Unit convenor and teaching staff |
Unit convenor and teaching staff
Lecturer
Robert Willows
Contact via robert.willows@mq.edu.au
E8A-203
TBA
Unit Convener
Abidali Mohamedali
Contact via abidali.mohamedali@mq.edu.au
CBMS Level 1, F7B 119
TBA
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Credit points |
Credit points
4
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Prerequisites |
Prerequisites
Admission to MRes
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Corequisites |
Corequisites
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Co-badged status |
Co-badged status
CBMS337/737/837
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Unit description |
Unit description
This unit outlines molecular principles underlying today's developments in cell biology and advanced biochemistry which are central to our understanding of medicine and biotechnology. Advances in these fields are dependent on a detailed understanding of the molecular basis of many diverse cellular processes. This unit links important biochemical processes to functions and properties of eukaryotic cells. It explores advanced concepts including enzyme function, properties of membranes, signal transduction, protein trafficking, transport, and protein turnover. These are linked to whole-cell behaviours such as cell division, differentiation, programmed cell death, cell signalling and communication, and general responses to external stimuli. Practical work complements lecture material and provides experience with a broad range of current techniques used in research and industry.
Laboratory techniques used include analysis of signalling cascades, spectrophotometry, and fluorescence and light microscopy. The unit assumes a good understanding of the concepts of protein and membrane structure and function. These basic concepts will be used and built upon during the unit. Practical segments of the unit involve hands-on cell biology skills and introduce opportunities for critical data analysis and interpretation.
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Information about important academic dates including deadlines for withdrawing from units are available at https://www.mq.edu.au/study/calendar-of-dates
On successful completion of this unit, you will be able to:
Name | Weighting | Due |
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Practical Reports | 15% | iLearn schedule/consult staff |
Post Lecture Online Problems | 5% | Every Week |
Introduction and Methods | 5% | Week 6 |
Mid-Semester Exam | 10% | Week 7 |
Human Cell Atlas Assignment | 5% | Week 9 |
Hot Topics Seminar | 10% | Practicals (Week 12-13) |
Final Report | 10% | Week 13 |
Final Examination | 40% | University Examination Period |
Due: iLearn schedule/consult staff
Weighting: 15%
Practical reports will be due only for P2 and P3 (Hard copies to be submitted to the SCIENCE CENTRE) - All other practicals will be evaluated by a series of reflections post practical on iLEARN due one week from the practical date.
Due: Every Week
Weighting: 5%
Every lecture will have a thought problem for graduate students to attempt which will cover important aspects of the course. This will be worth 5% of the course mark and will be available on iLEARN post every lecture.
Due: Week 6
Weighting: 5%
An introduction and methods section is the first part of the final report to be submitted at the end of the semester. Feedback will be given which will improve the final report so it is essential that students submit this for marking.
Due: Week 7
Weighting: 10%
There will be a 60 min. exam (10% total assessment) held in the practical class of Week 7 (i.e., FRIDAY 11th September from 1.05 pm sharp). This will cover all materials and textbook reading associated with lectures 1-14. This is designed to give you specific feedback on your understanding of the topics up to this stage to assist you in your further study of the unit.
Due: Week 9
Weighting: 5%
Students will be required to prepare an illustrated one-two (1-2) page summary of the biochemistry and cell biology of TWO (2) of the ~230 known human cell types for entry into the CBMS Macquarie Human Cell Atlas database. Additional submissions will get bonus marks up to 5% (2.5% for each additional submission up to a Maximum of 5%)
Due: Practicals (Week 12-13)
Weighting: 10%
Prepare an individual presentation/seminar on one hot topic (currently trending) in molecular cell biology/biochemistry (A list of suggested topics will be provided on iLEARN but students can suggest their own for approval). 3% of the mark for this seminar will be allocated by your peers (averaged) and 7% by the staff.
Due: Week 13
Weighting: 10%
This report will be a cumulative scientific report (of P4-6) written in form of a peer reviewed journal article. The format of the submission will be for the international scientific journal PLoS ONE as per guidelines http://journals.plos.org/plosone/s/submission-guidelines. The style, formatting, layout, etc. MUST conform to this journal. Marking Criteria will be available on iLEARN.
Due: University Examination Period
Weighting: 40%
The final exam (40% total assessment) will be 3hr in length with 10min reading time. It is designed to address specific understanding of topics presented in all of the lectures, practicals and peer-assisted leaning exercises and to show that the knowledge you have obtained can be applied to new problems.
To integrate cell biology and biochemistry components of the course seamlessly to offer a basic understanding of cellular functions, interactions, signalling and properties. This culminates in a demonstration of cell function in cancer.
Timetable: Please check https://timetables.mq.edu.au/2012/default.aspx for the official timetable of the unit.
Prescribed Texts:
B. Alberts, A. Johnson, J. Lewis, M. Raff, K. Roberts, P. Walter (2015) "Molecular Biology of the Cell" (6th Edition), ISBN 978-0-8153-4432-3. Available at the Co-op and a few copies for reference in the library.
Your lectures will cover the generic parts of each chapter and you are strongly advised to read and understand the reminder of each Alberts et al., chapter as referred to in the lecture outline. This book is an absolute essential item for your future in any aspect of molecular and cellular biology.
CBMS737/837 lecture notes can be obtained from the CBMS737/837 unit web site.
Further reading material is also available in the library:
R. Garrett & C. Grisham (2008) "Biochemistry" (4th or earlier editions), Or any good Biochemistry textbook.
You are expected to access the unit iLearn web site on a frequent basis and to download all necessary pdf files. To access the unit web site, if you have off-campus Internet access, simply start your web browser and proceed as above for logging in. On-campus wireless access is also available. If you do not have your own computer you may wish to access the CBMS737/837 web resources on campus using the computers in the Library.
To view the lecture notes and other pdf files on the website, you will require Adobe Acrobat Reader Version 9 or later to be installed on your computer. Acrobat Reader can be downloaded from the Adobe website http://get.adobe.com/uk/reader/. If you are using the computers in the library, then Acrobat has already been installed.
We will also be using Lecture Tools (from iLEARN) and therefore you will be required to bring your laptop,tablet,smartphone to the lectures.
Please note information may also be sent by email to your student email account so please look at your student email account on a frequent basis.
Unit Web Page
The web page for this unit is at Macquarie's new learning management system website: http://ilearn.mq.edu.au
Login and follow prompts to CBMS737/837 Biochemistry and Cell Biology.
You are expected to access the unit web site frequently (i.e., almost daily). This site contains important information including lecture notes (that you will be expected to access (via lecture tools) in class), mid-semester exams and/or assignment.
Logging In: Type in the URL http://ilearn.mq.edu.au and find CBMS337/837/737. Your username is your Macquarie Student ID Number (MQID), which is an 8 digit number found on your student card. The password is your myMQ Student Portal password. This will be the original MQID password (2 random characters followed by your date of birth in ddmmyy format) that was sent to you on enrolment, unless you have already changed your password in the myMQ Student Portal. If you experience difficulties in getting your reprint or your password, please contact the StudentIT Desk (ph: 9850 6500).
CBMS737/837 is a 3-credit point half-year unit and will require an average of 9 hours of work per week (contact hours plus self-study time). For students with “weaker” biochemistry backgrounds, more time than the 9 hours per week will probably be necessary to perform satisfactorily in this unit.
CBMS737/837 consists of 2 hours of lectures and a 3 hour laboratory class every week. The unit is designed to allow you to develop an understanding of biochemistry and cell biology and the practical skills to undertake experiments in this field in an efficient and safe manner. The lecture material and laboratories complement each other and have been developed to increase your understanding of the topics so you can achieve the learning outcomes.
The purpose of practicals will be to develop higher level critical thinking skills in students and teach contemporary methods in cell studies and biochemistry.
The unit coordinator’s expectation is that you will:
· Attend all interactive lectures. If you cannot attend a lecture, you are expected to listen to the iLecture as soon as possible after it is made available.
· Demonstrate reasonable competence in all laboratory preparation exercises and attend each laboratory class/tutorial.
· Perform satisfactorily in the final exam and all other assessments.
· Spend an average of no less than 3 hours per week of private study in addition to direct contact.
If you prepare and attend all components of the unit and work consistently/continuously throughout the semester, you should be able to develop a strong understanding of biochemistry and cell biology and how it operates in the context of molecular cell biology.
Students who “memorise” just before final exams typically do poorly in this unit.
You are expected to use the lecture materials in the lectures (or bring them) so you can spend most of the time listening rather than transcribing. The lectures are interactive and you will be expected to have input in polls and discussions. Do not assume notes or iLectures are in any way a suitable substitute for attending lectures – lecturers put an effort into making the lectures up to date and relevant, whilst textbooks cannot not cover all examples or the latest research. Students historically fall behind and perform poorly if they do not attend lectures.
Learning is an active process, and as such you must engage with the material. This means downloading and reading lecture notes and relevant sections of the textbook (and beyond) before and after lectures are strongly recommended.
· The mid-semester exam will be run in a practical class.
· Laboratory prac classes are designed to develop basic laboratory skills, general safety practices and critical and analytical thought. In-lab and post-lab work are designed to allow you to appropriately record experimental observations and calculations in a detailed and accurate manner and assess your understanding of the theory behind experiments.
CBMS337 Biochemistry & Cell Biology 2015 Lecture Plan , subject to minor changes
Unit Coordinator: Dr. Abidali Mohamedali (AM) Lecturers: A/Prof Rob Willows (RW), A/Prof Mark Molloy (MM) and Professor Nicki Packer (NP)
Monday: E3A 133 Collaborative Forum (1pm-2pm) and Tuesday E3A130 (10am-11am)
Day | Lecture | Week | Monday | Lecturer | Lecture Title | Objectives |
Mon | 1 | 1 | 27-Jul | AM | Introduction | Universal Features of cells, diversity/similarity of genomes |
Tue | 2 | 28-Jul | RW | Cell Chemistry/ Bioenergetics 1 | Enzyme Kinetics | |
Mon | 3 | 2 | 3-Aug | RW | Cell Chemistry/ Bioenergetics 2 | Enzyme Kinetics |
Tue | 4 | 4-Aug | RW | Cell Chemistry/ Bioenergetics 3 | Enzyme kinetics and regulation | |
Mon | 5 | 3 | 10-Aug | RW | Biochemisty core | Evolution of Biochemical Pathways |
Tue | 6 | 11-Aug | RW | Protein function methods | Overview of methods of detecting interactions/function /Mutation analysis(Y2H, Biacore, MS etc) | |
Mon | 7 | 4 | 17-Aug | AM | Mathematical analysis of Cell functions | Modelling cellular reactions, modelling interactions, differential equations predict steady state, Combinatorial control etc. |
Tue | 8 | 18-Aug | MM | Studying cells in culture | Overview of Common methods of cell culture, hybridoma , transfection, Protein expression | |
Mon | 9 | 5 | 24-Aug | AM | Protein Function | Antibody binding, complex formation, phosphorylation, Ubiquitination, network of interactions |
Tue | 10 | 25-Aug | AM | Membrane transport | Principles of Membrane transport, Transporters (ATP Driven pumps, ATPase pumps, Na/K pumps etc.) | |
Mon | 11 | 6 | 31-Aug | AM | Electrical Properties of Membranes | Electrical transport, Action potentials, mechano receptors, Ca ion transport, neuronal functions |
Tue | 12 | 1-Sep | NP | Intracellular compartments /protein sorting 1 | Principles of compartmentalisation, Nuclear transport, transport to mitochondria and chloroplasts | |
Mon | 13 | 7 | 7-Sep | NP | Intracellular compartments /protein sorting 2 | Endoplasmic reticulum, protein folding, glycosylation , GPI anchors, membrane proteins |
Tue | 14 | 8-Sep | AM | Endo/exocytosis 1 | Molecular mechanisms of membrane transport ER>Golgi transport, | |
MID SEMESTER BREAK | ||||||
Mon | 15 | 9 | 28-Sep | AM | Endo/Exocytosis 2 | Trans Golgi Network transport to lysosome, Endocytosis and Exocytosis |
Tue | 16 | 29-Sep | AM | Cell Signalling 1 | Principles of Cell Signalling | |
Mon | 10 | 5-Oct | Labour Day | |||
Tue | 17 | 6-Oct | AM | Cell Signalling 2 | G=Protein coupled receptor signalling | |
Mon | 18 | 11 | 12-Oct | AM | Cell Signalling 3 | Enzyme Coupled Receptor Signalling and alternative signalling routes |
Tue | 19 | 13-Oct | AM | Cytoskeleton 1 | Actins and Myosin | |
Mon | 20 | 12 | 19-Oct | AM | Cytoskeleton 2 | Microtubules and IFilaments |
Tue | 21 | 20-Oct | AM | Cell Junctions | Cell-cell junctions, Cell-Matrix juctions | |
Mon | 22 | 13 | 26-Oct | AM | Extracellular Matrix | ECM, nature and function |
Tue | 23 | 27-Oct | MM | Cancer 1 | ||
Mon | 24 | 14 | 2-Nov | MM | Cancer 2 | |
Tue | 25 | 3-Nov | AM | Revision Lecture |
CBMS337/837/737 Biochemistry & Cell Biology 2015 Practical Session Plan
Practical Demonstrator: A/Prof Rob Willows + Abidali Mohamedali + Other demonstrators
Fridays 10am-1pm E3A130 and 2pm-5pm E3A130 (only if required)
Week | Practical | Day | Practical Schedule | Practical Report Schedule Due Dates |
1 | P1 | 31st July | Methods Development | |
2 | P2 | 7th Aug | Enzyme kinetics - Muscle pyruvate kinase Day 1 | |
3 | P3 | 14th Aug | Enzyme kinetics - Muscle pyruvate kinase Day 2 | |
4 | P4 | 21st Aug | Enzyme inhibition - Yeast hexokinase | Prac combined (P2+P3) Report |
5 | P5 | 28th Aug | Western blotting | P4 Report Due |
6 | P6 | 4th Sept | Western Blotting/ HPLC Demo | Prac 5 Reflections |
7 | P7 | 11th Sept | Mid Sem Exam | Prac 6 Reflections |
9 | P8 | 2nd Oct. | Immuno Flouresence/Biacore Demo | |
10 | P9 | 9th Oct. | Immuno Flouresence/Microscopy | Prac 8 Questions |
11 | P10 | 16th Oct. | FACS | Prac 9- Questions |
12 | P11 | 23rd Oct. | Hot Topics seminar | Prac 10- Questions |
13 | P12 | 30th Oct. | Hot Topics seminar |
Lecture & Practical timetable subject to change
Macquarie University policies and procedures are accessible from Policy Central. Students should be aware of the following policies in particular with regard to Learning and Teaching:
Academic Honesty Policy http://mq.edu.au/policy/docs/academic_honesty/policy.html
Assessment Policy http://mq.edu.au/policy/docs/assessment/policy.html
Grading Policy http://mq.edu.au/policy/docs/grading/policy.html
Grade Appeal Policy http://mq.edu.au/policy/docs/gradeappeal/policy.html
Grievance Management Policy http://mq.edu.au/policy/docs/grievance_management/policy.html
Disruption to Studies Policy http://www.mq.edu.au/policy/docs/disruption_studies/policy.html The Disruption to Studies Policy is effective from March 3 2014 and replaces the Special Consideration Policy.
In addition, a number of other policies can be found in the Learning and Teaching Category of Policy Central.
Macquarie University students have a responsibility to be familiar with the Student Code of Conduct: https://students.mq.edu.au/support/student_conduct/
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This graduate capability is supported by:
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This unit has been upgraded substantially since the last offering. The most salient features of the updates are the integration of state of the art technologies and methodologies in cell biology techniques, and a focus on critical thinking aspects. Besides this, students are expected to participate in contributing knowledge to the scientific community inform of an eventual peer reviewed journal article.