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

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Filled by post graduate authorities

Date of Registration

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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:


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:


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……………………………..


Title: Medical Biochemistry and Molecular Biology

Code: MI6001

Credit Hours: 3

Lectures: 35 Practical: 20 Total: 55

Co-ordinator

-----------------------------


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


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


c1- Incorporate new molecular biology knowledge and tools into research projects

c2- Use the computer to retrieve and compare molecular biology data

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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


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

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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.

http://www.amazon.com/exec/obidos/search-handle-url/ref=ntt_athr_dp_sr_1?%5Fencoding=UTF8&sort=relevancerank&search-type=ss&index=books&field-author=Robert%20K.%20Murray

http://www.amazon.com/exec/obidos/search-handle-url/ref=ntt_athr_dp_sr_2?%5Fencoding=UTF8&sort=relevancerank&search-type=ss&index=books&field-author=Darryl%20K.%20Granner

http://www.amazon.com/exec/obidos/search-handle-url/ref=ntt_athr_dp_sr_3?%5Fencoding=UTF8&sort=relevancerank&search-type=ss&index=books&field-author=Peter%20A.%20Mayes

http://www.amazon.com/exec/obidos/search-handle-url/ref=ntt_athr_dp_sr_4?%5Fencoding=UTF8&sort=relevancerank&search-type=ss&index=books&field-author=Victor%20W.%20Rodwell

18

Medical Parasitology Course Specifications

Ain Shams University Faculty of Medicine


Programme: Master degree Of Medical Microbiology and Immunology



Department offering the course: Medical Parasitological Department.

Academic year / Level: Master First Semester

Date of specification approval: July 2009


Title: Medical Parasitology Code: MI6002

Credit Hours: 3 credits

Lecture: 30 Practical: 30

Total: 60 hours

Coordinator: -----------------------------


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


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.



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


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



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


6.2- 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)


http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=C.F.%20Craig

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=E.C.%20Faust

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=Paul%20Chester%20Beaver

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=Gordon%20C.%20Cook

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=Alimuddin%20I.%20Zumla

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=Lynne%20Shore%20Garcia

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=David%20T.%20John

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=William%20A.%20Petri

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=Wallace%20Peters

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=Geoffrey%20Pasvol

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=K.%20Warren

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=K.%20Warren

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=Derek%20Wakelin

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=Derek%20Wakelin

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

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=Lynne%20Shore%20Garcia

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=Gordon%20C.%20Cook

http://www.amazon.co.uk/exec/obidos/search-handle-url?%5Fencoding=UTF8&search-type=ss&index=books-uk&field-author=Alimuddin%20I.%20Zumla

http://www.who.int/

http://www.cdc.dpdx.gov/

http://www.ncbi.nlm.nih.gov/

http://www.cmr.asm.org/

http://www.asm.org/

http://www.who.int/tdr/

http://www.oie.int/

http://asp.unl.edu/index.php

http://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



Microbiology and Immunology



Department offering the course: Medical Microbiology and Immunology

Academic year / Level: 2nd

, semester

Date of specification approval : July 2009………………………………………..


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:



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


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


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



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

http://www2.umdnj.edu/mgenmweb/courses/ccimmu/Tissue%20and%20organs%20of%20the%20immune%20system.ppt

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


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



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.


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

http://www.theific.org/



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







Academic year / Level: 3rd

and 4th

semesters

Date of specification approval: July 2009 ………………………………………..


Title: Medical Microbiology Code: MI 6004

Credit Hours: 11 Lectures: 105

F: 60 Practical: 90 Total: 255

Co-ordinator

------------------------------


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




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



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


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



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

http://www2.umdnj.edu/mgenmweb/courses/ccimmu/2009%20Tolerance%20lect.ppt

http://www2.umdnj.edu/mgenmweb/courses/ccimmu/TumorImmunology2009d.pdf

http://www2.umdnj.edu/mgenmweb/courses/ccimmu/Vaccines040109.pdf

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


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



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.


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).


http://www.theific.org/

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

[email protected]

CDC, Infection Control in Healthcare Settings


WHO, Infection Control Health topics


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

http://www.virology.net/

http://www.ncbi.nlm.nih.gov/ICTVdb/

http://www.aaia.ca/

http://www.csaci.ca/

http://www.biology.arizona.edu/immunology/microbiology_immunology.html

http://www.biology.arizona.edu/immunology/microbiology_immunology.html

mailto:[email protected]



http://www.theific.org/pdf_files/damani_IFIC_resource_5thedition.pdf

http://www.ajicjournal.org/

http://www.shea-online.org/publications/iche.cfm

42

Elective courses:

1- Medical and Research Ethics Course:

University: Ain Shams University Faculty: of Medicine


Program on which the course is given: Master of Science Degree in Medical


Major or minor element of programs: Minor

Department offering the program: Medical Microbiology and Immunology

Department


Department

Academic Level:

Master of Medical Microbiology and Immunology 4th semester

Date of specification approval: …………………………..


Title: Medical and Research Ethics Course

Code: E6034

Credit Hours: 1

Coordinator: Medical Microbiology and Immunology Department


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




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



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



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.



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


Program on which the course is given: Master of Science Degree in Medical


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……………………..


Title: Medical statistics course

Code: E9009

Credit Hours: 1 hour

Coordinator: Community, Environmental and Occupational Medicine Department


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.




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.



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.



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



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


Student Notes on Medical Statistics and Research Methods. Prof. Mohsen

Abdel Hamid and Dr Moustafa El Houssinie. Department of Community,

Environmental and Occupational Medicine.


Statistics in Clinical Practice. avid Coggon. BMJ Books. 2nd

edition 2003


Handbook of Epidemiology. Springer 2005


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:


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


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


No Date Place Topics Supervisor

signature

55

Department Weekly Seminars Presentation


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


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


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)


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


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


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


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


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


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


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:


experience has been

acquired

Supervisor Sign.

1. Specimen

Macroscopic appearance

Dip stick test


- Gram-stain

- Wet preparation

3.Quantitative Culture

Semi quantitative: Dip Slide

4. Identification & reporting

11. Examination of Pus:


experience has been

acquired

Supervisor Sign.


64

2. Culture (Blood Agar & Mac

Conkey's agar media)

(aerobic & anaerobic)

3. Culture Identification & reporting.

12. Blood Culture


experience has been

acquired

Supervisor Sign.

1. Inoculation of blood culture bottle

2. Examine microscopically

3. Subculture on:

- Blood & Chocolate agar


4. Culture examination and reporting

significant growth

13. Antimicrobial susceptibility testing


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


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:


-Eijkman's test

-Bile Esculin hydrolysis test

4. Examination and reporting

15. Sterilization and Disinfection:


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


experience has been

acquired

Supervisor Sign.

1. Different types and applications

2. How to use it

Inverted Microscope


experience has been

acquired

Supervisor Sign.

1. Uses

2. Interpretation of results

Isolation of the Virus from Clinical Specimens:


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:


experience has been

acquired

Supervisor Sign.

1. IFT

2. NT

3. HIT

67

Detection of Viral Nucleic Acid in Clinical Specimens:


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


experience has been

acquired

Supervisor Sign.



(micropipette)


RBCS

4. Addition of streptolysin O



7. Interpretation of the results

ELISA


experience has been

acquired

Supervisor Sign



(micropipette)


wells of microtitre plates

4. Washing step

5. Addition of substrate

6. Addition of human anti γ

globulin




69

Tuberculin test


experience has been

acquired

Supervisor Sign.

1. I.D. injection of PPD

2. Measure induration reaction


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

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

____________

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

79



ع انطانة /

نقيد ندرجح ) ياجسيرر / اندكرىراج (ا

تقسى /



جع إره ي ان و كراتح انقديح سوشك عه اإلرهاء

قطع شىطا يحددا انجسء انعه تدس


قطع شىطا يحدودا تدس ياقشح انرائج




------------------------------------------------------------------------------------------------

رسي انسادج انشرفى

يد انقيد إاررار قيد انطانة


ريخ انرشكيم / / ذى ذشكيم نجح اناقشح عى ذا

ال


81

III – THESIS FOLLOW UP


ع انطانة /

سيرر / اندكرىراج (انقيد ندرجح ) ياج

تقسى /



إره ي انجع و كراتح انقديح سوشك عه اإلرهاء

قطع شىطا يحددا سء انعه تدس انج


قطع شىطا يحدودا ياقشح انرائج تدس




------------------------------------------------------------------------------------------------


يد انقيد نطانة إاررار قيد ا


ذى ذشكيم نجح اناقشح عى ذاريخ انرشكيم / /

ال


83



ع انطانة /

انقيد ندرجح ) ياجسيرر / اندكرىراج (

تقسى /

الااذيج انشرفىذقرير انسادج ا


إره ي انجع و كراتح انقديح سوشك عه اإلرهاء

قطع شىطا يحددا دس انجسء انعه ت


ا قطع شىطا يحدود ياقشح انرائج تدس



إرهد ذايا اإلرهاء سوشك عه

------------------------------------------------------------------------------------------------


انقيد يد إاررار قيد انطانة


ذى ذشكيم نجح اناقشح عى ذاريخ انرشكيم / /

ال


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

87



Candidate

Supervisor

Location

Aim of training

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________


achieved.

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________


__________________________________________________________________

__________________________________________________________________

__________________________________________________________________


__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________


Signed by candidate


Date

89



Candidate

Supervisor

Location

Aim of training

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________


achieved.

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________


__________________________________________________________________

__________________________________________________________________

__________________________________________________________________


__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________


Signed by candidate


Date

91



Candidate

Supervisor

Location

Aim of training

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________


achieved.

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________


__________________________________________________________________

__________________________________________________________________

__________________________________________________________________


__________________________________________________________________

__________________________________________________________________

__________________________________________________________________

__________________________________________________________________


Signed by candidate


Date

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?


4. Has the time limit of the program (two or three academic years) caused you any

difficulties or inconveniences?


III. Structure of Degree Program

1. Did you receive enough guidance in planning your study schedule in the

beginning of the program?


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?


a) General Studies

i) Do you feel that you have received enough guidance on academic writing?


ii) Do you feel that you have acquired sufficient knowledge on research skills (eg.

quantitative and qualitative research methods)?


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?


iii) Have you received enough guidance for the preparation of your thesis?


IV. Concluding Points

1. Did the degree program meet your expectations?


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!

master of science in medical microbiology and...

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