BMB515: Biomolecular mass spectrometry (5 ECTS)

STADS: 01005501

Level
Bachelor course

Teaching period
The course is offered in the spring semester.
4th quarter.

Teacher responsible
Email: jenseno@bmb.sdu.dk

Additional teachers
f.kir@bmb.sdu.dk

Timetable
Show entire timetable
Show personal time table for this course.

Comment:
Maksimalt deltagerantal 24 sammenkørt med BMB808.

Prerequisites:
None

Academic preconditions:
Passed Science year for SDU students. Knowledge of basic and organic chemistry, biochemistry, protein chemistry and molecular biology is assumed. The course cannot be follow by students who have passed BMK21, BM31 or BM32 on the previous study programme.

Course introduction
Introduction to the use of mass spectrometry in chemistry, biochemistry, biomedicine, molecular biology and systems biology (genomics/proteomics/metabolomics). The emphasis will be on analysis of proteins and nucleic acids, but with aspects of lipids, carbohydrates and metabolites.

Qualifications
By the end of the course, the student can:
Give the outline of modern mass spectrometers, including tandem mass spectrometers
Interpret simple mass spectra and tandem mass spectra
Give motivated suggestions for mass spectrometric analysis of simple chemical or biochemical/molecular biology problems, including:
• Motivation for the choice of mass spectrometric instrumentation for a given molecule
• Motivation for the choice of sample preparation before mass spectrometric analysis.
Read, understand and evaluate the use of mass spectrometry in chemical and biochemical/molecular biology research literature.

Expected learning outcome
When the course is completed, the student should be able to:
• Master the fundamental terminology in mass spectrometry
• Sketch the principles for the ionisation methods Electron ionisation, Chemical ionisation, MALDI, Electrospray ionisation, and argue for the choice of ionisation method for a given biomolecule
• Explain the principles in quadrupole, Paul Trap, Fourier Transform-Ion Cyclotron Resonance, Orbitrap and Time-of-Flight mass analysers, and be familiar with the advantages and disadvantages of these mass analysers.
• Sketch the principles in In-source fragmentation, Collision induced fragmentation and electron induced fragmentations of biomolecules, and be familiar with the advantages and disadvantages of these fragmentation methods.
• Explain the principles in tandem mass spectrometry (MS) using common combinations of quadrupole, Paul Trap, Fourier Transform-Ion Cyclotron Resonance, Orbitrap and Time-of-Flight mass analysers, and evaluate their use in the analysis of biomolecules.
• Argue for the use of tandem mass spectrometry, Liquid Chromatography/Gas Chromatography-MS and quantitative mass spectrometry in the characterisation of biomolecules.
• Explain the fundamental characteristics of MS and tandem MS of proteins/peptides, nucleic acids, carbohydrates and lipids
• Interpret simple mass spectra and tandem mass spectra of biomolecules
• Assess the use of biomolecular mass spectrometry in original scientific literature.

Subject overview
Introduction to modern mass spectrometric techniques, including different types of ionisations and mass analysers.
Instrument aspects and fragmentation techniques.
Structure elucidation of biological molecules by mass spectrometry and tandem mass spectrometry.
Combinations of chromatography and electrophoresis with mass spectrometry.
Quantitative analysis of biomolecules by mass spectrometry.
Metabolic studies using stable isotopes.
Sample preparation for mass spectrometry.

Literature

• E. De Hoffmann, V. Stroobant: Mass Spectrometry - principles and applications, (3nd Ed., Wiley 2007 ). (kan købes i Studenterboghandelen). . .

Syllabus
See syllabus.

Website
This course uses e-learn (blackboard).

Prerequisites for participating in the exam
None

Assessment and marking:
4 hours written exam with marks according to the Danish 7-scale.
All written aids except computers may be used during exam.
Active participation in the lab exercises is required to pass the course.

Expected working hours
The teaching method is based on three phase model.

Forelæsninger (34 timer) og laboratorieøvelser (16 timer). Forelæsningerne inkluderer opfølgning på laboratorieøvelser, opgaveregning og artikelgennemgang.
Aktiv deltagelse i laboratorieøvelserne er en forudsætning for at bestå kurset.
Educational activities

Language
This course is taught in English, if international students participate. Otherwise the course is taught in Danish.

Remarks
The course replaces BMK21/BMKP21 in the old study programme, but it is no longer a PhD-course. The course will be taught in English if foreign students participate, otherwise in Danish. The number of participants is limited to 24.

Course enrollment
See deadline of enrolment.

Tuition fees for single courses
See fees for single courses.