Unit convenor and teaching staff |
Unit convenor and teaching staff
Lecturer/ Unit Convener
Abidali Mohamedali
Contact via 9850 9292
CBMS Level 1, F7B 119
TBA
Lecturer
Robert Willows
Contact via abidali.mohamedali@mq.edu.au
E8A-203
TBA
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Credit points |
Credit points
3
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Prerequisites |
Prerequisites
CBMS223 and CBMS224
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Corequisites |
Corequisites
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Co-badged status |
Co-badged status
CBMS737 and CBMS837
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Unit description |
Unit description
Biochemistry and cell biology are central to our understanding of medicine and biotechnology. Advances in these fields are dependent on an advanced understanding of the molecular basis of diverse cellular processes. This unit links important biochemical processes to functions and properties of eukaryotic cells. We explore advanced concepts including: enzyme function, properties of membranes, signal transduction, protein trafficking and transport, and protein turnover. These are linked to whole cell behaviours such as cell division and differentiation, programmed cell death, 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.
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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:
Please refer to the Macquarie University Assessment policy regarding submission of assignments, plagarism, extensions, late submissions etc.
Name | Weighting | Due |
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Practical Reports | 15% | iLearn schedule/consult staff |
Introduction and Methods | 5% | Week 6 |
Post Lecture Study questions | 0% | Weekly |
Mid-Semester Exam | 10% | Week 7 |
Human Cell Atlas Assignment | 10% | 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: 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: Weekly
Weighting: 0%
This involves a series of questions after every lecture to help you study. Submitting answers to these questions can earn students up to 3% bonus points.
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: 10%
Prepare an illustrated one (1) page summary of the biochemistry and cell biology of one (1) of the ~230 known human cell types for entry into the CBMS337 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 PowerPoint presentation/seminar on a "hot topic" in molecular cell biology/biochemistry (List will be provided on iLEARN but students can suggest their own for approval). 3% 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 the form of a peer reviewed journal article. Submission will follow the international scientific journal PLoS ONE 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.
CBMS337 lecture notes can be obtained from the CBMS337 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 CBMS337 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 CBMS337 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 CBMS3376/837/737. 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).
CBMS337 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.
CBMS337 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 practical 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
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Assessment Policy http://mq.edu.au/policy/docs/assessment/policy.html
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In addition, a number of other policies can be found in the Learning and Teaching Category of Policy Central.
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Our graduates will also be capable of creative thinking and of creating knowledge. They will be imaginative and open to experience and capable of innovation at work and in the community. We want them to be engaged in applying their critical, creative thinking.
This graduate capability is supported by:
We want our graduates to have emotional intelligence and sound interpersonal skills and to demonstrate discernment and common sense in their professional and personal judgement. They will exercise initiative as needed. They will be capable of risk assessment, and be able to handle ambiguity and complexity, enabling them to be adaptable in diverse and changing environments.
This graduate capability is supported by:
Our graduates will have enquiring minds and a literate curiosity which will lead them to pursue knowledge for its own sake. They will continue to pursue learning in their careers and as they participate in the world. They will be capable of reflecting on their experiences and relationships with others and the environment, learning from them, and growing - personally, professionally and socially.
This graduate capability is supported by:
Our graduates will take with them the intellectual development, depth and breadth of knowledge, scholarly understanding, and specific subject content in their chosen fields to make them competent and confident in their subject or profession. They will be able to demonstrate, where relevant, professional technical competence and meet professional standards. They will be able to articulate the structure of knowledge of their discipline, be able to adapt discipline-specific knowledge to novel situations, and be able to contribute from their discipline to inter-disciplinary solutions to problems.
This graduate capability is supported by:
We want our graduates to be capable of reasoning, questioning and analysing, and to integrate and synthesise learning and knowledge from a range of sources and environments; to be able to critique constraints, assumptions and limitations; to be able to think independently and systemically in relation to scholarly activity, in the workplace, and in the world. We want them to have a level of scientific and information technology literacy.
This graduate capability is supported by:
Our graduates should be capable of researching; of analysing, and interpreting and assessing data and information in various forms; of drawing connections across fields of knowledge; and they should be able to relate their knowledge to complex situations at work or in the world, in order to diagnose and solve problems. We want them to have the confidence to take the initiative in doing so, within an awareness of their own limitations.
This graduate capability is supported by:
We want to develop in our students the ability to communicate and convey their views in forms effective with different audiences. We want our graduates to take with them the capability to read, listen, question, gather and evaluate information resources in a variety of formats, assess, write clearly, speak effectively, and to use visual communication and communication technologies as appropriate.
This graduate capability is supported by:
As local citizens our graduates will be aware of indigenous perspectives and of the nation's historical context. They will be engaged with the challenges of contemporary society and with knowledge and ideas. We want our graduates to have respect for diversity, to be open-minded, sensitive to others and inclusive, and to be open to other cultures and perspectives: they should have a level of cultural literacy. Our graduates should be aware of disadvantage and social justice, and be willing to participate to help create a wiser and better society.
This graduate capability is supported by:
We want our graduates to be aware of and have respect for self and others; to be able to work with others as a leader and a team player; to have a sense of connectedness with others and country; and to have a sense of mutual obligation. Our graduates should be informed and active participants in moving society towards sustainability.
This graduate capability is supported by:
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.
Date | Description |
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09/07/2015 | Co-badging and typographical corrections made. Rephrased some of the assessment tasks for clarity. |