BYL766 - ADVANCED PLANT BÄ°OTECHNOLOGY
| Course Name | Code | Semester | Theory (hours/week) |
Application (hours/week) |
Credit | ECTS |
|---|---|---|---|---|---|---|
| ADVANCED PLANT BÄ°OTECHNOLOGY | BYL766 | 1st Semester | 1 | 4 | 3 | 9 |
| Prequisites | ||||||
| Course language | Turkish | |||||
| Course type | Elective | |||||
| Mode of Delivery | Face-to-Face | |||||
| Learning and teaching strategies | Lecture Discussion Question and Answer Demonstration Experiment Drill and Practice | |||||
| Instructor (s) | Dr. Öğr. Üyesi Şeküre Çulha Erdal | |||||
| Course objective | Within the scope of this course, the students are taught about the recent approaches in plant biotechnology and the methods and applications used by omics technologies. In addition, this information taught to the student is carried out practically in laboratory conditions. | |||||
| Learning outcomes |
| |||||
| Course Content | History of plant biotechnology, Genome and genomic, Organization and structure of genome, Next Generation Sequence Technologies, The Methods And Analyses Of Transcriptome, Transcriptomic, Proteome and Proteomics, Principle and Application of RT-PCR, MicroRNA?s (miRNA?s) and Applications in Agriculture, Genome Editing in Plants (CRISPR/CAS Technologies), Bioinformatics. | |||||
| References | The Handbook of Plant Functional Genomics: Concepts and Protocols. Günter Kahl, Khalid Meksem, (Eds.), Wiley, 2008. Plant Genomics: Methods and Protocols (Methods in Molecular Biology 513). Daryl J. Somers, Peter Langridge, J.P. Gustafson, (Eds.), Humana Press Inc., 2009. Plant Biotechnology and Genetics: Principles Techniques and Applications. C. Neil Steward, (Eds.), Wiley, 2008. Bitki Biyoteknolojisi II Genetik Mühendisliği ve Uygulamaları Editör: Sebahattin Özcan, Ekrem Gürel, Mehmet Babaoğlu, (Eds.), Selçuk Üniversitesi Vakfı Yayınları, 2001. Bitki Biyoteknolojisi ve Genetik; ilkeler teknikler ve uygulamalar, H.A. Öktem ve M. Yücel, (Eds.), Nobel Nobel Akademik Yayıncılık Eğitim Danışmanlık TİC. LTD. ŞT, 2012. Omics Applications for Systems Biology, Wan Mohd Aizat, Hoe-Han Goh, Syarul Nataqain Baharum, (Eds.), Advances in Experimental Medicine and Biology, 1102, Springer Nature Switzerland AG, 2018. Bitki Biyoteknolojisinde Güncel Yaklaşımlar, Yelda Özden Çiftçi, Ahu Altınkut Uncuoğlu, Palme Yayınevi, 2019. Temel ve İleri Moleküler Biyoloji Yöntemleri Genomik ve Proteomik Analizler, Güler Temizkan, Nazlı Arda, Nobel Tıp Kitabevleri, 2. Baskı, 2021. Omics Technologies for Sustainable Agriculture and Global Food Security Volume 1, Anirudh Kumar, Rakesh Kumar, Pawan Shukla, Manish K. Pandey, (Eds.), Springer Singapore, 2021 Recent papers | |||||
Course outline weekly
| Weeks | Topics |
|---|---|
| Week 1 | Introduction History of Plant Biotechnology, Classical and Modern Biotechnology Lab: Introduction of Plant Biotechnology Laboratory Safety in Plant Biotechnology Laboratory Introduction and Use of Tools and Equipment to be Used in the Laboratory Organization of the Laboratory Notebook Techniques Used in Sterilization of Devices and Materials |
| Week 2 | Genome and Genomic Organization and Structure of Genome Lab: Preparation of Nutrient Media Suitable for Growing Plants Preparation of Solutions and Buffers |
| Week 3 | Genome and Genomic Next Generation Sequence Technologies Lab: Cultivation and Growth of Arabidopsis thaliana Seeds in Media Under Sterile Conditions Isolation of Genomic DNA from Plants Spectrophotometrically (Nanodrop) Determination of Genomic DNA Content |
| Week 4 | Transcriptome and Transcriptomic Transcriptomic Method and Analysis Lab: Isolation of RNA from Plants Spectrophotometrically (Nanodrop) Determination of RNA Content |
| Week 5 | Transcriptome and Transcriptomic Transcriptomic Method and Analysis Lab: Agarose Gel Running and Imaging of Isolated Total RNAs |
| Week 6 | Principle and Application of Real Time Polymerase Chain Reaction (RT-PCR) Lab: Complementary Single Strand DNA (cDNA) Synthesis from RNAs RT-PCR Analysis Analysis of Pre-made Sequence (EXP.: RNA-seq) Teaching How to Evaluate Analysis Results Introduction of Various Data Banks |
| Week 7 | Midterm |
| Week 8 | Theoretical Information and Applications on Primer Design Lab: Primer Design with the Use of Some Databases such as NCBI, TAIR etc. |
| Week 9 | Proteome and Proteomics Proteomic Method and Analysis Lab: Sample Collection and Preparation for Processing Preparation of Buffers and Various Solutions Determination of Total Protein Extraction and Concentration |
| Week 10 | Proteome and Proteomics Proteomic Method and Analysis Lab: Two Dimensional (2-D) Polyacrylamide Gel Electrophoresis Applications |
| Week 11 | MicroRNA?s (miRNA?s) and Applications in Agriculture Lab: Staining of Gels and Image Analysis |
| Week 12 | Applications of Genome Editing in Plants (CRISPR/CAS Technologies) Lab: Fragmentation of Gels: Reduction, Alkylation and Fragmentation of Proteins by Trypsin Giving Theoretical Information on the Preparation of Samples for LC-MS |
| Week 13 | |
| Week 14 | Student Homework Presentations |
| Week 15 | Visit to Some Laboratories in This Field (Hacettepe University Central Laboratory, Kocaeli University DEKART Laboratory, Ankara University Biotechnology Institute Laboratory etc.) |
| Week 16 | Final Exam |
Assesment methods
| Course activities | Number | Percentage |
|---|---|---|
| Attendance | ||
| Laboratory | ||
| Application | ||
| Field activities | ||
| Specific practical training | ||
| Assignments | ||
| Presentation | ||
| Project | ||
| Seminar | ||
| Midterms | ||
| Final exam | ||
| Total | ||
| Percentage of semester activities contributing grade succes | ||
| Percentage of final exam contributing grade succes | ||
| Total | ||
WORKLOAD AND ECTS CALCULATION
| Activities | Number | Duration (hour) | Total Work Load |
|---|---|---|---|
| Course Duration (x14) | 14 | 1 | 14 |
| Laboratory | 14 | 4 | 56 |
| Application | 0 | 0 | 0 |
| Specific practical training | 0 | 0 | 0 |
| Field activities | 0 | 0 | 0 |
| Study Hours Out of Class (Preliminary work, reinforcement, ect) | 14 | 10 | 140 |
| Presentation / Seminar Preparation | 0 | 0 | 0 |
| Project | 0 | 0 | 0 |
| Homework assignment | 1 | 20 | 20 |
| Midterms (Study duration) | 1 | 20 | 20 |
| Final Exam (Study duration) | 1 | 20 | 20 |
| Total Workload | 45 | 75 | 270 |
Matrix Of The Course Learning Outcomes Versus Program Outcomes
| D.9. Key Learning Outcomes | Contrubition level* | ||||
|---|---|---|---|---|---|
| 1 | 2 | 3 | 4 | 5 | |
*1 Lowest, 2 Low, 3 Average, 4 High, 5 Highest