300200 UE DNA sequencing: molecular protocols, Sanger sequencing and NGS (2020W)
a hands-on tutorial
Continuous assessment of course work
Labels
Registration/Deregistration
Note: The time of your registration within the registration period has no effect on the allocation of places (no first come, first served).
- Registration is open from Th 10.09.2020 08:00 to Th 24.09.2020 18:00
- Deregistration possible until Sa 31.10.2020 18:00
Details
max. 12 participants
Language: English
Lecturers
Classes (iCal) - next class is marked with N
Wednesday
07.10.
11:30 - 12:00
Übungsraum 1 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Monday
19.10.
09:00 - 18:00
Übungsraum 1 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Tuesday
20.10.
09:00 - 18:00
Übungsraum 1 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Wednesday
21.10.
09:00 - 18:00
Übungsraum 1 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Thursday
22.10.
09:00 - 18:00
Übungsraum 1 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Friday
23.10.
09:00 - 18:00
Übungsraum 1 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Monday
11.01.
09:00 - 18:00
Übungsraum 1 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Tuesday
12.01.
09:00 - 18:00
Übungsraum 1 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Wednesday
13.01.
09:00 - 18:00
Übungsraum 1 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Thursday
14.01.
09:00 - 18:00
Übungsraum 1 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Friday
15.01.
09:00 - 18:00
Übungsraum 1 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Friday
22.01.
09:00 - 13:00
Übungsraum 2 (Fakultätszentrum für Biodiversität) Rennweg 1.OG
Information
Aims, contents and method of the course
Assessment and permitted materials
There is compulsory attendance!
The initial meeting counts as the first teaching unit and therefore compulsory attendance is obligatory! An absence from the initial meeting without prior agreement (email!) causes de-registration from the course by the leader.
Maximum times allowed absent are 1 day (8 hours) per practical week with cogent excuse (e.g. doctor's confirmation letter, mandatory attendance of other courses or exams).The grading is based on three partial performances (participation, presentation, protocol). Active course participation is to be provided during the practical week, each of the two mini tests on the last course day of each week, and the protocol has to be submitted at a later date.
You must bring a lab coat for the practical laboratory days (not for the initial Meeting)!Beneficial for a positive graduation are:
(1) Basic lab experience (e.g., handling of piston stroke pipettes).
(2) Basic computational experience.
(3) Knowledge for performing a online literature survey.
(4) Ability for team work (usually in groups of 2).Due dates for the written protocol:
First dead-line: 26. March 2021 (with a possibility for corrections).
Final dead-line: 23. April 2021 (no possibility for corrections).
The initial meeting counts as the first teaching unit and therefore compulsory attendance is obligatory! An absence from the initial meeting without prior agreement (email!) causes de-registration from the course by the leader.
Maximum times allowed absent are 1 day (8 hours) per practical week with cogent excuse (e.g. doctor's confirmation letter, mandatory attendance of other courses or exams).The grading is based on three partial performances (participation, presentation, protocol). Active course participation is to be provided during the practical week, each of the two mini tests on the last course day of each week, and the protocol has to be submitted at a later date.
You must bring a lab coat for the practical laboratory days (not for the initial Meeting)!Beneficial for a positive graduation are:
(1) Basic lab experience (e.g., handling of piston stroke pipettes).
(2) Basic computational experience.
(3) Knowledge for performing a online literature survey.
(4) Ability for team work (usually in groups of 2).Due dates for the written protocol:
First dead-line: 26. March 2021 (with a possibility for corrections).
Final dead-line: 23. April 2021 (no possibility for corrections).
Minimum requirements and assessment criteria
The minimum requirements for a positive grading are based on the following partial performances:
(1) Active participation during the course.
(2) Two mini tests at the end of each practical week.
(3) Preparation of a written protocol in the style of a scientific publication according to the specifications of the course leader with a later submission date.Assessment of performance:
Each partial performances will be graded individually and will be integrated into the total grading of the course by different percentage points. For a positive total grading a minimum of half of the percentage points for each partial performances have to be reached.
Participation: 12.5% (4 pt.).
Test 1: 12.5% (4 pt.).
Test 1: 12.5% (4 pt.).
Protocol: 62.5% (20 pt).1 = 29-32 pt.
2 = 25-28 pt.
3 = 21-24 pt.
4 = 17-20 pt.
5 = ≤16 pt.
(1) Active participation during the course.
(2) Two mini tests at the end of each practical week.
(3) Preparation of a written protocol in the style of a scientific publication according to the specifications of the course leader with a later submission date.Assessment of performance:
Each partial performances will be graded individually and will be integrated into the total grading of the course by different percentage points. For a positive total grading a minimum of half of the percentage points for each partial performances have to be reached.
Participation: 12.5% (4 pt.).
Test 1: 12.5% (4 pt.).
Test 1: 12.5% (4 pt.).
Protocol: 62.5% (20 pt).1 = 29-32 pt.
2 = 25-28 pt.
3 = 21-24 pt.
4 = 17-20 pt.
5 = ≤16 pt.
Examination topics
There will be two intermediate exams.
The protocol has to be prepared with content of the course and additional literature.
The protocol has to be prepared with content of the course and additional literature.
Reading list
Association in the course directory
MBO 5, MEC-9, M-WZB
Last modified: Tu 13.04.2021 13:09
Content: We will give an overview of the different sequencing techniques and their use in systematic and evolutionary biology with examples from botany. In addition, the advantages, limits and pitfalls over the different technologies in comparison to traditional methods are discussed.
Methods: The students perform practically all main steps from DNA extraction, PCR and sequencing (after Sanger, chain termination method) of provided organismal samples. Other methods of DNA extraction and library preparation methods for Illumina and PacBio sequencing (NGS) are introduced. The generated DNA sequences will be analysed and a phylogenetic framework will be constructed. On the last course day the students will analyse Illumina NGS data which already has been generated beforehand.