529225 Laboratory Course on Plant Genomics, 3 ECTS credits

1

Updated 2.12.2010

Curriculum 2010-2011

Master’s Degree Programme in Biotechnology (MBIOT)

The Master’s Degree Programme in Biotechnology (MBIOT) aims to provide students with the knowledge and skills they need for modern biotechnology research and employment in the industry. Topics of instruction range from the latest developments in recombinant DNA technology to non-technical issues such as business and bioethics. Studies are based on a personal study plan. You may choose your studies from a wide range of course options, from molecular biology to systems biology. Teaching is mainly arranged in English.

MBIOT offers five specialisation tracks under the major subject Biotechnology:

1) Bioinformatics and Systems Biology

2) Biotechnology of Natural Resources, incl. Microbial and Environmental Biotechnology (2a) and Plant and Forest Biotechnology (2b)

3) Cellular Biotechnology (3a), Developmental Biology (3b) and Structural Biology (3c)

4) Food Biotechnology (4a) and Health Biotechnology (4b)

5) Neuroscience

MBIOT consists of general studies (8-12 ECTS credits), compulsory major subject studies (51-53 ECTS credits, including

Master’s Thesis 40 ECTS credits), elective major subject studies related to the chosen specialisation track (30-47 ECTS credits), and elective (free-choice) studies (8-31 ECTS credits). The estimated duration of studies is two years.

More information: http://www.helsinki.fi/biotech/structure/content.html

, http://www.helsinki.fi/biotech/news/courses.html

In addition to the Master’s degree studies, all the MBIOT students have to complete the 529210/882501 Compulsory

Supplementary Study Unit, 8 ECTS credits (equals to the HEBIOT compulsory B.Sc. final literature examination).

Degree Requirements and Recommendations 2010-2011

MASTER’S DEGREE, 120 ECTS credits

ECTS Year / period I-IV

__ ____________________________________________________________________________



GENERAL STUDIES, 8-12 ECTS credits xxxxx Business Economics* 4-8 1

529208

529242

RECOMMENDED:

510010 Principles of Business 4

Bioethics 3

Personal Study Plan 1

1 / I

1 / IV

1 / I

* Various other business economics courses are offered by the faculties (e.g. at the Faculty of Biological and Environmental Sciences: 51044 Biobusiness,

3 ECTS credits) or Aalto University School of Economics (as JOO-studies).



MAJOR SUBJECT STUDIES

COMPULSORY STUDIES, 51-53 ECTS credits

529230/882503 Final Examination in M.Sc. degree

529250/882504 Master´s Thesis and Maturity Essay

8-10

40

2

2

529249

Advanced Seminar in Biotechnology 3 2 / III-IV

ELECTIVE STUDIES ACCORDING TO THE SPECIALISATION TRACK, 30-47 ECTS credits

At least 20 ECTS credits from the following practical study units:

529260/882505 Practical Training

and/or max 10

529212/882560 Advanced Training in a Research Group, I and II

10 + 10 and/or xxxxxx Laboratory/practical courses offered by the faculties and institutes (see the recommendations below)

At least 10 ECTS credits from other elective courses

1-2 (or summer)

1-2

1-2

1-2

(see the recommendations below)



ELECTIVE (FREE-CHOICE) STUDIES, 8-31 ECTS credits (see the recommendations below)

993734

Academic Writing I 2 1 / I

993735

Academic Writing II 2 2 / IV

2

Abbreviations:

B = Faculty of Biological and Environmental Sciences

AF

BI

= Faculty of Agriculture and Forestry

= Institute of Biotechnology

NC

MBI

MENVI

= Neuroscience Center

= Master’s Degree Programme in Bioinformatics

TRANSMED = Master’s Degree Programme in Translational Medicine

MScPPS = Master’s Degree Programme in Plant Production Science

MScFood = Master’s Degree Programme in Food Sciences

= Master’s Degree Programme in Environment and Natural Resources

- = No quota (a lecture course or a research group training)

(-) = No quota, but the student number is limited (a laboratory course or an exercise group), that is, if the course is full, the

selection of students for the course is based on their previous studies

2 = Minimum quota of two MBIOT students is guaranteed e = The course is given in English f = The course is given in Finnish f or e = The course is given in Finnish unless otherwise required (in English) f + e = The course is given in a bilingual fashion (in Finnish and in English) f or le = The course is given in Finnish , but can be taken as a literature examination in English

MBIOT reserves the right to change the course information when new updating is announced in relation to the courses listed here. Please note that the latest information about the courses is found in Weboodi.

You can browse WebOodi without logging into the system, but you need to log in when you want to register for courses.

Please note that most of the courses have prerequisites for successful completion of the course.

Please note that some courses (especially practical courses and laboratory courses) can only take a limited number of students and students from other major subjects or master’s programmes may have the priority.

-------------------------------------------------------------------------------------------------------------------------------------------

ECTS credits

Period Quota for

MBIOT students

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TRACK 1: BIOINFORMATICS AND SYSTEMS BIOLOGY

More information: Liisa Holm (B, BI), liisa.holm@helsinki.fi or Teemu Teeri (AF), teemu.teeri@helsinki.fi

Primarily recommended elective courses:

52912 (B)

52939 (B)

Genomes (e)

From Genomes to Gene Function (e)

529016 (B)

529224 (BI)

High Throughput Genetic Mapping in Plants (e)

Advanced Course in Bioinformatics and

Systems Biology (e)

529225 (B, BI) Laboratory Course on Plant Genomics (e)

3

6

5

10

3

3996714 (B)

Practical Bioinformatics: Module IV: Gene Mapping(e)2

Other recommended elective courses:

529014 (B)

Epigenetics (e) 3

IV

IV

II

-

(-)

(-)

I-IV -

IV (in even years) (-)

I (-)

52930 (B)

52931 (B)

529232 (BI)

529231 (BI)

Protein Analysis (f or e)

Exercises in Protein Analysis (f or e) mRNA Processing in Eukaryotes (e)

Analytical Protein Chemistry (e)

3

5

3

1

III

III or IV

II

III

II

(in even years)

(in even years)

-

-

(-)

-

-

81037 (AF)

81576 (AF)

Molecular Methods in Applied Plant Genetics (e) 5

Molec. Genetic Markers in Animal Breeding (f or e) 5

I (in even years)

III (in uneven years)

-

(-)

+ Other relevant courses on bioinformatics and systems biology topics from the MBI Master’s Degree Programme in Kumpula

Campus. MBI courses in autumn 2010: http://www.cs.helsinki.fi/en/mbi/autumn-2010 ; MBI courses in spring 2011: http://www.cs.helsinki.fi/en/mbi/spring-2011 . Please note that most of the MBI courses have prerequisites for successful completion of the course.

------------------------------------------------------------------------------------------------------------------------------------------

ECTS credits


MBIOT students

-------------------------------------------------------------------------------------------------------------------------------------------

TRACK 2: BIOTECHNOLOGY OF NATURAL RESOURCES

TRACK 2a) Microbial and Environmental Biotechnology

More information: Hannu Saarilahti (B), hannu.saarilahti@helsinki.fi, Annele Hatakka (AF), annele.hatakka@helsinki.fi


52751 (B)

528012 (B)

Molecular Genetics Lab Course (e+f) 6

Laboratory Course in Virology and Bioinf. (f or e) 6

I

I

(-)

(-)

864062 (AF)

81357 (AF)

81356 (AF)

81331 (AF)

81352 (AF)

830113 (AF)

850030 (AF)

Biotechnology of Fungi and Renewable

Natural Materials (f or e)

Plant Pathogenic Bacteria (e)

Plant Virology (e)

5

5

5

Epidemiology and Ecol. of Plant Pathogens (e) 5

Plant-Microbe Interac. and Mol. Defence of Plants (e)10

Forest Microbiology (e)

Biofuels (f or e)

8

5

IV -

II (in uneven years) (-)

II (in even years) (-)

I

III

II -

I in uneven years) -

-

(-)

850029 (AF)

864050 (AF)

Biorefineries (f or e)

Forest Microbiology and Biotechnology (e)

5

5

IV -

I (every third year) (-)


52912 (B)

52936 (B)

Genomes (e)

Gene Regulation in Eukaryotes (e)

3

3

IV

IV

-

-

52939 (B)

From Genomes to Gene Function (e) 6 IV (-)

+ Other relevant courses microbial and environmental biotechnology topics from the MENVI Master’s Degree Programme in

Viikki. Please note that most of the MENVI courses have prerequisites for successful completion of the course.

TRACK 2b) Plant and Forest Genomics and Biotechnology

More information: Tapio Palva (B), tapio.palva@helsinki.fi, Teemu Teeri (AF), teemu.teeri@helsinki.fi


52912 (B)

Genomes (e) 3 IV

52936 (B)

52939 (B)

52751 (B)

529016 (B)



Molecular Genetics Lab Course (e+f)

High Throughput Genetic Mapping in Plants (e)

529225 (B, BI) Laboratory Course on Plant Genomics (e)

52728 (B, AF)

Plant Biotechnology and Molecular Biology (e)

5

5

52518 (B, AF) Laboratory Course in Plant Biotechnology (e)

81037 (AF)

Molecular Methods in Applied Plant Genetics (e)

5

5

3

6

6

5

IV

IV

I

II

-

-

(-)

(-)

(-)


III -

III-IV 2+2

I (in even years) -

III (in even years) 2

I -

II -

812010 (AF)

830114 (AF)

81406 (AF)

Laboratory Course in Plant Molecular Biology (e) 5

Basic Biotechnology in Forestry (e) 5

Advanced Forest Mycology & Pathology (e) 10


529014 (B)

52986 (B)

Epigenetics (e)

Innate Immunity of Plants (e)

52512 (B)

Advanced Course on Plant Physiology and

3

2

52747

81039

81041

81045

(B)

(AF)

(AF)

(AF)

Molecular Biology (e)

Advanced Course in Plant Genomics and

7

Molecular Biology (e) 9

Selection Breeding and Experimental Designs (e) 5

Conservation of Plant Genetic Resources (e) 5

Breeding of Agricultural and Horticultural

Crop Plants (e) 5

III -

IV ( in uneven years) (-)

I (-)

I-IV (-)

III (in even years) -

IV (in even years) -

I (in uneven years) -

3

4

81100 (AF)

81352 (AF)

81357 (AF)

Forest Tree Breeding (e)

Plant-Microbe Interac. and Mol. Defence of Plants (e)10

Plant Pathogenic Bacteria (e)

5

5

II (in even years) -

III (-)

II (in uneven years) (-)

81356 (AF)

Plant Virology (e) 5 II (in even years) (-)

+ Other relevant courses on plant and forest biotechnology topics from the MScPPS Master’s Degree Programme in Viikki

Campus. MScPPS courses in 2010-2011 . Please note that most of the MScPPS courses have prerequisites for successful completion of the course.

------------------------------------------------------------------------------------------------------------------------------------------

ECTS credits


MBIOT students

-------------------------------------------------------------------------------------------------------------------------------------------

TRACK 3: CELLULAR BIOTECHNOLOGY AND DEVELOPMENTAL AND STRUCTURAL

BIOLOGY

TRACK 3a) Cellular Biotechnology

More information: Pekka Lappalainen (BI), pekka.lappalainen@helsinki.fi, Jussi Jäntti (BI), jussi.jantti@helsinki.fi


529232 (BI)

mRNA Processing in Eukaryotes (e)

529235 (BI)

529237 (BI)

529222 (BI)

51083 (B)

510023 (B)

Growth Factors and Their Receptors (e)

Stem Cells and Organogenesis (e)

Advanced Course in Cellular Biotechnology (e)

Receptors and Signals (e)

Origin of Biodiversity (e)

3

3

3

10

3

3

51114

51070

52936

(B)

(B)

(B)

Membrane Biochemistry (e)

Advanced Molecular Biology (e)


52751 (B)

Molecular Genetics Lab Course (e+f)


52912 (B)

Genomes (e)

52939 (B)

529013 (B)

6

3

From Genomes to Gene Function (e) 6

Methods in Functional Genetics and Development (e)6

3

4 (2+2)

3

III

III

IV

I


IV (in uneven years) -

I -

I-IV

II

III -

-

-

-

-

-

(-)

IV

IV

IV

-

(-)

(-)

TRACK 3b) Developmental Biology

More information: Juha Partanen (B, BI), juha.m.partanen@helsinki.fi, Tapio Heino (B, BI), tapio.heino@helsinki.fi


529232 (BI)

529237

529268

(BI)

(BI)



3

3

Advanced Course in Developmental Biology (e) 10

529013 (B)

Methods in Functional Genetics and Development (e)6

3

6


I -

I-IV

IV

-

(-)

IV

IV

-

(-)

52912 (B)

52939 (B)

Genomes (e)



529235 (BI)


529225

(BI) Laboratory Course on Plant Genomics (e)

52936 (B)


3

6

3



IV -

TRACK 3c) Structural Biology

More information: Dennis Bamford (BI, B), dennis.bamford@helsinki.fi, Sarah Butcher (BI, B), sarah.butcher@helsinki.fi


529236 (BI)

Introduction to Structural Biology and Biophysics(e) 4-5 I (in uneven years) -

I (in even years) (-)

529266

529267

529223

(BI)

(BI)

(BI)

52939 (B)

Short Lab Course on Structural Biol. and Biophys.(e) 1+4

Lecture and Exercise Course on Electron Microscopy and Image Reconstruction (e)

Advanced Course in Structural Biology and

3

Biophysics (e)


10

2

Laboratory Course in Virology and Bioinf. (f or e) 6

529231 (BI)

528012 (B)


529232 (BI)

52912 (B)

52936 (B)


Genomes (e)



3

3

3

6


I-IV -


I (-)


IV -

IV -

IV (-)

ECTS credits


MBIOT students

-------------------------------------------------------------------------------------------------------------------------------------------

TRACK 4: FOOD BIOTECHNOLOGY AND HEALTH BIOTECHNOLOGY

TRACK 4a) Food Biotechnology

More information: Tapani Alatossava (AF), tapani.alatossava@helsinki.fi


864065 (AF)

87145 (AF)

Food Microbiology (f or le)

Vitamins and Other Bioactive Compounds (e)

871074 (AF)

871072 (AF)

Food Legislation and Control (e)

Chemical Risk Factors (e)

871073 (AF)

Basic Toxicology and Risk Assessment (e)

8720024 (AF)

Potential Novel Processing Technologies (e)

8720091 (AF)

Fermentation Technology (e)

8720092 (AF)

LAB Starters (e)

8720094 (AF)

Dairy Bioprocessing (e)

8720051 (AF)

Dairy Technology 6 (e)

87295 (AF)

529231 (BI)

ABS Course on Functional Foods (e)


5

5

3

3

5

5

5

5

6

1-9

3-5

2

I-IV -

IV (in even years) -

I-II

II

-

-

?

III

IV

II

-

-

-

(-)

I-IV

I-IV

(-)

-




81037 (AF)

Molecular Methods in Applied Plant Genetics (e) 5

871066 (AF)

871070 (AF)

Basic Studies in Food Science (f)

Functional Foods Minor Subject (f)

25

25

I (in even years) -

I-IV -

I-IV -

+ Other relevant courses on food biotechnology topics from the MsFood Master’s Degree Programme in Viikki Campus.

Please note that most of the MScFood courses have prerequisites for successful completion of the course.

TRACK 4b) Health Biotechnology

More information: Hannu Saarilahti (B), hannu.saarilahti@helsinki.fi


52936 (B)


52714 (B)

529235 (BI)

Human Genetics (e)


529237 (BI)


3

3

3

3

IV

I


-

-

I -

5

529013 (BI)

Methods in Functional Genetics and Development(e)6 IV (-)

+ Other relevant courses on health biotechnology topics from the TRANSMED Master’s Degree Programme , Biomedicum

Helsinki in Meilahti Campus. Please note that most of the TRANSMED courses have prerequisites for successful completion of the course. Here is a link to open-access courses for non-TRANSMED students: http://www.helsinki.fi/transmed/structure/opencontent.html


52751 (B)

529232 (BI)

Molecular Genetics Lab Course (e+f) mRNA Processing in Eukaryotes (e)

6

3

I

III (in even years)

(-)

-

+ Other relevant courses on health biotechnology topics from the

MNEURO Master’s Degree Programme

. MNEURO courses

2010-2011 . Please note that most of the MNEURO courses have prerequisites for successful completion of the course.

----------------------------------------------------------------------------------------------------------------------------- --------------

ECTS credits


MBIOT students

----------------------------------------------------------------------------------------------------------------------------- --------------

TRACK 5: NEUROSCIENCE

More information: Tomi Taira (NC, B), tomi.taira@helsinki.fi

Please find the list of courses given by the Neuroscience Center and the MNEURO Master’s Degree Programme here: http://www.helsinki.fi/neuro/courses/index.htm

. Please note that most of the MNEURO courses have prerequisites for successful completion of the course.

6

Study unit descriptions:

Compulsory study units for all MBIOT students

Academic year 2010-2011

AUTUMN TERM (period I and II)

529242

Personal Study Plan for the Master’s Degree, 1 ECTS credits

Time: Autumn term, period I + updating of the study plan as necessary (7.9.-16.9.2010, Tue,

Wed and Thu at 12-14)

Place: C-building, seminar room 130, except Thu 9.9. INFO-building, computer class 170 and

Wed 15.9. INFO-building, computer class 138

Preceding studies: Bachelor's degree or equivalent in biotechnology or in a related field

Objective: To devi se an individual plan for the Master’s degree studies to be completed and a timetable for their completion

Contents: Discussions and group work organised and supervised by the coordinator and the teachers, after which students will independently write their plans and return them to the coordinator

Study material and literature: MBIOT degree requirements, course descriptions, curriculum, other instructions

Completion: Participation in the study plan meetings, discussions with the coordinator and teachers, independent writing

Evaluation: A signed, written plan for the completion of studies. Grading scale: Pass/fail

Responsible person: MBIOT coordinator Viola Niklander-Teeri and HEBIOT coordinator Leila

Kauppinen

Other information: More information in the MBIOT and HEBIOT home pages http://www.helsinki.fi/biotech/news/courses.html

and in Moodle.

(Return to General Studies )

529210/882501 Compulsory Supplementary Study Unit (HEBIOT compulsory B.Sc. final literature examination), 8 ECTS credits

Time and place: Recommended to be completed during the first year’s autumn period I or II of the Master’s degree studies. Completion according to an advance agreement with the person responsible for this study unit on a General examination day for Biotechnology on the first

Tuesday of each month:

Autumn term 2010 at 12.00-16:

7.9. Biocenter 2, Aud. 1041




Registration via Weboodi at the latest on Monday a week before the examination

Objective: To brush up the student's basic knowledge of molecular biology and biotechnology within the whole broad field of biotechnology

Contents: Independent study, examination

Study material and literature: Molecular Biotechnology: Principles and Applications of

Recombinant DNA by Bernard R. Glick, Jack J. Pasternak, Cheryl L. Patten (4 th edition,

December 31, 2009), ASM Press; ISBN-10: 1555814980 ISBN-13: 978-1555814984

Completion: Literature examination.

Evaluation: Literature examination. Grading scale: 0-5

Responsible person: Professors in charge of MBIOT

(Return to Compulsory Supplementary Study Unit )

7

8

SPRING TERM (period III and IV)

529249 Advanced Studies Seminar in Biotechnology, 3 ECTS credits (1 ECTS credits of

ICT skills studies integrated)

Time: Spring term, periods III-IV (18.1.-22.2.2011, Tue at 14-16 and 5.4.-19.4.2011, Tue at 14-

16. Library lecture on 25.1.2011, Tue at 12-15). Recommended to be completed during or after the experimental phase of the Master’s thesis

Place: Biocenter 2, lecture room 2012 (18.1.-22.2.2011) and Biocenter 2, lecture room 1015

(5.4.-19.4.2011). INFO Computer Class 138 (25.1.2011)

Preceding studies: Bachelor's degree or equivalent in biotechnology or in a related field and completion of most of the Master's degree studies

Objective: The seminar introduces students to the writing and presentation techniques of written and oral presentations based on experimental research. Students will prepare seminar presentations on the topic of their own Master’s thesis, covering the background, objectives, methodology and the most important findings, and will discuss the topic in a manner similar to a presentation at a scientific conference, taking into account, however, the audience's level of expertise. Furthermore, students will practice giving and receiving feedback by acting as opponents to their fellow students’ presentations and by actively engaging in discussion.

Contents: Students will prepare a one-page summary of their research topic in English and a

20-minute oral presentation making use of the ICT equipment available. They will also act as opponents to their fellow students and engage in discussions in the seminar. Attendance in the seminar is compulsory.

Study material and literature:

Source material for the student’s research, written presentations produced for the seminar

Completion: Participation in the seminar, written and oral presentation, acting as an opponent

Evaluation: Written and oral communication, active participation in the seminar. Grading scale:

Pass/fail

Responsible person: Prof. Sarah Butcher, Institute of Biotechnology and Faculty of Biological and Environmental Sciences

Relations to other study units: Substitutive completions: participation in the advanced seminar series related to biotechnology organized by genetics, biochemistry or microbiology major subjects at the Faculty of the Biosciences or by the five departments in charge of

HEBIOT/MBIOT at the Faculty of Agriculture and Forestry

Other information: More information in the MBIOT and HEBIOT home pages http://www.helsinki.fi/biotech/news/courses.html

and in Moodle.

(Return to Major Subject Studies )

529208/812092 Bioethics, 3 ECTS credits

Time: Spring term, period IV (28.3.-12.5.2011, Mon, Tue and Wed at 16-18 (no lectures on weeks 16 and 17)

Place: INFO2

Target group: MBIOT, HEBIOT, MScPPS, MScFood and MENVI Master's students

Preceding studies: Bachelor's degree or equivalent in life sciences

Objective: The aim is to familiarise students with ELSA (Ethical, Legal and Social Aspects) in biological sciences

Contents: The course is composed of lectures, documentary film sessions, a panel discussion and students' presentations and divided by a two weeks' period when students prepare case study presentations on ELSA of chosen topics in small groups. The course will provide following themes: Introduction to ethical principles in science and the role of science in society (and society in science); Good scientific practices, misconduct of research and plagiarism; Science information services, public perception; ELSA in bioresearch and applications; ELSA in food

9 production and food security, in agricultural practices, in environmental matters and in current issues in developing countries (climate change, biodiversity, bio-energy and patenting issues)

Study materials and literature: Material will be provided during the course

Completion: Lectures, films and a panel discussion; Group work (preparation and presentation of the case studies); Independent study (report)

Evaluation: Attendance at lectures; Active contribution to the panel discussion; Active contribution to the preparation and presentation of the case study; Report. Scale: Pass/fail

Responsible persons: MBIOT, HEBIOT, MScPPS, MScFood and MENVI coordinators

Other information: The number of students is limited to 80. Priority is given to MBIOT,

MScPPS, MScFood and MENVI Master's Degree Programme students and HEBIOT Master's level students. Registration codes: 529208 (MBIOT, HEBIOT) and 812092 (MScPPS,

MScFood, MENVI). More information in the MBIOT and HEBIOT home pages

( http://www.helsinki.fi/biotech/news/courses.html

) and in Moodle.

Please also note a parallel course for Health Biotechnology students: Research Ethics for

Health Scientists, 2 ECTS, on 16.3.-20.4.2011, Wed at 15-17 in Meilahti Campus.


AUTUMN OR SPRING TERM

529260/882505 Practical Trainin g (for the Master’s Degree), max 10 ECTS credits

Time: Recommended to be completed during the first or second year, but before the

Master’s thesis.

Completion according to an advance agreement with a MBIOT professor in charge for this study unit


Objective: To acquire practical experience in a company, research institute or government agency operating in the field of biotechnology

Contents: As agreed

Study material and literature: Material related to the training

Completion: Placement in biotechnological research or applications in a company or research institute. The practical training is to be agreed upon in advance with a MBIOT professor in charge for this study unit. Duration: 3 months of full-time work will yield 10 ECTS credits

Evaluation: Practical training report and a letter of reference. Grading scale: Pass/fail



529212/882460 Advanced Laboratory Training in a Research Group (I and II), 10 + 10

ECTS credits

Time: Recommended to be completed during the first or second ye ar, but before the Master’s thesis. Completion according to an advance agreement with a MBIOT professor in charge for this study unit


Objective: To engage students in scientific thinking through small-scale projects and to develop their ability for independent work and the reporting of results. This course can be completed in two separate sections and preferably in two different research groups.

Contents: Laboratory training in a research group or equivalent group operating in a company or research institute. The training is to be agreed upon in advance with a MBIOT professor in charge for this study unit.

Study material and literature: Scientific literature related to the training

Completion: The MBIOT professor in charge for this study unit and the director of the relevant research group will approve in advance the student’s research proposal (1-2 pages), which must indicate the scientific problems, methodology to be applied and include supervision arrangements related to the training. An approved laboratory note book and a written report in

10 article form (see the instructions below) are also required, as is successful completion of an oral or written examination. Duration: 7 weeks of full-time work will yield 10 ECTS credits

Evaluation: The evaluation will be agreed upon with a MBIOT professor in charge for this study unit before the beginning of the placement period. The evaluation includes A) the research proposal, the laboratory work in practice, the laboratory note book, B) a written report, and C) a written or oral exam. The more detailed instructions for evaluation and the evaluation form (filled by the supervisor) can be found in this link: http://www.helsinki.fi/biotech/news/advancedtrainiggradingform.doc

. Grading scale: 0-5,

(A+B+C) / 3



529230/882503 Final Examination for the Master's Degree, 8-10 ECTS credits

Time and place: Recommended to be completed during the second year of the Ma ster’s degree studies. Completion according to an advance agreement with the person responsible for this study unit on a General examination day for Biotechnology on the first Tuesday of each month:

Autumn term 2010 at 12.00-16:





Spring term 2011 at 12.00-16:

11.1. Biocenter 2, Aud.1041





Summer term 2011 at 10.00-14:

1.6.

Biocenter 2, Aud.1041

3.8.

Biocenter 2, Aud.1041

Registration via Weboodi at the latest on Monday a week before the examination (Note: registration to the summer examinations by the end of May)


Objective: To deepen the student's knowledge of molecular biology and biotechnology within the chosen specialisation track

Contents: Independent study, examination

Study material and literature: Scientific literature according to the chosen specialisation track

Completion: Literature examination. 100-150 pages will yield 1 ECTS credit

Evaluation: Literature examination. Grading scale: 0-5


Other information: Some of the relevant literature for the final examination is listed in the

HEBIOT and MBIOT home pages http://www.helsinki.fi/biotech/news/finalexamliteraturelist.pdf


529250/882504 Master’s Thesis, 40 ECTS credits

Time: Recommended to be completed during the second year of the Master’s degree studies after advanced laboratory training and laboratory courses. Completion according to an advance agreement with the person responsible for this study unit.


11

Objective: The Master’s thesis must demonstrate the student’s ability to think scientifically, mastery of the necessary research methods, familiarity with the research topic and competence required for scientific communication in the field. The thesis work can be completed independently or, alternatively, by participating in group work or in a wider research project, provided that the student’s independent input can be verified and assessed. Each student must write the thesis independently.

Contents: See the instructions of your faculty or major subject

Study material and literature: Scientific literature according to the chosen research topic

Completion: See the instructions of your faculty

Evaluation: Verbal assessment on the Latin scale laudatur

– approbatur (improbatur)


Other information: More information in the HEBIOT and MBIOT home pages: http://www.helsinki.fi/biotech/news/instructionsforms.html


12



Alternative study units for MBIOT students organized by the Language Center


993734 Academic Writing 1 for Students in EnglishMedium Master’s Degree

Programmes, 2 ECTS credits (Group 4)

Time: Autumn term, period I (10.9.-22.10.2010, Fri at 9-12)

Place: A-building, seminar room 152.2

Preceding studies: BSc level assumed

Objective: The aim of this course is for students to achieve a high level of academic English required for completing study-related academic texts (e.g. theses, reports, essays, academic articles)

Contents: This course is intended for students who are currently writing seminar essays, reports, thesis and articles as part of their studies. The course consists of: 1. class input sessions focusing on diverse topics such as the structure of texts, sequence and cohesion, mechanical problems and avoiding plagiarism; and 2. independent writing assignments related to each student's studies. Knowledge of the mechanics of writing in English is given as well as instruction on how to write and lots of hands-on practice of writing. Students who complete this course have the option to continue with a follow-up course.

Study material and literature: Teacher's and students' own material

Completion: Lectures and independent writing assignment

Evaluation: Continuous assessment based on contact teaching (24 hrs) and independent work.

Grading scale: Pass/fail

Responsible persons: Roy Siddall (Language Center)

(Return to FREE-CHOISE STUDIES )


993735 Academic Writing 2 for Students in English-

Medium Master’s Degree

Programmes, 2 ECTS credits (Group 3)

Time: Autumn term, period IV (18.3.2011, 8.4.2011 and 6.5.2011, Fri at 10-14)

Place: B-building, seminar room 13 (18.3.2011, 8.4.2011) and computer room X (6.5.2011)

Preceding studies: BSc level assumed

Objective: The aim is to improve the s tudent’s academic writing skills and provide consultation, feedback and language support for writing a high quality thesis in English. The focus is on editing draft versions of the thesis based on the feedback received during the consultation sessions. Poster writing and oral presentation of research are also covered.

Contents: This course is intended as a follow up to the first Academic Writing course, especially for students who are beginning to work on their Master’s thesis. The course consists of: 1. three class input sessions that review the key points in academic writing, provide a practical introduction to the writing of scientific posters and allow students to practice the oral presentation of their own research; and 2. individual consultation sessions (two per student) based on draft versions of the Master’s thesis or written course assignments

Study material and literature: S tudents’ own material (draft versions of the chapters and sections of the thesis

Completion: Lectures, independent writing and individual consultation sessions

Evaluation: Continuous assessment based on writing assignments, editing and active participation in consultation sessions. Grading scale: Pass/fail

Responsible persons:

Kari Pitkänen(Language Center)

(Return to FREE-CHOISE STUDIES )

13



Alternative study units for MBIOT students organized by the Institute of Biotechnology

(BI)


529237 Stem Cells and Organogenesis, 3 ECTS credits

Time: Autumn term, period I (13.9. - 21.10.2010, Mon and Tue at 10-12, Exam Mon 19.10.2010 at 10-12)

Place: Biocenter 2, lecture room 2063

Preceding studies: Preferentially 910050 From Cell to Organism – Developmental Biology

Objective : The objective of this lecture series is to give the students a thorough view of the development of different organs, similarities in development and the special features of each organ. It also aims to describe the different tissue-specific stem cells and their contribution to stem cell based therapies. A crucial part is to understand how different genes guide organogenesis

Contents : Based on books “Kehitysbiologia, Solusta yksilöksi” in Finnish and “Developmental biology” by Scott Gilbert in English

Completion: Lecture course

Study materials and literature: Developmental biology (Scott Gilbert) and lecture copies

Evaluation: Examination. Grading scale: 0-5

Responsible person: Doc. Ulla Pirvola

(Return to Track 3a, 3b, or 4b)

529236 Introduction to Structural Biology and Biophysics, 5 ECTS credits

Time: Autumn term, period I, in uneven years (next time in autumn 2011)

Place:

Objective: Our goal is that, by the end of the course, the student will have a basic understanding of all of the techniques of modern structural biology and biophysics, so that he or she can then both read the relevant scientific literature critically and also understand laboratory work in the field.

Contents: The course introduces all the key structural biology and biophysical techniques at a level designed for beginning Master's students. Specific techniques discussed are X-ray crystallography, electron microscopy, nuclear magnetic resonance, and mass spectrometry.

Self-evaluation questions for assumed background knowledge in mathematics and biology will be available on registration.

Study material and literature: Material provided on the course, Whitford, Proteins structure and function, Serdyuk Zaccai & Zacchai, Methods in molecular biophysics Petsko & Ringe,

Protein Structure and Function

Completion: Lectures, demonstrations, tutorials, group work and self-study

Evaluation: Presentation during class, exercises, examination (week 44). Grading scale: 0-5

Responsible person: Prof. Sarah Butcher

Relations to other study units: This course is a prerequisite for 529223 Advanced Course in

Structural Biology and Biophysics, 10 ECTS

(Return to Track 3c)

529266 Short Lab Course on Structural Biology and Biophysics, 1 + 4 ECTS credits

Time: Autumn term, period I, in even years (27.9-15.2010, Mon-Fri at 9-18)

Place: Lectures at 9-11:00 BIO1 seminar room 3108. Practical sessions at 11-18:00 in the BI labs

14

Target group: Designed for MSc students and PhD students

Objective: Our goal is that, by the end of the course, the student will have a basic understanding of all of the techniques of modern structural biology and biophysics, so that he or she can then both read the relevant scientific literature critically and also understand laboratory work in the field.

Contents: The course introduces all the key structural biology and biophysical techniques.

Topics covered include the basic mathematics behind the techniques, including Fourier

Transforms and symmetry, wave properties as applied to electromagnetic radiation, energy levels and the interaction of radiation with matter. There is also a discussion of macromolecules, macromolecular assemblies and their properties in biology. Specific techniques discussed and carried out in the practicals are X-ray crystallography, electron microscopy, nuclear magnetic resonance, kinetics

Study material and literature: Material provided on the course, Whitford, Proteins structure and function, Serdyuk Zaccai & Zacchai, Methods in molecular biophysics Petsko & Ringe,

Protein Structure and Function

Completion: Lectures (at 8-10), background reading and practicals (at 10-16) 5 times a week for two weeks. First week full time lectures and essay (1 ECTS, max. 30 participants), weeks 2

& 3 daily methods lectures (at 8-10) followed by labwork, groupwork and presentation (at 10-18)

(4 ECTS, max. 12 participants).

Evaluation: Essay, presentation during class, lab reports. Grading scale: 0-5


Relations to other study units: This course is a prerequisite for 529223 Advanced Course in

Structural Biology and Biophysics, 10 ECTS

Other information: Dead-line for registration 10 th September in even years.


529267 Lecture and Exercise Course on Electron Microscopy and Image Reconstruction,

3 ECTS credits

Time: Autumn term, period II, in even years (1.11-19.11.2010, Mon, Wed and Fri at 9-12)

Place: INFO computer classroom 170

Target group: Designed for MSc and PhD students specializing in structural biology

Preceding studies: Prerequisite course: 529236 or Short laboratory course on structural biology (529266) or book exam.

Objective: Our goal is that, by the end of the course, the student will have a basic understanding of electron microscopy and image processing

Contents: The course goes into detail about high resolution electron microscopy, data collection and processing. Topics covered include the basic mathematics behind the techniques, including Fourier Transforms and symmetry, wave properties as applied to electromagnetic radiation.

Study material and literature: Material provided on the course

Completion: Lectures (30 hours), 1 x4 hour EM demonstration, 5 x 4 hour image processing exercises.

Evaluation: Presentation during class, exercise reports. Grading scale: 0-5


Other information: Enrolment on the course by 30 th October in even years . Max 12 participants


529231 Analytical Protein Chemistry, 2 ECTS credits

Time: Autumn term, period II, in even years (29.11.-3.12.2010, Mon-Fri at 10-12. Exam on Mon

13.12.2010 at 10-12)

Place:

Preceding studies: Basic knowledge in protein biochemistry and chemistry

15

Objective : The objective of the course is to introduce the students to some of the central methods in analytical protein chemistry

Contents: The course will deal with the use of electrophoretic, chromatographic and mass spectrometric methods in protein and peptide purification and analysis. Chromatographic methods (gel permeation-, ion exchange- and reversed phase chromatography), electrophoretic methods (1D- and 2D-PAGE), protein and peptide sequencing (Edman and MS), mass spectrometry (MALDI-TOF/TOF and ESI-MS/MS), bioinformatics

Study material and literature: Will be provided during the lectures



Responsible person: Doc. Nisse Kalkkinen

(Return to Track 1, 3c, or 4a)


529232 mRNA Processing in Eukaryotes, 3 ECTC credits

Time: Spring term, period III, in even years (next time in spring 2012)

Preceding studies: Basic understanding of eukaryotic gene expression (transcription, translation etc), and cellular and molecular biology

Objective: The objective of this lecture series is to give the students a thorough view of the mechanisms and regulation of mRNA processing in eukaryotic cells

Contents: This advanced lecture series will concentrate on the mechanisms and regulation of mRNA processing in eukaryotic cells. The main focus is on the molecular machines involved in mRNA processing (such pre-mRNA splicing, polyadenylation, capping and editing). Further topics are mechanisms and regulation of alternative pre-mRNA splicing, mechanisms and regulations of alternative polyadenylation, mRNA quality control (esp. nonsense mediated decay), translation and translational control, regulation of gene expression by small RNAs and the coupling of mRNA processing with other processes along gene expression pathway

Study material and literature: Will be provided during the lectures



Responsible person: Doc. Mikko Frilander

(Return to Track 1, 3a, 3b, 3c, or 4b)

529235 Growth Factors and their Receptors, 3 ECTS credits

Time: Spring term, period IV, in uneven years (16.3.-5.5.2011, Wed and Thu at 14-16 (no lectures on week 16)

Place: Biocenter 2, Auditorium 1041

Preceding studies: The course requires basic knowledge on genetics, biochemistry, and microbiology, and complements the course 910050 From Cell to Organism – Developmental

Biology.

Objective: The objective of this lecture series is to give the students a thorough view of the structure and function of the growth factors. It aims to describe the roles of growth factors in development and disease their use in biotechnology and biomedicine.

Contents: The lecture course will deal with the structure and function of growth factors, analysis of signaling pathways, roles of growth factors in development, pathology and diseases.

Growth factors functioning in different tissues and organs will be presented. Biotechnological and biomedical applications of growth factors will be discussed.

Study materials and literature: Will be provided during the lectures

Completion: Lectures, seminars


Responsible person: Prof. Mart Saarma

16

(Return to Track 3a, 3b, or 4b)

529013 Methods in Functional Genetics and Development , 6 ECTS credits

Time: Spring term, period IV (28.3.-15.4.2011, Mon-Fri at 9-16)

Place: Biocenter 1, course lab 1024

Preceding studies: Geenit ja yksilönkehitys (52937) or From cell to organism-Developmental

Biology (910050) recommended

Objective: To learn laboratory skills in modern developmental biology, to learn advantages of different research model organisms

Contents: Model organisms and models in functional genetics and developmental biology

(mouse, chicken, Drosophila, Caenorhabditis elegans, stem cell cultures). Methods to modify gene expression (transgenic animals, mutagenesis, tissue culture, tissue electroporation, viral vectors, RNAi). Methods to analyse gene expression in vivo (mRNA in situ hybridization, immunhistochemistry, reporter alleles).

Study materials and literature: Course manual

Completion: Laboratory course

Evaluation: Examination and report. Grading scale: 0-5

Responsible person: Prof. Juha Partanen

(Return to Track 3a , 3b

, or 4b )

529225 Laboratory Course on Plant Genomics, 3 ECTS credits

Time: Spring term, period IV, in even years (next time in spring 2012)

Place:

Preceding studies: Not recommended before finishing the mandatory laboratory courses and lectures

Objective: A lab course, in which a student will be introduced to modern methods in the structural and functional analyses of plant genomes

Contents: Laboratory work, minisymposium

Study materials and literature: Optional


Evaluation: Laboratory work in practice. Grading scale: 0-5

Responsible person: Prof. Ykä Helariutta

(Return to Track 1, 2b, or 3b)


529223 Advanced Course in Structural Biology and Biophysics, 10 ECTS credits

Time: At any time after an agreement with one of the group leaders of the Research Program in

Structural Biology and Biophysics at BI.

Preceding studies: Not recommended before finishing the mandatory laboratory courses and lectures. 529236 “Introduction to structural biology and biophysics” is a mandatory preceding course.

Objective: A 9 week period during which a student will be introduced to a genuine research project in a research group

Contents: Written research proposal, laboratory work on a project, written report in the form of a scientific paper

Study material and literature: Optional

Completion: Will be done in a laboratory of the Program in Structural Biology and Biophysics at the Institute of Biotechnology

Evaluation: A. Research proposal, laboratory work in practice, and note book B. Report C.

Exam (oral or written). Grading scale: 0-5, (A+B+C) / 3 The student must pass each module.


Other information: Please contact the group leader or the responsible person for further information

17


529222 Advanced Course in Cellular Biotechnology, 10 ECTS credits


Cellular Biotechnology at BI.

Preceding studies: Not recommended before finishing the mandatory laboratory courses and lectures. Introduction to virology


Contents: Written research proposal, laboratory work on a project, written report


Completion: Will be done in a laboratory of the Program in Cellular Biotechnology at the

Institute of Biotechnology


Exam (oral or written). Grading scale: 0-5, (A+B+C)/3 The student must pass each module.

Responsible person: Doc. Maria Vartiainen


(Return to Track 3a)

529268 Advanced Course in Developmental Biology, 10 ECTS credits


Developmental Biology in the BI.

Preceding studies : Not recommended before finishing the mandatory laboratory courses and lectures. “910050 From Cell to Organism – Developmental Biology” is a mandatory preceding course


Contents: Written research proposal, laboratory work on a project, written report in the form of a scientific paper

Study materials and literature: Optional

Completion: Will be done in a laboratory of the Program in Developmental biology at the

Institute of Biotechnology


Exam (oral or written). Grading scale: 0-5, (A+B+C)/3 The student must pass each module.

Responsible person: Osamu Shimmi

Other information: Please contact the responsible person for further information and to set up the agreement.

(Return to Track 3b )

529224 Advanced Course in Bioinformatics and Systems Biology, 10 ECTS credits

Time: At any time after an agreement with one of the group leaders of bioinformatics and systems biology at BI.



Contents: Written research proposal, laboratory work on a project, written report


Completion: Will be done in a laboratory of bioinformatics and systems biology at the Institute of Biotechnology

Evaluation: A. Research proposal, laboratory work and note book B. Report(s) C. Examination

(oral or written). Grading scale: 0-5, (A+B+C) / 3

Responsible person: Prof. Ykä Helariutta


(Return to Track 1)

18

19



Alternative study units for MBIOT students organized by the Faculty of Biological and

Environmental Sciences (B)


3996714 Practical Bioinformatics: Module IV - Gene Mapping, 2 ECTS credits

Time: Autumn term, period I (1.9.-28.9.2010)

Place: Biomedicum

Preceding studies:

Contents: This module is focused on providing students and researchers with practical computer skills needed in gene mapping. The topics that will be covered are study design and statistical power estimation, phenotype data - data integrity and statistical analysis, genotype data - data integrity and checking (Mendelian errors, Hardy-Weinberg equilibrium), linkage analysis of dichotomous and quantitative variables, Haplotype analysis and genetic association analyses incl. GWAs. The course consists of lectures and practicals.

Study materials and literature:

Completion: Lectures and practicals

Evaluation: Grading scale: 0-5

Responsible person: Univ. lecturer Päivi Onkamo

Other information: Due to limited space in computer class, the number of students if limited to

20. The applications need to be placed on 18th August at the latest. The info on acceptation is given at August 20th. Teachers: Markus Perola, Tero Hiekkalinna, Kati Kristiansson, Päivi

Onkamo Further information: paivi.onkamo(at)helsinki.fi


510010 Principles of Business, 4 ECTS credits

Time: Autumn term, period I (7.9.-30.9.2010

, Tue and Thu at 8.30-12. Exam on Tue 12.10 at 9-

11)

Place: Tue B7, Thu C2, exam in B7

Preceding studies: Non required

Contents: Introduction to marketing, management, accounting and business environment.

Lecturers are from the Aalto University School of Economics.

Evaluation: Examination.

Grading scale: 0-5

Responsible person: University Instructor Tanja-Maria Ranta in collaboration with

HEBIOT/MBIOT and Aalto University School of Economics.


52714 Human Genetics, 3 ECTS credits

Time: Autumn term, period I (7.9.-1.10.2010, Tue, Thu and Fri at 10-12, Exam 7.10.2010 at 10-

12, re-exam 4.11.2010 at 10-12)

Place: INFO 2

Contents: The lectures will cover the basic concepts of human genetics illustrated with examples of hereditary disorders and their molecular background. Special attention will be paid to cancer genetics, gene tests, gene therapy and ethical issues.

Study materials and literature: Lecture material



Grading scale: 0-5

Responsible person: Univ. lecturer Katarina Pelin

(Return to Track 4b)

20

52512 Advanced Course on Plant Physiology and Molecular Biology, 7 ECTS credits

Time: Autumn term, period I (7.9.-15.10.2010, Mon-Fri 9-16, first meeting on Tue 7.9.2010 at

13-16 in BIO3 6201)

Place: Biocenter 3, 6th floor laboratory

Preceding studies: Basics in plant anatomy and physiology

Objective: Learn how to use the latest techniques in plant molecular biology including gene expression analysis, mutant genotyping and protein characterization

Contents: Introductory lectures to the methods to be used. Small group (2-4 people) laboratory projects.

Study materials and literature: Articles and other publications on the methods used


Evaluation: Written lab reports and/or oral presentations of the results. Grading: pass/fail.

Responsible person: Univ. lecturer Mikael Brosche


52751 Molecular Genetics Laboratory Course, 6 ECTS credits

Time: Autumn term, periods I (11.10.-29.10.2010, Mon-Fri at 9-17)


Preceding studies: Basics in molecular genetics

Objective: Tavoitteena on pienimuotoisten projektien avulla harjaannuttaa opiskelijaa tieteelliseen ajatteluun sekä kehittää kykyä itsenäiseen työskentelyyn ja tulosten raportointiin.

Contents: Ajankohtaisia mikrobien ja kasvien tutkimuksen ongelmanasetteluja ja niihin liittyen sekä laboratoriotyöskentelyä että tietokantahakuja ja analyysejä.

Study materials and literature: Course manual and material provided during the course

Evaluation: Examination and lab report. Grading scale: 0-5

Responsible person: Univ. lecturer Pekka Heino

Other information: The course language is Finnish and English

(Return to Track 2a,

3a

or 4b)

528012 Laboratory Course in Virology and Bioinformatics, 6 ECTS credits

Time: Autumn term, period I (11.10.-5.11.2010, Mon-Fri at 9-17 (the laboratory part during

11.10.-29.10. and the bioinformatics part during 1.11.-5.11.)


Preceding studies: Basics of Biosciences I (529001), Introduction to Viruses (528006),

Methods in Microbiology and Microbial Genetics (529004), Gene technology (52729) and

Methods in Microbiology (52807) or corresponding knowledge

Objective and Contents: During the course we get acquainted with the basic techniques in molecular virology and bioinformatics using the well known bacteriophage PRD1 as an example.

Study materials and literature: Laboratory manual, other reading material given during the course

Completion: Laboratory exercises, laboratory reports, exercises in bioinformatics

Evaluation: Laboratory report. Grading scale: 0-5

Responsible persons: University lecturers Minna Poranen and Janne Ravantti

Other information: Course web-pages: http://www.helsinki.fi/biotieteet/yleinenmikrobiologia/528012virologianharjoitus.htm

The course is given in Finnish unless otherwise required (in English)

(Return to Track 2a or 3c)

51083 Receptors and Signals, 3 ECTS credits

Time: Autumn term, period II (2.11.-14.12.2010, Tue at 14-16)

Place: Biocenter 2, seminar room 3041

21

Preceding studies: The course requires background on basic biochemistry and cell biology and is suitable for both undergraduate and graduate students of molecular biosciences and related fields. B.Sc. or equivalent studies is recommended

Contents: The course seeks to provide knowledge on structural, molecular and cellular biology of membrane receptors and their signalling mechanisms. The main focus is on neuronal signalling (ionotropic and metabotropic receptors) but parallels to other systems and general principles of membrane receptor -based signalling will be explored as well. Detailed contents and program of the course change annually and will depend on the number of participants.

Student homework and reading assignments will be made at the first class.

Requirements for passing the course: Regular attendance, activity in discussions, and an oral presentation and a written essay on a given topic are required to pass the course, and will be evaluated.

Responsible person: Prof. Kari Keinänen


52931 Exercises in Protein Analysis, 5 ECTS credits

Time: Autumn term, period II (15.11.-30.11.2010, Mon-Fri at 12-17)

Place: INFO 170

Preceding studies: 52739 Genetic bioinformatics or equivalent knowledge

Contents: Practical course where we aim to infer protein function and structure as well as possible from the amino acid sequence. Tools include public web servers

Study materials and literature: Material provided during the course

Completion: The course contains guided exercises and a group work where a target protein is analyzed

Evaluation: Written report. Grading scale: 0-5

Responsible person: Prof. Liisa Holm

Other information: The exercises are given in Finnish unless otherwise required (in English)


529016 High Throughput Genetic Mapping in Plants, 5 ECTS credits

Time: Autumn term, period II (29.11.-10.12.2010, Mon-Fri at 9-17)



Objective and Contents:


Completion: Exercises


Responsible persons: Univ. lecturer Jing Li

(Return to Track 1 or 2b)


529014 Epigenetics, 3 ECTS credits

Time: Spring term, period III (10.1.-7.2.2011, Mon and Wed at 8.30-10)

Place: INFO 2

Contents:

Study materials and literature: Lecture material and review articles

Completion: Lectures and literature


Responsible person: Prof. Minna Nyström

(Return to Track 1 ,

2b

and 4b)

22

510023 Origin of Biodiversity, 3 ECTS credits

Time: Spring term, period III (11.1.-1.2.2011, Tue at 12-14)


Preceding studies: -

Objective and Contents : The objective is to acquire an overall understanding of evolution from atoms to biosphere on the basis of probable flows of energy. The statistical description unravels, what evolution is and how natural selection works to comprehend diverse molecular and cellular phenomena as well as various ecological concepts and relationships. The required concepts of probability, physical chemistry and mathematics of non-linear dynamics will be taught.

Study materials and literature: Hand-outs from the lectures.

Exams:

Evaluation: Lectures, calculations, essays. Calculations and written short essays graded at the scale 0-5.

Responsible person: Prof. Arto Annila


52728/81085 Plant Biotechnology and Molecular Biology (KBIOT300), 5 ECTS credits

Time: Spring term, period III (10.1.-24.2.2011, Mon and Thu at 9-12)


Preceding studies: Basics in biochemistry and molecular biology

Objective: Learning of different aspects of plant biotechnology and molecular biology

Contents: Lectures will familiarize students with structures and function of plant genome;

Molecular biology of Agrobacterium-mediated gene transfer; Pathways to plant secondary metabolites; Molecular basis of vegetative-reproductive transitions and flower development;

Structure and function of cytoskeleton proteins; Molecular biology of light perception and signal transduction in plants; Molecular basis of abiotic and biotic stress responses in plants; Forest biotechnology; Plant secondary metabolism; Basics of plant gene isolation methods and gene transfer methods to plants; Basics for legislation and risk assessment of plant biotechnology;

Introduction to applications and ethics of plant biotechnology.

Study materials and literature: Lecture material + additional reading given by the lecturers in the net (Bb). Literature: Buchanan, B.B, Gruissem, W & Jones, R.L, 2002: Biochemistry and

Molecular Biology of Plants. 1408 pages (relevant parts)

Completion: Lecture course, short essay

Evaluation: Short written assignment, final examination. Grading scale: 0-5

Responsible persons: Prof. Teemu Teeri (Faculty of Agriculture and Forestry), Univ. lecturer.

Pekka He ino and Prof. Jaakko Kangasjärvi (Faculty of Biological and Environmental Sciences)

Other information: The lectures are given jointly by the Faculty of Agriculture and Forestry and the Faculty of Biological and Environmental Sciences


51114 Membrane Biochemistry, 3 ECTS credits

Time: Spring term, period III (20.1-28.4.2011, Thu at 10-12)


Contents: The course is composed by lectures by Prof. Gahmberg and seminars given by the students on topics related to membranes. Lipids, carbohydrates and proteins found in membranes of eukaryotic cells are described, their disposition in membranes, how they are studied and their major functions. The students choose a seminar topic and write a synopsis 1-2 pages long. Cellular membranes are dealt with in most major text books of biochemistry and cell biology, but sometimes the information may be outdated. The examination covers all lectures.

Previous studies: The basic biochemistry course A, 51015 final biochemistry examination(6 sp) or corresponding studies.

Evaluation: Lectures and seminars. The students choose a seminar topic and write a synopsis

23

1-2 pages long. The examination covers all lectures: The final mark is the mean of the examination and the student's seminar and is graded 0-5. The final grading is the mean of the seminar given by the student and the written examination.

Responsible person: Prof. Carl Gahmberg


52518/81028 Laboratory Course in Plant Biotechnology (KBIOT301), 5 ECTS credits

Time: Spring term, period III-IV (21.2.-4.3.2011 Mon-Fri at 13-18; 8.3.-17.3.2011 Tue-Thu at 13-

18; 23.3.2011 Wed at 13-18; 13.4.2011 Wed at 13-18; 27.-28.4.2011 Wed-Thu at 13-18)

Place: C-building, course lab 144

Preceding studies: Basics in plant molecular biology. 52728/81085 (KBIOT300) Plant biotechnology and molecular biology lecture serie obligatory

Objective: Objective of the course is to learn the basic techniques in plant cell culture and plant gene transfer

Contents: The laboratory practices include relevant techniques in plant cell culture (callus and suspension cultures, haploid cultures, protoplast isolation and micropropagation) as well as techniques related to plant gene transfer methods (Agrobacterium-mediated and direct gene transfer methods, use and analysis of reporter genes)

Study materials and literature: Course manual and scientific articles


Evaluation: Laboratory report. Grading scale: Pass/fail

Responsible person: Prof. Teemu Teeri (Faculty of Agriculture and Forestry) and Univ. lecturer Mika Kotilainen (Faculty of Biological and Environmental Sciences)

Other information: The course is given jointly by the Faculty of Agriculture and Forestry and the Faculty of Biological and Environmental Sciences. Maximum 14 students are accepted to the course. MBIOT quota 2+2.


51070 Advanced Molecular Biology, 4 (2+2) ECTS credits

Time: Spring term, period III (exact time provided later)

Place:

Preceding studies: Recommended for Master ’s students, majoring in molecular biology or related

Objective: To understand the state-of-the-art methodology in the field and to learn about the recent developments and future prospects in the field.

Study materials and literature: Shared lecture notes produced collectively by Wiki. Includes lecture notes and the relevant chapters in: Watson et al. Molecular Biology of the Gene, 5th Ed.,

2004, Pearson. Also material provided by lecturers.

Evaluation: Lectures and contribution to Wiki (2 credits) and seminars (2 credits). An exam based on the lecture material (0-5)

Responsible person: Univ. lecturer Suvi Taira


52912 Genomes, 3 ECTS credits

Time: Spring term, period IV (11.4.-23.5.2011, Mon at 12-16)

Place: INFO 2

Preceding studies: Basics in biosciences and molecular genetics

Objective: To understand the structure and dynamic nature of genomes and understand the basic methods that are used in genome level analysis of gene structure and function

Contents: The lectures will focus on organization and function of genetic material. The following topics will be covered: Genome elements. Structure and organization of genomes.

Single genes vs. multigene families. Large scale EST and genomic sequencing. Functional genomics.

24

Study materials and literature: Lecture material and additional material provided by the lectures



Grading scale: 0-5


(Return to Tracks 1, 2a, 2b, 3a, 3b, or 3c)

52936 Gene Regulation in Eukaryotes, 3 ECTS credits

Time: Spring term, period IV (12.4.-17.5.2011, Tue and Thu at 14-16)


Objective: To provide a general view of regulation in eukaryotes

Contents: The lectures will focus on expression of genetic material in eukaryotic cells, especially on regulation of gene expression on different levels. Topics covered by the lecture include: Transcriptional complexes and initiation of transcription, chromatin structures in relation of gene expression, transcriptional regulators and their mode of action, post-transcriptional gene regulation, genetic networks and their coordinated regulation by internal and external signals

Study materials and literature: Lecture material and additional material provided during the lectures


Evaluation: Examination. Scale: 0-5


(Return to Track 2a, 2b,

3a

, 3b, 3c, or 4b)

52939 From Genomes to Gene Function, 6 ECTS credits

Time: Spring term, period IV (3.5.-27.5.2011, Tue-Fri at 13-17. 30.5.2011, Mon at 13-17)



Basics of bioinformatics. The “Genomes” lectures, if not taken previously, need to be completed during the course

Contents: A problem-based approach starting with sequence database searches and ending with functional characterization of specific genes

Study materials and literature: Course manual and material distributed during the course

Completion: Practical course

Evaluation: Examination and presentations.

Grading scale: 0-5

Responsible person: Univ. lecturer Jing Li

(Return to Track 1, 2a, 2b, 3a, 3b, 3c, or 5)

52930 Protein Analysis, 3 ECTS credits

Time: Spring term, period ? (exact time provided later)

Place:

Preceding studies: Geneettinen bioinformatiikka (52739)

Contents: Protein sequence and structure analysis based on Mount: Bioinformatics - sequence and structure analysis. Focus is on biological applications

Study materials and literature: Lecture material, Literature: Lesk, Introduction to

Bioinformatics, Oxford

Completion: Lectures and excercises


Responsible person: Prof. Liisa Holm

Other information: The course is given in Finnish unless otherwise required (in English)


52986 Innate Immunity of Plants, 2 ECTS credits

Time: Spring term, period IV, in uneven years (next time in spring 2011, exact time provided later)

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Contents: The course will be organised as a seminar series covering different aspects of plant defence mechanisms and defence signalling. Lectures will be given by invited experts as well as speakers from the CoE

Completion: Requires active student participation, with seminars given by the students and discussed with the experts

Evaluation: Examination. NOTE! Attendance to the seminars is obligatory

Responsible persons: Prof. Tapio Palva and

Prof. Thorsten Nürnberger

Other information: Limited attendance. Organised together with the FGSPB



52747 Advanced Course in Plant Genomics and Molecular Biology, 9 ECTS credits

Time: At any time after an agreement with one of the group leaders of the CoE


Objective and contents: The course will familiarise students with the central methods and approaches in plant genomics and molecular biology along with topical research subjects.

Practical work to be done in research groups of the CoE and will include experimental planning, laboratory work, reporting and assessment of the results

Evaluation: Written reports. Grading scale: 0-5

Responsible persons: PIs of the CoE


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Alternative study units for MBIOT students organized by the Faculty of Agriculture and

Forestry (AF)


81331 Epidemiology and Ecology of Plant Pathogens (KPAT401/ME460), 5 ECTS credits

Time: Autumn term, period I (6.9.-27.9.2010, Mon and Wed at 10-12, 17.9.-1.10.2010 Fri 10-12.

Computer sessions Fri 24.9. and 1.10. at 12-14)

Place: C130 and A-building computer class 155A

Preceding studies: Basics in plant or forest pathology

Objective: To understand the factors and processes behind plant disease epidemics in forest and agricultural ecosystems.

Contents: Basic epidemiology and examples. The biological background for epidemics, risk assessment, epidemiological mechanisms and modelling.

Study materials and literature: Wolfe, M.S. & Caten, C.E. eds. 1987. Populations of Plant

Pathogens, Their Dynamics and Genetics. Blackwell Scientic Publications.

B.M. Cooke, D. Gareth Jones and B. Kaye (eds).2006: The Epidemiology of Plant

Diseases.Springer, Dordrecht.

Completion: Lectures, practical work, independent study.

Evaluation: Examination 70%, lab report 15%, individual project 15%. Grading scale: 0-5

Responsible person: Univ. lecturer Risto Kasanen and Dr Asko Hannukkala


830114 Basic Biotechnology in Forestry (ME363), 5 ECTS credits

Time: Autumn term, period I (6.9.-20.10.2010, see the detailed program in WebOodi )

Place: B-building, seminar room 433 (see the details in WebOodi )

Contents: Biotechnology and its allied areas of bioresource science and genomics is a rapidly developing field of study with considerable benefits not just for agricultural, environmental and medical sciences but also in forestry. The course however will primarily cover much of the applied aspects of biotechnology relevant to forestry.

Traditionally, humans have for centuries exploited forest organisms (trees & microbes) for their own benefits particularly in timber and fiber production, as a source of nutrition and also natural biocides. With the advent of biotechnology, there is an increasing demand for the use of biomass from forest trees as a renewable energy source as well as carbon sink to control global warming. Additionally, the root systems of certain tree species are also adaptable for use in phytoremediation of polluted soils or habitats. Equally, some microbes associated to forest trees are of potential biotechnological significance in the area of bioremediation of polluted ecosystems, industrial chemical processing and production (bioethanol), pharmaceuticals (antibiotics) and in biological control of pests. Biotechnology further offers opportunities through the use of genetics to expand or improve on many of these positive attributes of forest trees and associated organisms. The course will also address principles and ethical issues on genetical modified organisms (trees).

Completion: Lectures, seminars, literature discussions, independent and group work

Evaluation: Examination=80%, Report/seminars=20%

Responsible person: Prof. Fred Asiegbu


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8720094 Dairy Bioprocessing (ETT360), 6 ECTS credits

Time: Autumn and spring term, period I-IV (6.9.-19.12.2010)

Place:

Objective: To introduce to the common dairy processes covering from the raw milk cold chain to the microbiological quality control and shelf life of dairy products

Contents: The course consists of two parts equal in sizes:

Part I (period I) (3 credits): Raw milk microbiology, a laboratory course containing basic microbiological methods to enumerate total, aerobic, anaerobic, psychrotrophic, lipolytic and proteolytic spoilage bacteria and particular pathogens in raw milk, dairy process and product samples, and further isolate and preliminary identify the obtained isolates.

Part II (periods I - IV) (3 credits): A literature examination, relevant chapters from three dairy microbiology, technology and bioprocessing textbooks

Study materials and literature: Relevant literature and material provided during the course

Completion: Laboratory course and literature examinations

Evaluation: Examinations and laboratory reports

Responsible person: Prof. Tapani Alatossava and Patricia Munsch-Alatossava


81037 Molecular Methods in Applied Plant Genetics (JAL403/KBIOT403), 5 ECTS credits

Time: Autumn term, period I, in even-numbered years (7.9.-21.10.2010, Tue and Thu at 8-10)

Place: C130

Objective: To learn the range of molecular applications available. To understand their principles and the methodology used

Contents: Recent advances in the use of molecular methods in plant and forest tree breeding.

Marker-assisted selection, genetic transformation and genomics approaches are discussed in detail. Case studies prepared and presented by the students.

Study materials and literature: Relevant literature will be indicated during the course

Completion: Lecture course, case studies

Evaluation: Examination, case studies. Grading scale: 0-5

Responsible person: Prof. Teemu Teeri

(Return to Track 1, 2b, or 4a)

871074 Food Legislation and Control (EK131), 5 ECTS credits

Time: Autumn term, period I-II (8.9.-16.12.2010, Wed at 15-18, Thu at 12-15)

Place: B-building, lecture hall 6

Objective: Introduction to food legislation and control systems

Contents: European regulations on food, action of European Food Safety Authority (EFSA,)

Food control system in Finnish Food Safety Authority (EVIRA), Finland, case type studies (incl. national and EU legislations), Case study; food control systems in the retail market chains,

Control of imported goods, action of Finnish Custom Laboratory


Completion: Lectures, excursion to EVIRA

Evaluation: Examination and/or a written essay

Responsible person: Univ. lecturer Veli-Matti Ollilainen


850030 Biofuels (YKEM420), 5 ECTS credits

Time: Autumn term, period I, in uneven years (next time in autumn 2011)

Place:

Preceding studies: Chemically or biotechnically oriented bachelor degree or corresponding knowledge required

Objective: To give an overall insight into biotechnical methods for the production of biofuels from renewable resources. Biofuels include ethanol, butanol, biodieseloils, hydrogen and methane.

28

Contents: Utilization of biotechnical methodologies for the production of biofuels: enzymology and fermentation of of renewables into various fuels.

Study materials and literature: To be informed

Completion: Lectures, seminars, independent study

Evaluation: Examination

Responsible person: Prof. Liisa Viikari

Other information: The course will be held in English or Finnish (depending on the attending students)


864050 Forest Microbiology and Biotechnology (YBIOT570), 5 ECTS credits

Time: Autumn term, period I, every third year (11.10.-22.10.2010, Mon-Fri at 9-16)

Preceding studies: Bachelor's degree in biosciences, forestry or related subjects

Objective: Introduction to the diversity of microbes within forests and forest ecosystems, and biotechnological application of microbes derived from their natural environments

Contents: Forest excursion, taking and treatment of microbiology samples from forests and forest soil, visits to research institutes and forest-based factory, laboratory work and demonstrations, lectures and scientific presentations

Study materials and literature: Laboratory instructions, selected scientific reading and research articles

Completion: Lectures and seminar 30 h, instructed group work 75 h, group work 10 h, independent work 20 h. The course comprises lectures, forest excursion trip, laboratory demonstrations and group work, oral presentation, and writing of the course report.

Evaluation: Accepted writing of the course report and given study tasks, oral presentation, seminar attendance and participation. Grading scale: 0-5

Responsible person: Prof. Annele Hatakka

Other information: The course is given every third year (NOVA collaboration)


81045 Breeding of Agricultural and Horticultural Crop Plants (JAL504), 5 ECTS credits

Time: Autumn term, period I, in uneven years (next time autumn 2011)

Place:

Preceding studies: Basic knowledge in plant genetics and breeding

Objective: Familiarization with national and international breeding of agricultural and horticultural crop plants

Contents: Introduction to the practical breeding of agricultural and horticultural plants. Lectures by expert breeders. Presentations by students

Study materials and literature: Relevant literature will be indicated during the course.

Completion: Lectures and presentations

Evaluation: Examination (70 %) and presentation (30 %). Grading scale: 0-5.

Responsible person: Prof. Teemu Teeri

(Return to Track 2b )

81356 Plant Virology (KPAT404/ME466), 5 ECTS credits

Time: Autumn term, period II, in even years (1.11.-15.12.2010, see the detailed program in

WebOodi . Exam on 17.12.2010 Fri at 12-15)

Place: C130 and C144 (see the details in WebOodi)

Preceding studies: Basic knowledge in gene technology, microbiology and plant or forest pathology

Objective: To learn to know the most common viral diseases of cultivated plants and their control, viral particle and genome structures and plant virus infection cycles. To learn the different diagnostics methods that are used to detect plant viruses.

29

Contents: Identification, biology, spread and control of viruses causing plant diseases in cultivated plants. Plant viral infection cycles and virus particle structures. Diagnostics, especially serological and molecular diagnostics methods, are included in practical laboratory exercises.

Study materials and literature: Agrios, G.N. 2006. Plant Pathology. 5th ed. Academic Press,

Hull, R. 2002. Matthews’ Plant Virology. 4th ed. Academic Press.

Completion: Lecture course, laboratory work, independent study

Evaluation: Examination and laboratory report. Grading scale: 0-5

Responsible person: Prof. Jari Valkonen and Dr Minna Rajamäki

(Return to Track 2a or 2b )

830113 Forest Microbiology (ME362), 8 ECTS credits

Time: Autumn term, period II (1.11.-17.12.2010, see the detailed program in WebOodi )

Place: B-building, seminar room 433 and course lab k176

Objective: The course covers the many functions of microorganisms in the uptake and cycling of nutrients in forest ecosystems, microbial parasitic and symbiotic interactions with trees, decomposition of forest litter and wood debris. Specifically, the microbiology of living roots, stems, needles and leaves of forest trees will be addressed. Systematics of microbes involved in nutrient cycling will also be discussed. Emphasis will be placed on the genetics, biochemistry, physiology, evolutionary biology and population dynamics of the microorganisms involved, as well as the exploitation of forest microorganisms in commercial & industrial processes, including phytoremediation and biological control. Current advances in these fields of study, made possible by use of novel and modern biological techniques will be demonstrated.

Completion: Lectures, practical work, demonstrations, seminars, literature discussions, independent and group work

Evaluation: Exam= 80%, project report= 20%

Responsible person: Prof.

Fred Asiegbu and Univ. lecturer Risto Kasanen


81406 Advanced Forest Mycology & Pathology (ME463), 10 ECTS credits

Time: Autumn term, period II (1.11.-17.12.2009, see the detailed program in WebOodi )

Place: B-building, seminar room 433 and course lab k176

Contents: The course will be primarily based on laboratory and individual project work sessions. It will cover current advances used in studies related to tree pathogens which are made possible with aid of novel and modern biological techniques. Additionally, the course will cover the microbiology of living roots, stems, needles and leaves. Specific focus will be on diseases affecting the various tissue organs of forest trees. The course will also address the many functions of fungi in the uptake and cycling of nutrients in forest ecosystems, microbial parasitic and symbiotic interactions with trees, decomposition of forest litter and wood debris.

Strong emphasis will be placed on the genetics, biochemistry, physiology, evolutionary biology & population dynamics of the microorganisms involved, as well as the exploitation of forest microorganisms in commercial & industrial processes, including biological control.

Completion: Lectures, practical work, demonstrations, seminars, literature discussions, independent and group work

Evaluation: Examination=80% Project report/seminars=20%

Responsible person: Prof. Fred Asiegbu


81100 Forest Tree Breeding (JAL505), 5 ECTS credits

Time: Autumn term, II period, in even years (2.11.-14.12.2010, Tue at 8-12)

Place: C-building, seminar room C130

Preceding studies: Basic knowledge in plant/forest genetics and breeding

30

Objective: To learn modern theories and practices in forest tree breeding

Contents: Recent results and theories concerning the physiological basis and restrictions of yield production implications for breeding. Patterns of adaptation and variation in forest trees with a special reference to northern environments

Study materials and literature: Relevant literature will be indicated during the course.



Responsible person: Prof. Pertti Pulkkinen


871072 Chemical Risk Factors (EK132), 5 ECTS credits

Time: Autumn term, period II (2.11.-16.12.2010, Tue at 12-15 and Thu at 9-12)

Place: Tue D-building, lecture hall D, Thu B-building, lecture hall 4

Objective: Introduction to the chemical hazards and risks related to foods

Contents: Chemical hazards: structures, reactivity, analytical methods, occurrance in foods or feeds. Significant for human health i.e chemical safety (occurrence, intake, ADI). Environmental aspects. Course deals with heavy metals, POPs, "the Dirty Dozen" compounds, nitrate, allergenes, natural born toxins, medicine residues, food additives, dietary supplements, hazardous compounds derived from food processing or food packaging, pesticide residues




Responsible person: Univ. lecturer Veli-Matti Ollilainen


8720092 LAB Starters (ETT340), 3 ECTS credits

Time: Autumn term, period II (8.11.-19.11.2010)

Place:

Objective: Introduce the students to most common lactic acid bacteria (LAB) used as starters in food industry and to the basic methods used for LAB cultivation and identification

Contents: Basic microbiological methods to cultivate, enumerate and isolate lactococci, streptococci and lactobacilli. Identification of LAB starter strains isolated from various fermented foods. Analysis of commercial probiotic Lactobacillus strains


Completion: Laboratory course including a couple of lectures

Evaluation: Examination + laboratory reports

Responsible person: Prof. Tapani Alatossava


81357 Plant Pathogenic Bacteria (KPAT405/ME467), 5 ECTS credits

Time: Autumn term, II period, in uneven years (next time in autumn 2011)

Place:

Preceding studies: Basic knowledge in gene technology, microbiology and plant or forest pathology

Objective: To learn to know the most common plant pathogenic bacteria and their control, infection cycles and molecular and taxonomic features. To learn the different diagnostics methods that are used to detect plant pathogenic bacteria.

Contents: Biology, morphology, spread and control of bacteria causing plant diseases in cultivated plants. Isolation of plant pathogenic bacteria from diseased samples and identification of the isolates with biochemical and molecular diagnostic methods are included in the practical laboratory exercises.

Study materials and literature: Agrios, G.N. 2006. Plant Pathology. 5th ed. Academic Press.

Schaad, N.W., Jones, J.B. & Chun, W.

31

2001 (eds.) Laboratory Guide for Identification of Plant Pathogenic Bacteria, APS Press. Agrios,

G.N. 2006. Plant Pathology. 5th ed.

Academic Press.

Completion: Lectures, practical work, independent study.

Evaluation: Examination and laboratory report, Scale 0-5


Minna Pirhonen

(Return to Track 2a or 2b )


81085/52728 Plant Biotechnology and Molecular Biology (KBIOT300), 5 ECTS credits

Time: Spring term, period III (10.1.-24.2.2011, Mon and Thu at 9-12)


Preceding studies: Basics in biochemistry and molecular biology

Objective: Learning of different aspects of plant biotechnology and molecular biology

Contents: Lectures will familiarize students with structures and function of plant genome;

Molecular biology of Agrobacterium-mediated gene transfer; Pathways to plant secondary metabolites; Molecular basis of vegetative-reproductive transitions and flower development;

Structure and function of cytoskeleton proteins; Molecular biology of light perception and signal transduction in plants; Molecular basis of abiotic and biotic stress responses in plants; Forest biotechnology; Plant secondary metabolism; Basics of plant gene isolation methods and gene transfer methods to plants; Basics for legislation and risk assessment of plant biotechnology;

Introduction to applications and ethics of plant biotechnology.

Study materials and literature: Lecture material + additional reading given by the lecturers in the net (Bb). Literature: Buchanan, B.B, Gruissem, W & Jones, R.L, 2002: Biochemistry and

Molecular Biology of Plants. 1408 pages (relevant parts)

Completion: Lecture course, short essay

Evaluation: Short written assignment, final examination. Grading scale: 0-5

Responsible persons: Prof. Teemu Teeri (Faculty of Agriculture and Forestry), Univ. lecturer.

Pekka Heino and Prof. Jaakko Kangasjärvi (Faculty of Biological and Environmental Sciences)

Other information: The lectures are given jointly by the Faculty of Agriculture and Forestry and the Faculty of Biological and Environmental Sciences


864065 Food Microbiology (MIKRO231), 5 ECTS credits

Time: Spring term, period III (17.1.-4.3.2011, Mon 12-16 and Fri 14-16)

Place: INFO 4

Relations to other study units: Basics in microbiology

Objective: Basics of food and water microbiology

Contents: Water and food standard methods of analysis, food pathogens, microbiological spoilage of food, fermentation products. Microbiological safety in food production.

Microbiological quality of drinking water.

Study materials and literature: J.M Jay et al. Modern Food Microbiology, seventh edition.

Springer Science + Business media Inc. 2005, NY, USA. Parts I, II, III,V and VI. In addition the materials of the lectures are found on the Moodle platform.

Completion: Lecture course, group work

Responsible person: Prof. Per Saris

Other information: The lectures are given in Finnish, but the course can be taken as a literature examination in English


32

81352 Plant-Microbe Interactions and Molecular Defence of Plants (KPAT501/ME560), 10

ECTS credits

Time: Spring term, period III (17.1.-16.3.2011, see the detailed program in Weboodi )

Place:

Preceding studies: This is an advanced course in molecular plant pathology and therefore previous knowledge of plant pathology and/or plant or molecular biology is required

Objective: To understand the molecular mechanisms of pathogenesis and virulence in plant pathogens, the molecular basis of symbiotic interactions, and the genetic basis and molecular mechanisms of disease resistance in plants.

Contents: The biology of pathogen infections, plant defence responses and symbiotic interactions at the molecular level. The course includes laboratory work sessions

Study materials and literature: Will be given during the course

Completion: Lectures, laboratory exercises, group work and independent study

Evaluation: Examination and report. Grading scale: 0-5


Minna Pirhonen and Dr. Minna Haapalainen

Relations to other study units: The course will be organised jointly and taught simultaneously with the Swedish University of Agricultural Sciences (SLU). It is also included as PhD course within Viikki Graduate School in Molecular Biosciences

Other information: For the arrangements, see the course home page: http://www.mm.helsinki.fi/MMSBL/english/research/Kpat/CPPE/Index.htm

(Return to Track 2a or 2b)

8720024 Potential Novel Processing Technologies (ETT425), 5 ECTS credits

Time: Spring term, period III (17.1.-4.3.2011)

Place:

Objective: To get familiar with potential new food processing technologies and to evaluate the possibilities and limitations of these methods

Contents: Working in small teams, students will study the literature related to a potential novel food processing method, write a report on the method and teach it to other students in the class.


Completion: Group work

Eveluation: Examination (50%) + report and teaching and acting as an opponent (50%)


NN and Univ. lecturer Kirsi Jouppila


81576 Molecular Genetic Markers in Animal Breeding (KEJAL/KEBIOT440), 5 ECTS credits

Time: Spring term, period III, in uneven years (next time in spring 2011, exact time provided later)

Place: Course and research laboratories at the Dept. of Agricultural Sciences

Preceding studies: Basics in biochemistry and animal biotechnology

Objective: Students learn to work in a DNA laboratory and how to use molecular genetic markers in DNA diagnostics and in other applications of animal breeding and genetics

Contents: Journal club, principles of working in a DNA laboratory, collecting samples and extracting DNA, the utilization of DNA sequences, selection of genetic markers, DNA amplification, genotyping of microsatellite markers, parentage testing and pedigree checking, construction of linkage map, visit to a DNA diagnostics laboratory

Study materials and literature: Course material provided during the course

Completion: Laboratory course, seminars

Evaluation: Participation in journal club, demonstrations and laboratory work and report

Responsible person: Univ. lecturer Kari Elo

33

Other information: The lectures are given in Finnish unless otherwise required (in English).

The number of students is restricted to 8.


81028/52518 Laboratory Course in Plant Biotechnology (KBIOT301), 5 ECTS credits

Time: Spring term, period III-IV (21.2.-4.3.2011 Mon-Fri at 13-18; 8.3.-17.3.2011 Tue-Thu at 13-

18; 23.3.2011 Wed at 13-18; 13.4.2011 Wed at 13-18; 27.-28.4.2011 Wed-Thu at 13-18)


Preceding studies: Basics in plant molecular biology. 52728/81085 (KBIOT300) Plant biotechnology and molecular biology lecture serie obligatory

Objective: Objective of the course is to learn the basic techniques in plant cell culture and plant gene transfer

Contents: The laboratory practices include relevant techniques in plant cell culture (callus and suspension cultures, haploid cultures, protoplast isolation and micropropagation) as well as techniques related to plant gene transfer methods (Agrobacterium-mediated and direct gene transfer methods, use and analysis of reporter genes)

Study materials and literature: Course manual and scientific articles



Responsible person: Prof. Teemu Teeri (Faculty of Agriculture and Forestry) and Univ. lecturer Mika Kotilainen (Faculty of Biological and Environmental Sciences)

Other information: The course is given jointly by the Faculty of Agriculture and Forestry and the Faculty of Biological and Environmental Sciences. Maximum 14 students are accepted to the course. MBIOT quota 2+2.


812010 Laboratory Course in Plant Molecular Biology (KBIOT401), 5 ECTS credits



Preceding studies: Basics in gene technology and plant molecular biology

Objective: Learning of some key techniques and applications in plant molecular biology and genome-wide analysis

Contents: Construction of cDNA libraries; Basics of sequence analysis; Use of microarrays for analysis of gene expression and pathogen diagnostics; Data analysis by means of bioinformatics; Analysis of gene expression using RT-PCR




Responsible person: Prof. Teemu Teeri and Prof. Jari Valkonen

Other information: Priority in advanced level students.


81039 Selection Breeding and Experimental Designs (JAL401), 5 ECTS credits


Objective: To understand the process of selection breeding and to learn how to plan experiments in plant breeding and forest tree breeding

Contents: The role of genotype, environment, G*E interaction and random effects in determining variation in plants. The structure of breeding trials to separate genetic and environmental effects. Applications of selection work


Completion: Lectures and presentations

Evaluation: Examination 70% and presentation 30%. Grading scale: 0-5


Teemu Teeri

34


864062 Biotechnology of Fungi and Renewable Natural Materials (YBIOT525), 5 ECTS credits

Time: Spring term, period IV (14.3.-28.4.2011, Mon at 14-16, Wed at 14-16, Thu at 16-18)

Place: INFO 4

Preceding studies: Basics in microbiology

Contents: Fungi as living organisms; ecology and biotechnology of fungi; degradation of organic matter by fungi; details of fungal exoenzymes in wood decay; edible fungi; applications and use of fungi in pulp and paper industry


Completion: Lectures, written exercises, oral presentation

Evaluation: Home examination, written exercises, oral presentation

Responsible person: Prof. Annele Hatakka

Other information: The lectures are given in Finnish unless otherwise required (in English)


850029 Biorefineries (YKEM410), 5 ECTS credits

Timing: Spring term, period IV (14.3.-20.4.2011, Mon and Wed at 9-12)

Place: INFO 4

Preceding studies: Bachelor degree or corresponding knowledge

Objective: To give an overview on present and future on agroor forestrybased biorefineries and their valuechains with a special emphasis on biotechnology

Contents: The focus is on biotechnical methods and processes, but also other relevant methodologies are reviewed (background and drivers, chemistry and biotechnology of raw materials, bioenergy and biofuels, and various biorefinery concepts in agriculture and forestry)

Study materials and literature: Lecture material, articles on the topics

Completion: Lectures, independent study

Evaluation: Examination

Responsible person: Prof. Liisa Viikari

Other information: Joint course with HUT, lectures in Viikki and Otaniemi (detailed information later). The course will be held in English (or Finnish depending on the attending students)


871073 Basic Toxicology and Risk Assessment (EK133), 5 ECTS credits

Time: Spring term, period IV (14.3.-20.5.2011, Mon at 12-14, Fri at 13-15)

Place: D-building, lecture hall D

Preceding studies: Basics in chemistry and biochemistry

Objective: Understanding the principles of safety assessment of food and food ingredients

Contents: Basic principles of toxicology (clinical testing, basic concepts), principles of nutritional physiology, metabolic reactions of chemical risk factors, principles of risk assessment




Responsible person: Univ. lecturer Marina Heinonen


8720091 Fermentation Technology (ETT330), 3 ECTS credits

Time: Spring term, period IV (14.3.-22.5.2011)

Place:

Objective: Introduction to food and biotechnological fermentations and fermentors

35

Contents: Experimental fermentations: Lactic acid bacteria fermentation and Escherichia coli and insect cell cultures for recombinant protein production


Completion: Lecture series (8 h), demonstrations, three practical laboratory excercises with written reports

Evaluation: Examination + laboratory reports


Tapani Alatossava


87145 Vitamins and other Bioactive Compounds (EK221), 5 ECTS credits


Place:

Preceding studies: Basics in chemistry and biochemistry

Objective: Understanding the chemistry and reaction mechanisms of vitamins and other bioactive compounds

Contents: Chemical and biochemical properties, modes of action (bioactivities) and analytical methods of vitamins and other bioactive compounds including carotenoids, flavonoids and phenolic acids, phytoestrogens, purines and phytosterols

Study materials and literature: Damodaran, S., Parkin, K.L., Fennema, O.R. Fennema's Food

Chemistry, 4. painos, CRC Press Inc., New York, 2007; Belitz, H.-D., Grosch, W., Schieberle, P.

Food Chemistry. 3. painos, Springer, Berlin, 2004 ; Other relevant literature will be indicated during the course

Completion: Lectures, written exercises

Evaluation: Examination, written exercises



81041 Conservation of Plant Genetic Resources (JAL402) 5 ECTS credits


Place: C-building, seminar room 130

Objective: Becoming acquainted with the importance of genetic variation and plant genetic resources, to learn methods of assessing and conserving genetic resources.

Contents: The nature of biological diversity, applications of ecological genetics to plant breeding, practical management of germplasm. Presentations by students.


Completion: Lectures, study diary and presentations.

Evaluation: Study diary 70% and presentation 30%. Grading scale: 0-5

Responsible person: Univ. lecturer Helena Korpelainen


87295 ABS Course on Functional Foods, 3 - 5 ECTS credits

Time: Spring term, period IV, in even years (next time in spring 2012 )

Objective and contents: The course will give an update on current interest in the field of functional foods and their development including views on scientific evidence to substantiate health claims, legislative boundaries, and existing and up-coming products on the market.

Special interest will be given to selected topics: cardiovascular health, gut and bone health, and the importance of weight control in reducing the risk of certain diseases. In addition to information given by experts in their presentations the course include group work targeted for possible development of functional foods.

Completion: Lectures, group work



36


8720051 Dairy Technology 6 (ETT650), 1 - 9 ECTS credits

Time: Autumn or spring term

Preceding studies: Basics in food technology

Contents: Advanced lectures, seminars and group work in dairy technology

Study materials and literature: Relevant literature will be indicated during the courses

Completion: Lecture series, seminars, group work

Evaluation: Examination, written reports

Responsible person: Prof. Tapani Alatossava

Other information: Lectures, seminars and group work in Finnish or English, some parts can also be taken as a literature examination in English


871066 Basic Studies in Food Science (Elintarviketieteiden perusopinnot), 25 ECTS credits

Contents:



EK110 Basics of Food Chemistry (Elintarvikekemian peruskurssi), 3 ECTS (in Finnish)

 ETT140-170 Basics of Food Technology, 2 courses (Elintarviketeknologian peruskursseja,

2 kurssia), 5 ECTS (in Finnish)



RAV090 Introduction to Nutritional Sciences (Johdatus ravitsemustieteeseen), 4 ECTS (in

Finnish)

 + 13 ECTS elective studies in Food Science (in Finnish or English)

Responsible persons: Prof. Vieno Piironen

Other information: This minor subject package is mainly given in Finnish


871070 Functional Foods Minor Subject (Funktionaaliset elintarvikkeet –sivuaine), 25

ECTS credits

Contents:

 EK224 Functional Foods and Novel Foods (Funktionaaliset elintarvikkeet ja uuselintarvikkeet), 5 ECTS (in Finnish)



EK130 Food Safety and Control (Elintarvikkeiden turvallisuus ja valvonta), 5 ECTS (in

Finnish)

 RAV 090 Introduction to Nutritional Sciences (Johdatus ravitsemustieteeseen), 4 ECTS (in

Finnish)

 A seminar serie in Functional Foods (Seminaari funktionaalisten elintarvikkeiden alalta) 3-5

ECTS (in English)

 + 8 ECTS elective studies in Functional Foods (in Finnish or English)


Other information: This minor subject package is mainly given in Finnish


529225 Laboratory Course on Plant Genomics, 3 ECTS credits

Curriculum 2010-2011

Degree Requirements and Recommendations 2010-2011

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Curriculum 2010-2011

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