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Course Description Course Name : Epidemiology of infections Course Code : MİK-507 Course Type : Optional Level of Course : Second Cycle Year of Study : 1 Course Semester : Fall and Spring (16 Weeks) ECTS : 4 Name of Lecturer(s) : Asst.Prof.Dr. TOĞRUL NAĞIYEV Learning Outcomes of the Course : Describes the basic concepts used in the epidemiology of infectious diseases. Lists the objects and methods of surveillance programs. Describes the basic methods of surveillance. Lists the criteria of the notifiable infections within the scope of surveillance system. Defines groups A, B, C and D diseases and their notification systems. Describes the tasks and the importance of microbiology laboratory at surveillance studies. Describes the phenotypic and genotypic methods used in surveillance of infection-causing bacteria, viruses and fungi. Compares the phenotypic and genotypic methods of surveillance of outbreaks Mode of Delivery : Face-to-Face Prerequisites and Co-Prerequisites : None Recommended Optional Programme Components : None Aim(s) of Course : Providing information about epidemiological surveillance methods used to monitor movements of microorganisms that cause infectious diseases in the community. Course Contents : Basic concepts and definitions used in the epidemiology of infectious diseases, epidemiological data sources, epidemiological criteria, goals of surveillance programs and their planning, basic surveillance methods, Group A,B,C and D diseases and notification systems and phenotypic and genotypic methods used in surveillance of infection-causing bacteria, viruses and fungi. Language of Instruction : Turkish Work Place : C.U Faculty of Medicine Department of Medical Microbiology convention hall and laboratories.   Course Outline /Schedule (Weekly) Planned Learning Activities Week Subject Student's Preliminary Work Learning Activities and Teaching Methods 1 Basic concepts and definitions used in the epidemiology of infectious diseases Reading resources and lecture notes about the subject Verbal lecture, presentation 2 Basic concepts and definitions used in the epidemiology of infectious diseases Reading resources and lecture notes about the subject Verbal lecture, presentation 3 Epidemiological data sources Epidemiological criteria The goals of surveillance programs and their planing Reading resources and lecture notes about the subject Verbal lecture, presentation 4 Basic surveillance methods Reading resources and lecture notes about the subject Verbal lecture, presentation 5 Basic surveillance methods Reading resources and lecture notes about the subject Verbal lecture, presentation 6 Standard case definitions, laboratory diagnostic criteria and epidemiological criteria of the notifiable infectious diseases within the scope of the surveillance system Reading resources and lecture notes about the subject Verbal lecture, presentation 7 The tasks and the importance of microbiology laboratory at surveillance studies Reading resources and lecture notes about the subject Verbal lecture, presentation 8 Midterm exam Exam Preparation Written exam 9 Group A, B, C and D diseases and notification systems Reading resources and lecture notes about the subject Verbal lecture, presentation 10 Phenotypic methods used in surveillance of infection-causing bacteria, viruses and fungi, (Biotyping, serotyping, bacteriophage typing, bacteriocin typing) Reading resources and lecture notes about the subject Verbal lecture, presentation 11 Phenotypic methods used in surveillance of infection-causing bacteria, viruses and fungi (Antibiotic susceptibility profile, protein-based methods) Reading resources and lecture notes about the subject Verbal lecture, presentation 12 Genotypic methods used in surveillance of infection-causing bacteria, viruses and fungi Restriction fragment length polymorphism "(RFLP), Ribosomal DNA restriction fragment length polymorphism analysis (ribotyping), PCR-based ribotyping, PFGE Reading resources and lecture notes about the subject Verbal lecture, presentation 13 Genotypic methods used in surveillance of infection-causing bacteria, viruses and fungi PCR-based typing methods, AP-PCR, RAPD and DAF typing methods, repetitive DNA sequences based on PCR (rep-PCR) typing Reading resources and lecture notes about the subject Verbal lecture, presentation 14 Genotypic methods used in surveillance of infection-causing bacteria, viruses and fungi Amplified fragment length polymorphism (AFLP), Multilocus sequence typing (MLST), High-density DNA array” and “DNA chips Reading resources and lecture notes about the subject Verbal lecture, presentation 15 Comparison of phenotypic and genotypic methods of surveillance of outbreaks Reading resources and lecture notes about the subject Verbal lecture, presentation 16/17 Midterm exam Exam Preparation Written exam   Required Course Resources Resource Type Resource Name Recommended Course Material(s)  Lecture notes and slides  Durmaz B. Hastane infeksiyonlarında klinik mikrobiyoloji laboratuvarının rolü. Günaydın M, Esen Ş, Saniç A, Leblebicioğlu H (editörler). Sterilizasyon, Dezenfeksiyon ve Hastane İnfeksiyonları. Samsun: Kaya Basım, 2002:295-305 Required Course Material(s)   Assessment Methods and Assessment Criteria Semester/Year Assessments Number Contribution Percentage     Mid-term Exams (Written, Oral, etc.) 1 60     Homeworks/Projects/Others 1 40 Total 100 Rate of Semester/Year Assessments to Success 40   Final Assessments 100 Rate of Final Assessments to Success 60 Total 100   Contribution of the Course to Key Learning Outcomes # Key Learning Outcome Contribution* 1 Identifies morphological and physiological characteristics of microorganisms 1 2 Identificates genomic structures of microorganisms 3 3 Explains microorganisms virulance factors and infection mechanisms. 2 4 Defines the mechanisms of immune response and defense against microorganisms 0 5 Lists the antimicrobial agents. 0 6 Defines the mechanisms of resistance development against antimicrobial agents. 4 7 Lists the microscopy, culture, serological and molecular diagnostic principles used in the laboratory diagnosis of infectious microorganisms. 4 8 Lists microbiological tests for identification of microorganisms 4 9 Implements and applies the methods used in the period from receipt of the clinical specimens up to identification of the causative agent . 5 10 Prepares a suitable media, applicates the staining methods, biochemical tests and molecular diagnostic methods to identify microorganisms from clinical samples. 5 11 Applies the biochemical tests and basic microbiological staining methods which are necessary for microbiological identification . 3 12 Determines the microorganisms by using basic molecular diagnostic techniques. 3 13 Works individually or as a team member related to the field. 1 14 Carries out the missions given within the scope of research projects. 1 15 Develops a positive attitude and behaviour towards lifelong learning. 1 16 Evaluates own knowledge and new-learned knowledge in a critical view after graduating. 1 17 Communicates effectively. 1 18 Transfers their own ideas and developments in the field, and offers solutions visually and verbally supporting with qualitative and quantitative data. 1 19 Applies ethical principles during study, evaluation and result sharing. 1 * Contribution levels are between 0 (not) and 5 (maximum).   Student Workload - ECTS Works Number Time (Hour) Total Workload (Hour) Course Related Works     Class Time (Exam weeks are excluded) 14 4 56     Out of Class Study (Preliminary Work, Practice) 14 2 28 Assesment Related Works     Homeworks, Projects, Others 1 3 3     Mid-term Exams (Written, Oral, etc.) 1 10 10     Final Exam 1 15 15 Total Workload: 112 Total Workload / 25 (h): 4.48 ECTS Credit: 4