كراتح انقديح سوشك عه اإلرهاء
قطع شىطا يحددا انجسء انعه تدس
إره ي انرحهيم سوشك عه اإلرهاء
قطع شىطا يحدودا تدس ياقشح انرائج
إره ي انرحرير سوشك عه اإلرهاء
قطع شىطا يحددا انراجعح انهائيح يع انشرف تدس
إرهد ذايا سوشك عه اإلرهاء
------------------------------------------------------------------------------------------------
رسي انسادج انشرفى
يد انقيد إاررار قيد انطانة
شطة قيد انطانة
ريخ انرشكيم / / ذى ذشكيم نجح اناقشح عى ذا
ال
يد / شطة انقيد
80
V
81
III – THESIS FOLLOW UP
انرقرير انصف انسىي نعاو /
ع انطانة /
سيرر / اندكرىراج (انقيد ندرجح ) ياج
تقسى /
ذقرير انسادج االااذيج انشرفى
قطع شىطا يحدودا جع انادج انعهيح تدس
إره ي انجع و كراتح انقديح سوشك عه اإلرهاء
قطع شىطا يحددا سء انعه تدس انج
إره ي انرحهيم سوشك عه اإلرهاء
قطع شىطا يحدودا ياقشح انرائج تدس
إره ي انرحرير سوشك عه اإلرهاء
قطع شىطا يحددا انراجعح انهائيح يع انشرف تدس
إرهد ذايا سوشك عه اإلرهاء
------------------------------------------------------------------------------------------------
رسي انسادج انشرفى
يد انقيد نطانة إاررار قيد ا
شطة قيد انطانة
ذى ذشكيم نجح اناقشح عى ذاريخ انرشكيم / /
ال
يد / شطة انقيد
82
83
VIII – THESIS FOLLOW UP
انرقرير انصف انسىي نعاو /
ع انطانة /
انقيد ندرجح ) ياجسيرر / اندكرىراج (
تقسى /
الااذيج انشرفىذقرير انسادج ا
قطع شىطا يحدودا جع انادج انعهيح تدس
إره ي انجع و كراتح انقديح سوشك عه اإلرهاء
قطع شىطا يحددا دس انجسء انعه ت
إره ي انرحهيم سوشك عه اإلرهاء
ا قطع شىطا يحدود ياقشح انرائج تدس
إره ي انرحرير سوشك عه اإلرهاء
قطع شىطا يحددا انراجعح انهائيح يع انشرف تدس
إرهد ذايا اإلرهاء سوشك عه
------------------------------------------------------------------------------------------------
رسي انسادج انشرفى
انقيد يد إاررار قيد انطانة
شطة قيد انطانة
ذى ذشكيم نجح اناقشح عى ذاريخ انرشكيم / /
ال
يد / شطة انقيد
84
85
VIII – EVALUATION FORMS
To be completed at -------------------------------------
Candidate
Supervisor
Location
Aim of training
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Agreed educational objectives and timescale in which objectives should be
achieved.
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Comments by Candidate
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Comments by Supervisor
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Date of next meeting
Signed by candidate
Signed by Supervisor
Date
86
87
VIII – EVALUATION FORMS
To be completed at -------------------------------------
Candidate
Supervisor
Location
Aim of training
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Agreed educational objectives and timescale in which objectives should be
achieved.
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Comments by Candidate
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Comments by Supervisor
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Date of next meeting
Signed by candidate
Signed by Supervisor
Date
88
89
VIII – EVALUATION FORMS
To be completed at -------------------------------------
Candidate
Supervisor
Location
Aim of training
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Agreed educational objectives and timescale in which objectives should be
achieved.
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Comments by Candidate
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Comments by Supervisor
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Date of next meeting
Signed by candidate
Signed by Supervisor
Date
90
91
VIII – EVALUATION FORMS
To be completed at -------------------------------------
Candidate
Supervisor
Location
Aim of training
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Agreed educational objectives and timescale in which objectives should be
achieved.
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Comments by Candidate
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Comments by Supervisor
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
__________________________________________________________________
Date of next meeting
Signed by candidate
Signed by Supervisor
Date
92
93
Degree Program Evaluation Form By The Candidate
Please consider each pair of statements and decide which most clearly reflects your
view and tick one box or answer the question.
I. Individual Information
1. Are you a graduate of ASU?
yes no to some degree
2. Year and semester when studies began:
II. General Questions
1. What are the advantages/disadvantages of the general study environment at the
University ASU?
2. What were your expectations when you applied to the degree?
3. Do you feel that the degree program prepares you well for your future studies or
employment according to the demands and expectations of those institutions?
yes no to some degree
4. Has the time limit of the program (two or three academic years) caused you any
difficulties or inconveniences?
yes no to some degree
III. Structure of Degree Program
1. Did you receive enough guidance in planning your study schedule in the
beginning of the program?
yes no to some degree
2. What were the main difficulties in the planning of your study schedule?
3. What is your general opinion on the structure of the degree program?
94
4. In your opinion, does the degree program offer a good balance of lectures,
seminars, conferences, and book exams?
yes no to some degree
a) General Studies
i) Do you feel that you have received enough guidance on academic writing?
yes no to some degree
ii) Do you feel that you have acquired sufficient knowledge on research skills (eg.
quantitative and qualitative research methods)?
yes no to some degree
b) Courses
i) Have you had some special difficulties in completing some of the courses?
Please specify.
ii) Has there been a sufficient variety of courses offered for your optional studies?
yes no to some degree
iii) Have you received enough guidance for the preparation of your thesis?
yes no to some degree
IV. Concluding Points
1. Did the degree program meet your expectations?
yes no to some degree
2. What aspects of the degree program do you particularly like?
3. What aspects of the degree program do you particularly dislike?
4. What are your suggestions on how to improve the program?
Thank you!
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