BMB808: Biomolecular mass spectrometry (5 ECTS)

STADS: 01005301

Level
Master's level course

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

Teacher responsible
Email: jenseno@bmb.sdu.dk

Additional teachers
f.kir@bmb.sdu.dk

Timetable
There is no timetable available for the chosen semester.

Comment:
Maksimalt deltagerantal 24 sammenkørt med BMB515.

Prerequisites:
None

Academic preconditions:
Bachelor in BMB, Biomedicine, Chemistry, Biology, Nanobioscience or Lægemiddelvidenskab for SDU students; equivalent bachelor degree for other 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, or the present BMB515.

Course introduction
ntroduce the student to the use of mass spectrometry in biochemistry, biomedicine, molecular biology and systems biology (genomics/proteomics/metabolomics) to a level, where the student can make a qualified choice of mass spectrometric equipment for his/hers research project. Make the student able to understand and assess the application of biomolecular mass spectrometry in research literature.

Expected learning outcome
Master the terminology in mass spectrometry
• Explain 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 argue for the advantages and disadvantages of these mass analysers.
• Explain the principles in In source fragmentation, Collision induced fragmentation and electron induced fragmentations of biomolecules, and argue for the choice of fragmentation method.
• 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 characteristics of MS and tandem MS of proteins/peptides, nucleic acids, carbohydrates and lipids
• Interpret common mass spectra and tandem mass spectra of biomolecules
• Assess and interpret the use of biomolecular mass spectrometry in original scientific literature.

Subject overview
Basic components of a mass spectrometer and fundamental terminology. 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:
a) 4 hours written exam. Danish 7-mark scale. External examiner.
b) Lab. work. Pass/fail, internal examiner.

The written exam is based on a scientific paper, in which mass spectrometry is applied. All written aids except computers may be used during exam.
Active participation in the lab exercises is required to pass the course.

Reexam after 2nd. quater.

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

Forelæsninger: 34 timer
Laboratorieøvelser: 16 timer
Forelæsningerne vil involvere de studerende i form af opgaveløsning, diskussion af artikler og opfølgning på laboratorieøvelser.
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 previous study programme. The course will predominantly be taught together with BMB515 - the bachelor-version of BMB8xx, but with an increased syllabus. The total number of participants for the two courses is limited to 24.

Course enrollment
See deadline of enrolment.

Tuition fees for single courses
See fees for single courses.