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Methods of spectral analysis

 

Course code

Course group

Volume in ECTS credits

Course valid from 

Course valid to

Reg. No.

BBK 5007

C

6

2013 05 31

2016 05 31

 

 

Course type (compulsory or optional)

Compulsory

Course level (study cycle)

Master

Semester the course is delivered

Spring

Study form (face-to-face or distant)

Face-to-face

 

Course title in Lithuanian

KIETŲ KŪNŲ IR PAVIRŠIŲ ANALIZĖS METODAI

Course title in English

ANALYSIS METHODS OF SOLIDS AND SURFACES

Short course annotation in Lithuanian (up to 500 characters)

Dalyko studijų turinį sudaro naujausi fizikiniai cheminiai tyrimų metodai, naudojami medžiagų mikrostruktūrai ir elementinei sudėčiai nustatyti. Bus pateiktos žinios apie analizės metodų veikimo principus, jų konstrukciją, bei jų panaudojimą medžiagų savybių analizei (kokybinei ir kiekybinei) atlikti, akcentuojant galimas paklaidas (lateralines ir gylumines) matuojant elemntinės sudėties pasiskirstymo profilius. Ypatingas dėmesys skiriamas Rentgeno spindulių difrakciniams metodams, tame tarpe fotoelektroninei ir Ože elektroninei spektroskopijai, bei medžiagų analizės metodams, atliemamos joninių spindulių pagalba.

Short course annotation in English (up to 500 characters)

The course deals with modern methods used to study microstructure and composition of solids and surfaces.

The emphasis is on understanding of the physical principles of the techniques, the basics of the

instruments, the uses for elemental and chemical state analysis (both qualitative and quantitative) and

the lateral and depth resolution capabilities of each technique. Many illustrative examples are given

across a range of materials. The main topics on Surface Analysis and Depth Profiling by X-Ray

Photoelectron Spectroscopy (XRD, XPS or ESCA), Auger Electron Spectroscopy (AES), Focused

Ion Beam Analysis (FIB) and Secondary Ion Mass Spectroscopy (SIMS).

Prerequisites for entering the course

Mathematics, General Physics and Chemistry

Course aim

Become familiar with the principles of analysis techniques used to study microstructure and composition of solids and surfaces. Learn the relative capabilities (and limitations) of the techniques, and their principle applications

Links between course outcomes and criteria of learning achievement evaluation

Course outcomes

Criteria of learning achievement evaluation

 

1. Investigate the macroscopic, atomic, subatomic, and particulate phenomena on surfaces in terms of physical and chemical laws and concepts.

 

Analysis of surfaces in terms of physical and chemical properties and concepts on the macroscopic and microscopic levels.

 

2. Use of electronic beam analysis techniques for elemental and chemical state analysis (both qualitative and quantitative) .

 

Analysis of applications of electronic beam analysis techniques for elemental and chemical state analysis

 

 

3. Use of ion beam analysis techniques for elemental and chemical state analysis (both qualitative and quantitative). Ion profiling.

Analysis of applications of electronic beam analysis techniques for elemental and chemical state analysis: advantages and disadvantages

 

 

4. Investigate surface microstructure and surface topography.

Analysis of surface roughness.

 

5. Use of optical analysis methods.

6. Comparative analysis of various surface analysis techniques.

7. Selection of surface analysis techniques.

Analysis methods used in physical chemistry

 

8. Describe the main thermal analysis methods and factors which influence the quality of analysis.

Description of the main thermal analysis methods and factors which influence the quality of analysis.

 

9. Compare the methods of differential thermal analysis and differential scanning calorimetry in theoretical approach. To describe the application fields and factors which influence the quality of analysis.

Comparison the methods of differential thermal analysis and differential scanning calorimetry in theoretical approach. To describe the application fields and factors which influence the quality of analysis.

 

 

Content (topics)

 

1. Introduction.

2. Fundamental of Surface Sciences.

3. Logical sequence of practical surface analytical problem solving.

 

4. Electron Beam Techniques:

i. Electron Microscopy (EM);

ii. Energy Dispersive X-ray (EDX);

iii. Auger Electron Spectroscopy (AES);

iv. Electron Energy Loss Spectroscopy (EELS).

 

5. Ion Beam Techniques:

i. Secondary Ion Mass Spectroscopy (SIMS);

ii. Rutherford Backscattering Spectrometry (RBS).

 

6. X-Ray Techniques:

i. X-Ray Fluorescence (XRF);

ii. X-Ray Photoelectron Spectroscopy (XPS);

iii. X-Ray Diffraction (XRD).

7. Scanning Probe Microscopy:

i. Atomic Force Microscopy (AFM).

 

8. Optical Techniques:

i. Fourier Transform Infrared Spectroscopy (FTIR);

ii. Raman Spectroscopy.

9. Comparison of Various Surface Analysis Techniques.

10. Selection of Surface Analysis Techniques – A General Rule

 

11. Introduction to thermal analysis methods.

 

12. Thermogravimetry. Apparatus. Applications of thermogravimetry.

 

13. Differential scanning calorimetry.

14. Thermomechanical and dynamic mechanical analysis.

       

Study (teaching and learning) methods

Lectures, discussions, experimental

Methods of learning achievement assessment

Practical work (contents):

SEM, X-ray diffractometer, Auger spectroscopy, Glow Discharge Optical Emission spectroscopy (GDOES), AFM, DSC.

Distribution of workload for students (contact and independent work hours)

Lectures – 45 hours, laboratory work– 15 hours, individual work – 100 hours.

Structure of cumulative score and value of its constituent parts

Final assessment sums the assessments of written final examination (50%), written mid-term examination (25%) and assessment of laboratory works (25%).

Recommended reference materials

 

Publication year

Authors of publication and title

Publishing house

Number of copies in

University library

Self-study rooms

Other libraries

Basic materials

1.

1993

L. Pranevičius. Coating Technology: Ion Beam Deposition.

Warwick, Rhode Island

6

10

 

2.

2006

A.Galdikas. Surface Electrochemistry http://www.hydrogen.lt/mokymai/kursai/surface_elektrochemistry.pdf

LEI

2

20

 

3.

1992

R.S. Drago. Physical methods for chemist. 2nd ed.

Saunders College Publishing

 

1

 

4.

1995

P.J. Haines. Thermal methods of analysis

London: Backie Academic & Professional

1

 

 

Supplementary materials

 

2000

D. Mickevičius. Cheminės analizės metodai 3d.

Kaunas, VDU

95

1

 

Course programme designed by

Prof. Liudvikas Pranevičius, Associate Professor Lina Ragelienė

 

 

 

 

Term paper

 

 

 

 

Course code

Course group

Volume in ECTS credits

Course hours

Course valid from

Course valid to

Reg. No.

BBK5005

C

6

160

2013.05.31

2016.05.31

 

 

Course type (compulsory or optional)

Compulsory

Course level (study cycle)

Master

Semester the course is delivered

Autumn

Study form (face-to-face or distant)

Face-to-face

 

Course title in Lithuanian

Kursinis darbas

Course title in English

Term paper

Short course annotation in Lithuanian

Rengiant tyrimo darbą savarankiškai analizuojama mokslinė literatūra pasirinktais biochemijos ir molekulinės biologijos klausimais. Darbas parengiamas rašytinio mokslinio pranešimo forma ir viešai pristatomas dėstytojams ir studentams, iliustruojant teiginius ir išvadas schemomis, grafikais ir lentelėmis. Rekomenduojama, kad pasirinkta tyrimo darbo tema būtų artima numatomai magistro baigiamojo darbo temai

Short course annotation in English

The aim of project work is to analyze scientific literature on a chosen topic in the fields of Biochemistry, Molecular cell biology,

enzymology and bioenergetics. Course work should be prepared in the form of the scientific presentation with illustrations

of the main conclusions and considerations and orally presented to teachers and students.

Prerequisites for entering the course

Knowledge of Basic Biochemistry

Course aim

Self-sufficient analysis of scientific literature on chosen subject in the field of biochemistry and molecular biology.

Links between course outcomes and criteria of learning achievement evaluation

Course outcomes

Criteria of learning achievement evaluation

Knowledge how to apply search methods in scientific literature.

 

Ability to analyze data from literature, make generalization and conclusions in chosen area of studies

Students:

1. Integrate and evaluate information from a variety of sources;

2. Demonstrate problem definition, project design and

evaluation;

3. Communicate effectively through oral presentations, computer processing and presentations, and written reports;

4. Learn effectively for the purpose of continuing professional development.

Content (topics)

Content chosen individually, regarding to research thesis

Distribution of workload for students (contact and independent work hours)

Consultation – 10 hours, examination – 3 hours, individual work – 147 hours.

Final assessment sums the assessments of paper work (70%), verbal presentation (15%), slide show presentation (15%).

Recommended reference materials

Composed individually by project supervisor

Course programme designed by

Rimantas Daugelavičius, Faculty of Natural Sciences, Department of Biochemistry and Biotechnologies

 

Course code

Course group

Volume in ECTS credits

Course valid from 

Course valid to

Reg. No.

BBK5006

C

6

2013 05 31

2016 05 31

 

             

 

Course type (compulsory or optional)

Compulsory

Course level (study cycle)

Master

Semester the course is delivered

2, Spring

Study form (face-to-face or distant)

Face-to-face

 

Course title in Lithuanian

SPEKTRINĖS ANALIZĖS METODAI

Course title in English

METHODS OF SPECTRAL ANALYSIS

Short course annotation in Lithuanian (up to 500 characters)

Šis dalykas skirtas suteikti teorinių ir praktinių žinių apie įvairius spektrinės analizės metodus, šiuolaikinius naujausius prietaisus, jų taikymą cheminių junginių struktūros nustatymui, kiekybinei analizei, visuminei biologinių sistemų analizei bei in vivo vaizdinimui. Seminarų ir laboratorinių darbų metu išmokstama taikyti teoriniame kurse aptartus metodus praktinių analitinių uždavinių sprendimui.

Short course annotation in English (up to 500 characters)

This course aims to provide understanding and practical experience in the use of various spectroscopic techniques and

modern instruments for the structure analysis of chemical substances, quantitative analysis, integrative biological systems

analysis (different „-omics“) and in vivo imaging. During seminars and laboratory works students learn to apply theory

of spectral analysis for practical solution of analytical problems.

Prerequisites for entering the course

Organic chemistry, Physical chemistry, Physicochemical analysis

Course aim

To develop understanding in basic concepts of spectral analysis and its modern applications

Links between study programme outcomes, course outcomes and criteria of learning achievement evaluation

 

Course outcomes

Criteria of learning achievement evaluation

1. To apply atomic spectroscopy

Student is able to describe the principles of atomic spectroscopy; to evaluate possibilities and limitations of these methods; to choose appropriate method for analytical problem solution; to apply theory and practical knowledge for qualitative and quantitative chemical analysis.

2. To apply molecular spectroscopy

Student is able to describe the principles of molecular  spectroscopy; to evaluate possibilities and limitations of these methods; to choose appropriate method for analytical problem solution; to apply theory and practical knowledge for chemical compound structure analysis  using experimental data (spectra); to evaluate analysis data.

3. To apply nuclear magnetic resonanse spectroscopy

Student is able to describe the principles of nucrear magnetic resonanse spectroscopy; to evaluate possibilities and limitations of these methods; to choose appropriate method for analytical problem solution; to apply theory and practical knowledge for chemical compound structure analysis  using experimental data (spectra); to evaluate analysis data.

4. To apply mass spectrometry

 

Student is able to describe the principles of mass spectrometry; to evaluate possibilities and limitations of these methods; to choose appropriate method for analytical problem solution; to apply theory and practical knowledge for chemical compound structure analysis  using experimental data (spectra); to evaluate analysis data.

5. To apply X-ray spectroscopy

 

Student is able to describe the principles of X-ray diffraction  spectroscopy; to evaluate possibilities and limitations of the method.

6. To determine the structure of chemical compound from its spectra

Student is able to apply theory and practical knowledge for chemical compound structure analysis using experimental data (various spectra); to evaluate analysis data.

 

Link between course outcomes and content

Course outcomes

Content (topics)

1. To apply atomic spectroscopy

1. Introduction to spectral analysis. Electromagnetic radiation. The principles of quantum mechanics in spectroscopy.

2. Atomic spectroscopy.

2. To apply molecular spectroscopy

3. Ultraviolet and visible molecular spectroscopy.

4. Luminescence spectroscopy.

5. Infrared (IR) molecular absorption spectroscopy.

6. Raman spectroscopy.

3. To apply nuclear magnetic resonance spectroscopy

7. Nuclear magnetic resonance (NMR) spectroscopy.

8. 1H NMR spectroscopy.

9. 13C NMR spectroscopy.

10. Two-dimensional (2D) NMR spectroscopy.

4. To apply mass spectrometry

11. Mass spectrometry (MS).

12. Mass spectrometers.

13. MS for integrative biological system analysis („-omics“).

5. To apply X-ray spectroscopy

14. X-ray diffraction analysis.

6. To determine the structure of chemical compound from its spectra

15. Complex spectral methods for molecular structure determination.

(and all topics of the course)

Study (teaching and learning) methods

Teaching methods: material presentation; illustration with examples; problems' solution and explanation; consulting.

Learning methods: discussion; problem analysis; consulting; literature analysis; studying of lecture and practical work material; practical problem solution; individual student's work: information search in the literature and information analysis.

Methods of learning achievement assessment

Written test, practical problem solution.

Distribution of workload for students (contact and independent work hours)

Lectures

45 hours

Seminars

3 hours

Laboratory work

12 hours

Individual students work

100 hours

Total:

160 hours

Structure of cumulative score and value of its constituent parts

Mid-term test - 20 %, laboratory work – 15%, control test – 15 %, examination - 50 %.

Recommended reference materials

No.

 

Publication year

Authors of publication and title

Publishing house

Number of copies in

 

University library

Self-study rooms

Other libraries 

Basic materials

 

1.

2009

Pavia D.L., Lampman G. M., Kriz G. S., Vyvyan J. R. Introduction to Spectroscopy. 4th ed.

Brooks/Cole

 

1

 

2.

2008

Field L. D., Sternhell S., Kalman J. R. Organic Structures from Spectra. 4th ed.

John Wiley&Sons Ltd.

 

1

 

3.

1998

Lee T. A. A Beginner’s Guide to Mass Spectral Interpretation

John Wiley&Sons Ltd.

 

1

 

4.

2002

Hollas J. M. Basic Atomic and

Molecular Spectroscopy.

Royal Society of Chemistry

 

1

 

                 

Course programme designed by

Assoc.prof.Dr. Rasa Žūkienė, Dept. of Biochemistry and Biotechnologies

 

 

 

Separation methods in biotechnology

 

Course code

Course group

Volume in ECTS credits

Course valid from

Course valid to

Reg. No.

BBK 6008

C

6

2013.05.31

2016.05.31

 

 

Course type (compulsory or optional)

Compulsory

Course level (study cycle)

Master

Semester the course is delivered

Autumn

Study form (face-to-face or distant)

Face-to-face

Course title in Lithuanian

Atskyrimo metodai biotechnologijoje

Course title in English

Separation methods in biotechnology

Short course annotation in Lithuanian

Dalyko tikslas – įgyti žinių apie medžiagų analitinius bei preparatyvius atskyrimo metodus, perskyrimo principus, taikymus ir apribojimus.

Short course annotation in English

The aim of this course is to obtain knowledge about analytical and preparative separation methods, principals of

separation, application and limitations.

Prerequisites for entering the course

Biochemistry, Physical chemistry, Chemical analysis.

Course aim

The aim of the course – to prepare students for a work in biochemistry laboratory, comprehend principals of separation and to teach to interpret data.

Links between study programme outcomes, course outcomes and criteria of learning achievement evaluation

 

Course outcomes

Criteria of learning achievement evaluation

1. To know the properties of separated  materials

Knowledge of the bioproducts properties, which allow separation of the materials.

2. To know the basic properties databases of bioproducts.

Knowledge of the basic databases of bioproducts, the ability to find information about the separated materials properties.

3. To know purification methods of water for biotechnology.

The ability to choose the water purification methods for removing specific contaminants.

4. To understand the organization of the purified water supply and storage.

Ability to evaluate water supply and storage systems; choose the appropriate to specific purposes.

5. To know how to remove pyrogen and minor impurities from solutions.

Knowledge of minor impurities impact on water quality and ways to remove them.

6. To acquire knowledge of sedimentation separation methods.

The ability to evaluate substances and the environment in which separation by sedimentation methods is possible.

7. To know the precipitation fractionation methods

Knowledge about fractionation of bioproducts

8. To understand and to know the tangential filtration methods.

Characterize the basic tangential filtration techniques and their application areas.

9. To know and to understand the principles of chromatographic separations methods.

The ability to understand the basic chromatographic separation methods and their applications.

10. To acquire knowledge about the electro kinetic separation methods.

Define electro kinetic separation and detection methods of material and their applications.

11. To learn to evaluate the obtained results of separations

To be able to evaluate the analytical and preparative separations results.

 Link between course outcomes and content

Course outcomes

Content (topics)

1. To know the properties of separated  materials

Separation methods of components link with their properties, which is based on the separation method.

2. To know the basic properties databases of bioproducts.

Learn how to use online databases ExPasy, Brenda etc.

3. To know purification methods of water for biotechnology.

Raw water characteristics. Water purification methods: distillation, filtration, water softening and deionization, reverse osmosis, electro dialysis, tangential filtration, UV radiation.

4. To understand the organization of the purified water supply and storage.

Water specification for biotechnology purposes. Purified water storage and delivery system design and requirements.

5. To know how to remove pyrogen and minor impurities from solutions.

Sterile filtration. Filtration materials, depth and membrane filters. Production of apirogenic solutions.

6. To acquire knowledge of sedimentation separation methods.

Fractionation basics of sedimentation, centrifugation and ultracentrifugation, their possibilities.

7. To know the precipitation fractionation methods

Precipitation with salts, polymers, solvents, pH, and temperature changes.

8. To understand and to know the tangential filtration methods.

Microfiltration, ultrafiltration, concentration, diafiltration, nanofiltration, reversed osmosis.

9. To know and to understand the principles of chromatographic separations methods.

Adsorption isotherm, static and dynamic binding capacity, selectivity, separation efficiency.

Static and dynamic separation methods. Chromatographic media, their morphological and adsorption properties.

Chromatographic methods divided by the method used, by used stationary and mobile phases, according to the nature of interaction.

10. To acquire knowledge about the electro kinetic separation methods.

Native electrophoresis, SDS page, two-dimensional gel electrophoresis, electro blotting (Southern, Western, Northern), isoelectric focusing, capillary electrophoresis.

11. To learn to evaluate the obtained results of separations

Evaluation of analytical methods results.
Preparative purification measurement:  purification process description, purification balance, specific activity enrichment, product yield.

Study (teaching and learning) methods

Teaching methods: explaining represented matter with visualization; formulation and explaining of problematic exercises and practical tasks; consulting.

Learning methods: discussions; analysing of problematic exercises; taking counsel; literature analysis; learning of lectures and practise classes matters; performance of practical tasks; performance of laboratory works; independent students work: search and analysis of information concerning studying object.

Methods of learning achievement assessment

Interview in written form, performance of practical tasks and works.

Distribution of workload for students (contact and independent work hours)

Lectures

30 hours

Laboratory work

30 hours

Individual students work

92 hours

Knowledge tests (auditorial tests, midterm, final examination)

8 hours

Total:

160 hours

Structure of cumulative score and value of its constituent parts

Mid-term exam

20%

laboratory works (lab reports and test)

30%

final exam

50%

 

Recommended reference materials

No.

 

Publication year

Authors of publication and title

Publishing house

Number of copies in

University library

Self-study rooms

Other libraries*

Basic materials

1.

2001

Protein Purification Techniques - A Practical Approach.

Edited by Simon Roe

Oxford University Press

 

1

1

2.

1989

Protein purification methods: A practical approach. Ed. by E.L.V. Harris and S. Angal

IRC Press, Oxford University press,

 

1

1

3.

2001

Protein Purification Applications - A Practical Approach New Edition. Edited by Simon Roe

Oxfod university press

 

1

1

4.

1998

Bioseparation and bioprocessing. Volume I: Biochromatography, Membrane separations, Modeling, Validation. Ed. by G. Subramanian

Wiley-VCH

 

1

1

5.

2000

Principles and Techniques of Practical Biochemistry

Edited by Keith Wilson, John Walker, 5th Edition,

Prentice Hall

 

1

1

Supplementary materials

1.

2005

Jan Koolman, Klaus-Heinrich Roehm, Color Atlas of Biochemistry Second edition, revised and enlarged

Thieme Stuttgart, New York

 

1

1

               

Course programme designed by

Lecturer Vytautas Budrys, dr. Kostas Radzevičius

 

 

 

 

Membranes and bioenergetics

 

 

 

Course code

Course group

Volume in ECTS credits

Course hours

Course valid from

Course valid to

Reg. No.

BBK5004

C

6

160

2013.05.31

2016.05.31

 

 

Course type (compulsory or optional)

Compulsory

Course level (study cycle)

Master

Semester the course is delivered

Autumn

Study form (face-to-face or distant)

Face-to-face

 

Course title in Lithuanian

MEMBRANOS IR BIOENERGETIKA

Course title in English

MEMBRANES AND BIOENERGETICS

Short course annotation in Lithuanian

Membranų ir bioenergetikos kurse analizuojami energijos kaupimo ląstelėse molekuliniai mechanizmai bei energetiniai virsmai, vykstantys gyvuose organizmuose. Šis dalykas skirtas suteikti studentams gilesnių teorinių ir praktinių žinių apie biologines membranas, jų struktūrą ir funkcijas, akcentuojant membranų vaidmenį energijos virsmuose ląstelėje. Bus nagrinėjama metaloproteinų veikla elektronų pernašos grandinėse. Ypatingas dėmesys bus skiriamas šiuolaikiniams membranų ir ląstelės energetikos tyrimo metodams, šios srities problemų sprendimui ir tam taikomiems naujausiems prietaisams. Seminarų ir laboratorinių darbų metu studentai išmoks taikyti teoriniame kurse aptartus metodus praktinių uždavinių sprendimui. Kursas baigiamas įvairių ląstelių bei jų organelių vaidmens energijos transformacijoje lyginamąja analize ir energiją transformuojančių sistemų evoliucijos apžvalga.

Short course annotation in English

The aim of course is to deepen student’s knowledge on structure, function and pathology of biological membranes

with particular emphasis on principles of energy transformation (bioenergetics). The topics of the course are selected

to achieve the following objectives: 1) to introduce and to explain the basic concepts in Membrane biology and Bioenergetics,

2) to develop more adequate understanding of cellular and biotechnological processes. In practical training and seminars

students learn the principal research methods in Membrane biology and Bioenergetics, develop skills for problem solving.

Teaching methods are lectures, seminars and laboratory works.

Prerequisites for entering the course

Knowledge of Basic Biochemistry

Course aim

The aim of this course is to cover fundamenal aspects of the structure and function of biological membranes and energy transformation in living organisms at a molecular level with the emphasis on modern methods of investigation.

Links between course outcomes and criteria of learning achievement evaluation

Course outcomes

Criteria of learning achievement evaluation

Understanding of the fundamental aspects of composition, structure and functioning of biological membranes and energy transformation in living organisms;

Students:

1. Integrate and evaluate information from a variety of sources;

2. Demonstrate problem definition, project design and

evaluation;

3. Communicate effectively through oral presentations, computer processing and presentations,

and written reports;

4. Learn effectively for the purpose of continuing professional development.

 

Ability to state the laws of chemical thermodynamics, to describe the main terms, to understand energetical processes in living cells, biological role of membrane structures, and the associated energy transformation mechanisms;

Ability to describe ways of energy transformation in animal and plant cells, archaea and bacteria, to describe the membrane transport mechanisms; to describe the process of synthesis of ATP by chemiosmosis

Ability to understand how artificial membranes are prepared, to describe the applications and limits of the membrane research methods;

Knowledge and understanding of  the possibilities to apply methods of studies of biological membranes and bioenergetics to solve fundamental problems in biomedicine and to use for the applied research in biotechnology.

 Content (topics)

  1. Energy transduction and transformation in living systems
  2. Thermodynamics of biological systems
  3. Structure and composition of  biological membranes
  4. Mechanisms of transmembrane transport
  5. Transport of macromolecules through biological membranes
  6. Biological electron transport chains
  7. Energetical properties of plant cells. Photosynthesis
  8. Chemiosmotic processes in living systems.  ATP-synthase
  9. Methods for studies of  biological membranes and bioenergetics
  10. Molecular motors
  11. ATPases and ion channels
  12. Energetics of extremophiles
  13. Evolution of bioenergetics systems
  14. Thermoregulation of organisms

Practical work (contents):

  1. The analysis of oxidative phosphorylation system functions: the effect of inhibitors, uncouplers and selected efector on mitochondrial respiratory rate.
  2. The registration and calculation of mitochondrial transmembrane potential.
  3. The determination of ATP amount in mitochondria and cells by chemiluminescence method.
  4. The determination of reactive oxygen species (ROS) in mitochondria and cells using specific fluorescent indicators.
  5. The registration of current through plasma membrane by patch-clamp method.

Distribution of workload for students (contact and independent work hours)

Lectures – 45 hours, laboratory work 12 hours, seminar 3 hours,  individual work – 87 hours.

Structure of cumulative score and value of its constituent parts

Final assessment sums the assessments of written final examination (50%), written mid-term examination (20%), assessment of laboratory works (30%).

Recommended reference materials

No.

 

Publication year

Authors of publication and title

Publishing house

Number of copies in

University library

Self-study rooms

Other libraries 

Basic materials

1.

2008

R. Daugelavičius. Molekulinė ląstelės energetika  

Kaunas: Technologija

 

0

40

 

2.

2002

D.G. Nicholls, S.J. Ferguson. Bioenergetics 3

Academic Press

0

1

 

Supplementary materials

1.

2001

D.T. Haynie. Biological Thermodynamics

Cambridge University Press

 

2.

2013

http://booksite.elsevier.com/9780123884251/

Internet (Elsevier)

 

3.

2012

http://www.bmb.leeds.ac.uk/illingworth/oxphos/

Internet

 

4.

2012

http://www.biophysics.org/btol/bioenerg.html

Internet

 

5.

2012

http://members.tripod.com/mitoart/database/index/i-bioenr.htm

Internet

 

6.

2012

http://web.chem.ucsb.edu/~molvisual/ABLE/membrane_biochem/index.html

Internet

 

                 

Course programme designed by

Rimantas Daugelavičius and Rasa Žūkienė, Faculty of Natural Sciences, Department of Biochemistry and Biotechnologies

 

Biologically Active Compounds

Course code

Course group

Volume in ECTS credits

Course hours

Course valid from

Course valid to

Reg. No.

BBK5002

C

6

160

2013.05.31

2016.05.31

 

 

Course type (compulsory or optional)

Compulsory

Course level (study cycle)

Master

Semester the course is delivered

Autumn

Study form (face-to-face or distant)

Face-to-face

 

Course title in Lithuanian

BIOLOGIŠKAI AKTYVIOS MEDŽIAGOS

Course title in English

BIOLOGICALLY ACTIVE COMPOUNDS

Short course annotation in Lithuanian

Dalykas skirtas supažindinti studentus su biologiškai aktyvių medžiagų paplitimu ir naudojimu. Studijų metu studentai įgys žinių apie biologiškai aktyvių medžiagų kilmę, jų fizines ir chemines savybes bei išskyrimo metodus, poveikį organizmui, jų toksiškumą, biotransformaciją organizme, bei organizmo biologinio atsako į aplinkos cheminius junginius įvertinimu. Įgis  biologiškai aktyvių medžiagų kiekybinio ir kokybinio nustatymo įgūdžius.

Short course annotation in English

The general objective of the course is to overview biologically active substances, their origins and uses, and the chemical aspects of their exposure. During the course students will be introduced with physical and chemical properties of biologically active substances, methods of  their extraction and analysis. Special attention will be given to biotransformation, and elimination by living organism and to evaluation of organism response.

Prerequisites for entering the course

General chemistry, Organic chemistry, Physical chemistry and Biochemistry

Course aim

This course introduced  the recognition and toxicology of biological active substances their interaction and biotransformation in tissues and living systems and methods of their analyses.

Links between course outcomes and criteria of learning achievement evaluation

Course outcomes

Criteria of learning achievement evaluation

At the end of the course students know classification of biological active substances, methods of qualitative and quantitative determination of drugs and poisonous substances and their metabolites in the biological fluids and tissues;

 

Be able prepare the subjects toxicological analysis and execute preliminary tests; classify, isolate  of biologically active (toxic) ssubstances from the biological matrices using water steam distillation, extraction with organic solvents, solid phase extraction and mineralization methods. Separate and identify the biologically active (toxic) substances with chemical reactions and instrumental methods.

At the end of the course students should be able to explain the significance of biotransformation of biologically active foreign to organisms substances as a determinant of the toxicokinetic and toxicodynamic activities of chemicals.

 

Describe how foreign chemicals or xenobiotics are absorbed, distributed, and metabolized. Describe how xenobiotics may be metabolized and transformed, the stages of biotransformation and enzymes participating in drug/toxins metabolism; Describe factors (age, food, drinks, diseases et. ct.) affecting xenobiotics metabolism. Present biotransformation- induced toxification and detoxification of selected chemicals and drugs.

At the end of the course the students knows the basic concepts concerning the reactivity and the mechanism of action of toxic substances, potential harmful effects of chemical compounds to humans, detoxification, and antidotes.

 

Be able to evaluate toxic syndromes and complications caused by biologically active substances (toxic), their lethal doses, antidotes selection principles. Be able to deal with uncertainty and adapt to new situations. Be able to work autonomously. Be able to solve problems. Be able to make decisions. Be able to work in a team. Be able to communicate with experts of other sciences.

Content (topics)

 

 

At the end of the course students know classification of biological active substances, methods of qualitative and quantitative determination of drugs and poisonous substances and their metabolites in the biological fluids and tissues;

 

  1. Classification of biologically active (toxic) substances, analysis development, problem sand objects of research.    Relationship with other scientific fields.
  2. Bio- active ingredients. Animal, plant and microbial origin active material and its use.
  3. Toxicological analysis. Forensic toxicology. Sample preparation (poison isolation from biological matrices and fluids). Distillation with water steam.
  4. The extraction with organic solvents. Liquid-liquid microextraction (using solvent drop). Theoretical basics. Factors affecting the extraction efficiency.
  5. Alkaloid reactions with the basic alkaloids reagents, alkaloids color tests, pharmacological tests. Alkaloids of xanthine, pyridine, tropane group.
  6. Use trends of psychoactive substances (new psychotropic substances and hallucinogens, founded in plants), their exclusion from the study objects opportunities, qualitative and quantitative research
  7. Microelements, their importance to the body. Protein binding. Mineralization. Cleaning of mineralizates. Non-toxic metals overdose and toxicity.
  8. Agricultural use of specific toxic chemicals (pesticides), their classification, isolation, identification, determination. intoxication clinic, detoxication. Biopesticides.
  9. Biologically active substances excreted from the bodies. Nonspecific detoxification procedures.
 
 
 
 
 
 

Understanding of the significance of biotransformation of biologically active foreign to organisms substances as a determinant of the toxicokinetic and toxicodynamic activities of chemicals.

 

  1. Absorption, distribution and elimination of the biological active substances. Transport mechanisms.
  2. The metabolism of biologically active, foreign to organism (xenobiotics), substances. Phases of Biotransformation.
  3. Phase I Biotransformation: oxidation, reduction, hydrolysis. Cytochrome P450 and other monooxigenases.
 
 

Understanding the basic mechanisms of metabolic regulation. To apply Metabolic Control Analyses methods for analysis and understanding of the response of multi-enzyme metabolic systems to various effectors.

 

  1. The evaluation of biological response of living system resulting from exposure to xenobiotics. Biomarkers.
  2. Targets of toxic substances action, toxic syndromes and antidotes.
  3. Toxicity from NSAIDs (paracetamol and acetaminophen and intermediate metabolites).
 
 

Study (teaching and learning) methods

Lectures, consulting, literature analysis; studying of lecture and practical work material; practical problem solution; individual student's work: information search in the literature and information analysis. During laboratory works students learn the principal research methods in Biochemistry.

Methods of learning achievement assessment

Written tests, performance of practical tasks and works.

Distribution of workload for students (contact and independent work hours)

Lectures

45 hours

Laboratory work

15 hours

Individual students work

93 hours

Mid-term and final examination

7 hours

Total:

160

Structure of cumulative score and value of its constituent parts

Final assessment sums the assessments of written final examination (50%), written mid-term examination (25%) and assessment of laboratory works (25%).

Recommended reference materials

No.

 

Publication year

Authors of publication and title

Publishing house

Number of copies in

University library

Self-study rooms

Other libraries 

Basic materials

1.

2008

Vainauskas P., Kazlauskienė D. Toksikologinė chemija (I ir II dalys)

KMU leidykla, Kaunas

 

1

 

2.

2010

Bernard Testa, Stefanie D. Krämer C.M. Biochemistry of Drug Metabolism: Two Volume Set.

Wiley- VCH

1

 

 

3

1998

Mickevičius D. Cheminės analizės metodai (I ir II dalys)

Žiburio leidykla, Vilnius

20

 

 

 

2002

Kajokas T.V., Šurkus J., Stonys A., ir kt. Klinikinė toksikologija

Naujasis lankas

 

1

 

Supplementary materials

1.

2010

Thomas M. Devlin Textbook of Biochemistry with Clinical Correlations, 7th Edition

Drexel University School of Medicine

 

2.

2004

Moffat A.C., Osselton M.D., Widdop B. Clarke’s Analysis of Drugs and Poisons. Vol 1 and 2

Pharmaceutical Press

 

Course programme designed by

Assoc prof. Zita Naučienė, Prof. Ona Ragažinskienė

Additional information